pymol →
1.6.0.0-1.1 →
armhf → 2013-11-06 05:55:24
sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on bm-wb-03
╔══════════════════════════════════════════════════════════════════════════════╗
║ pymol 1.6.0.0-1.1 (armhf) 06 Nov 2013 05:32 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: pymol
Version: 1.6.0.0-1.1
Source Version: 1.6.0.0-1.1
Distribution: jessie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/pymol-9F25KE/pymol-1.6.0.0' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/pymol-9F25KE' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/jessie-staging-armhf-sbuild-3956d5bf-bb14-4bd9-84a5-caa0430a89a3' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
└──────────────────────────────────────────────────────────────────────────────┘
Get:1 http://172.17.0.1 jessie-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1 jessie-staging/main Sources [6965 kB]
Get:3 http://172.17.0.1 jessie-staging/main armhf Packages [8087 kB]
Ign http://172.17.0.1 jessie-staging/main Translation-en
Fetched 15.1 MB in 34s (436 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
└──────────────────────────────────────────────────────────────────────────────┘
Check APT
─────────
Checking available source versions...
Download source files with APT
──────────────────────────────
Reading package lists...
Building dependency tree...
NOTICE: 'pymol' packaging is maintained in the 'Svn' version control system at:
svn://anonscm.debian.org/debichem/unstable/pymol/
Need to get 8749 kB of source archives.
Get:1 http://172.17.0.1/private/ jessie-staging/main pymol 1.6.0.0-1.1 (dsc) [1394 B]
Get:2 http://172.17.0.1/private/ jessie-staging/main pymol 1.6.0.0-1.1 (tar) [8695 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main pymol 1.6.0.0-1.1 (diff) [52.7 kB]
Fetched 8749 kB in 2s (3775 kB/s)
Download complete and in download only mode
Check arch
──────────
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-effnDx/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
debconf: delaying package configuration, since apt-utils is not installed
0 upgraded, 1 newly installed, 0 to remove and 17 not upgraded.
Need to get 0 B/704 B of archives.
After this operation, 0 B of additional disk space will be used.
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 11477 files and directories currently installed.)
Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>> 7.0.50~), freeglut3-dev, libfreetype6-dev, libglew1.5-dev, libpng12-0-dev, python, python-dev, python-numpy, python-support (>= 0.4), texlive-latex-base
Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>> 7.0.50~), freeglut3-dev, libfreetype6-dev, libglew1.5-dev, libpng12-0-dev, python, python-dev, python-numpy, python-support (>= 0.4), texlive-latex-base
dpkg-deb: building package `sbuild-build-depends-pymol-dummy' in `/«BUILDDIR»/resolver-hbQELN/apt_archive/sbuild-build-depends-pymol-dummy.deb'.
OK
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install pymol build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
bsdmainutils cpp-4.8 debhelper file fontconfig-config fonts-dejavu-core
freeglut3 freeglut3-dev g++-4.8 gcc-4.8 gcc-4.8-base gettext gettext-base
groff-base intltool-debian libasan0 libasprintf0c2 libatomic1
libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libcairo2
libcroco3 libcups2 libcupsfilters1 libcupsimage2 libdrm-dev libdrm-nouveau2
libdrm-omap1 libdrm-radeon1 libdrm2 libegl1-mesa libexpat1 libexpat1-dev
libffi6 libfontconfig1 libfreetype6 libfreetype6-dev libgbm1 libgcc-4.8-dev
libgcc1 libgcrypt11 libgfortran3 libgl1-mesa-dev libgl1-mesa-glx
libglapi-mesa libglew-dev libglew1.7 libglib2.0-0 libglu1-mesa
libglu1-mesa-dev libgnutls26 libgomp1 libgpg-error0 libgraphite2-3 libgs9
libgs9-common libgssapi-krb5-2 libharfbuzz0a libice-dev libice6 libicu48
libidn11 libijs-0.35 libjasper1 libjbig0 libjbig2dec0 libjpeg8 libk5crypto3
libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 liblapack3 liblcms1
liblcms2-2 libllvm3.3 libmagic1 libopenjpeg2 libp11-kit0 libpaper-utils
libpaper1 libpipeline1 libpixman-1-0 libpng12-0 libpng12-dev libpoppler19
libptexenc1 libpthread-stubs0-dev libpython-dev libpython-stdlib
libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib
libsm-dev libsm6 libsqlite3-0 libssl1.0.0 libstdc++-4.8-dev libstdc++6
libtasn1-3 libtiff4 libunistring0 libwayland-client0 libwayland-server0
libx11-6 libx11-data libx11-dev libx11-xcb-dev libx11-xcb1 libxau-dev
libxau6 libxaw7 libxcb-dri2-0 libxcb-dri2-0-dev libxcb-glx0 libxcb-glx0-dev
libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-xfixes0 libxcb1 libxcb1-dev
libxdamage-dev libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6
libxfixes-dev libxfixes3 libxi6 libxml2 libxmu6 libxpm4 libxrender1
libxt-dev libxt6 libxxf86vm-dev libxxf86vm1 luatex man-db mesa-common-dev
mime-support po-debconf poppler-data python python-dev python-minimal
python-numpy python-support python2.7 python2.7-dev python2.7-minimal
tex-common texlive-base texlive-binaries texlive-latex-base ttf-dejavu-core
ucf x11-common x11proto-core-dev x11proto-damage-dev x11proto-dri2-dev
x11proto-fixes-dev x11proto-gl-dev x11proto-input-dev x11proto-kb-dev
x11proto-xext-dev x11proto-xf86vidmode-dev xdg-utils xorg-sgml-doctools
xtrans-dev zlib1g-dev
Suggested packages:
wamerican wordlist whois vacation gcc-4.8-locales dh-make gcc-4.8-doc
libstdc++6-4.8-dbg libmudflap0-4.8-dev libgcc1-dbg libgomp1-dbg libitm1-dbg
libatomic1-dbg libasan0-dbg libtsan0-dbg libbacktrace1-dbg libquadmath-dbg
libmudflap0-dbg gettext-doc groff cups-common rng-tools glew-utils krb5-doc
krb5-user libice-doc libjasper-runtime liblcms-utils liblcms2-utils
libsm-doc libstdc++-4.8-doc libxcb-doc libxext-doc libxt-doc less
www-browser libmail-box-perl poppler-utils ghostscript fonts-japanese-mincho
fonts-ipafont-mincho fonts-japanese-gothic fonts-ipafont-gothic
fonts-arphic-ukai fonts-arphic-uming fonts-unfonts-core python-doc python-tk
python-numpy-doc python-numpy-dbg python-nose gfortran python2.7-doc
binfmt-support gv postscript-viewer perl-tk xpdf-reader pdf-viewer gvfs-bin
Recommended packages:
curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
libegl1-mesa-drivers libgl1-mesa-dri libglib2.0-data shared-mime-info
fonts-droid krb5-locales libx11-doc xml-core texlive-luatex
libmail-sendmail-perl lmodern ruby wish texlive-latex-base-doc
libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils
x11-xserver-utils
The following NEW packages will be installed:
bsdmainutils debhelper file fontconfig-config fonts-dejavu-core freeglut3
freeglut3-dev gettext gettext-base groff-base intltool-debian libasprintf0c2
libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libcairo2
libcroco3 libcups2 libcupsfilters1 libcupsimage2 libdrm-dev libdrm-nouveau2
libdrm-omap1 libdrm-radeon1 libdrm2 libegl1-mesa libexpat1 libexpat1-dev
libffi6 libfontconfig1 libfreetype6 libfreetype6-dev libgbm1 libgcrypt11
libgfortran3 libgl1-mesa-dev libgl1-mesa-glx libglapi-mesa libglew-dev
libglew1.7 libglib2.0-0 libglu1-mesa libglu1-mesa-dev libgnutls26
libgpg-error0 libgraphite2-3 libgs9 libgs9-common libgssapi-krb5-2
libharfbuzz0a libice-dev libice6 libicu48 libidn11 libijs-0.35 libjasper1
libjbig0 libjbig2dec0 libjpeg8 libk5crypto3 libkeyutils1 libkpathsea6
libkrb5-3 libkrb5support0 liblapack3 liblcms1 liblcms2-2 libllvm3.3
libmagic1 libopenjpeg2 libp11-kit0 libpaper-utils libpaper1 libpipeline1
libpixman-1-0 libpng12-0 libpng12-dev libpoppler19 libptexenc1
libpthread-stubs0-dev libpython-dev libpython-stdlib libpython2.7
libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libsm-dev libsm6
libsqlite3-0 libssl1.0.0 libtasn1-3 libtiff4 libunistring0
libwayland-client0 libwayland-server0 libx11-6 libx11-data libx11-dev
libx11-xcb-dev libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-dri2-0
libxcb-dri2-0-dev libxcb-glx0 libxcb-glx0-dev libxcb-render0 libxcb-shape0
libxcb-shm0 libxcb-xfixes0 libxcb1 libxcb1-dev libxdamage-dev libxdamage1
libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes-dev libxfixes3 libxi6
libxml2 libxmu6 libxpm4 libxrender1 libxt-dev libxt6 libxxf86vm-dev
libxxf86vm1 luatex man-db mesa-common-dev mime-support po-debconf
poppler-data python python-dev python-minimal python-numpy python-support
python2.7 python2.7-dev python2.7-minimal sbuild-build-depends-pymol-dummy
tex-common texlive-base texlive-binaries texlive-latex-base ttf-dejavu-core
ucf x11-common x11proto-core-dev x11proto-damage-dev x11proto-dri2-dev
x11proto-fixes-dev x11proto-gl-dev x11proto-input-dev x11proto-kb-dev
x11proto-xext-dev x11proto-xf86vidmode-dev xdg-utils xorg-sgml-doctools
xtrans-dev zlib1g-dev
The following packages will be upgraded:
cpp-4.8 g++-4.8 gcc-4.8 gcc-4.8-base libasan0 libatomic1 libgcc-4.8-dev
libgcc1 libgomp1 libstdc++-4.8-dev libstdc++6
11 upgraded, 166 newly installed, 0 to remove and 6 not upgraded.
Need to get 130 MB/130 MB of archives.
After this operation, 282 MB of additional disk space will be used.
Get:1 http://172.17.0.1/private/ jessie-staging/main libgomp1 armhf 4.8.2-1+rpi1 [27.5 kB]
Get:2 http://172.17.0.1/private/ jessie-staging/main gcc-4.8-base armhf 4.8.2-1+rpi1 [151 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main libstdc++6 armhf 4.8.2-1+rpi1 [288 kB]
Get:4 http://172.17.0.1/private/ jessie-staging/main libasan0 armhf 4.8.2-1+rpi1 [71.7 kB]
Get:5 http://172.17.0.1/private/ jessie-staging/main libatomic1 armhf 4.8.2-1+rpi1 [6644 B]
Get:6 http://172.17.0.1/private/ jessie-staging/main cpp-4.8 armhf 4.8.2-1+rpi1 [5402 kB]
Get:7 http://172.17.0.1/private/ jessie-staging/main libstdc++-4.8-dev armhf 4.8.2-1+rpi1 [1801 kB]
Get:8 http://172.17.0.1/private/ jessie-staging/main g++-4.8 armhf 4.8.2-1+rpi1 [5845 kB]
Get:9 http://172.17.0.1/private/ jessie-staging/main gcc-4.8 armhf 4.8.2-1+rpi1 [5884 kB]
Get:10 http://172.17.0.1/private/ jessie-staging/main libgcc-4.8-dev armhf 4.8.2-1+rpi1 [318 kB]
Get:11 http://172.17.0.1/private/ jessie-staging/main libgcc1 armhf 1:4.8.2-1+rpi1 [51.0 kB]
Get:12 http://172.17.0.1/private/ jessie-staging/main libpipeline1 armhf 1.2.4-1 [36.9 kB]
Get:13 http://172.17.0.1/private/ jessie-staging/main libssl1.0.0 armhf 1.0.1e-3+rpi1 [1039 kB]
Get:14 http://172.17.0.1/private/ jessie-staging/main groff-base armhf 1.22.2-3 [666 kB]
Get:15 http://172.17.0.1/private/ jessie-staging/main bsdmainutils armhf 9.0.5 [206 kB]
Get:16 http://172.17.0.1/private/ jessie-staging/main man-db armhf 2.6.5-2 [949 kB]
Get:17 http://172.17.0.1/private/ jessie-staging/main libasprintf0c2 armhf 0.18.3.1-1 [29.4 kB]
Get:18 http://172.17.0.1/private/ jessie-staging/main libgpg-error0 armhf 1.12-0.2 [78.9 kB]
Get:19 http://172.17.0.1/private/ jessie-staging/main libgcrypt11 armhf 1.5.3-2 [296 kB]
Get:20 http://172.17.0.1/private/ jessie-staging/main libp11-kit0 armhf 0.18.5-3 [110 kB]
Get:21 http://172.17.0.1/private/ jessie-staging/main libtasn1-3 armhf 2.14-3 [64.1 kB]
Get:22 http://172.17.0.1/private/ jessie-staging/main libgnutls26 armhf 2.12.23-8 [596 kB]
Get:23 http://172.17.0.1/private/ jessie-staging/main libkeyutils1 armhf 1.5.6-1 [7900 B]
Get:24 http://172.17.0.1/private/ jessie-staging/main libkrb5support0 armhf 1.11.3+dfsg-3 [55.3 kB]
Get:25 http://172.17.0.1/private/ jessie-staging/main libk5crypto3 armhf 1.11.3+dfsg-3 [134 kB]
Get:26 http://172.17.0.1/private/ jessie-staging/main libkrb5-3 armhf 1.11.3+dfsg-3 [340 kB]
Get:27 http://172.17.0.1/private/ jessie-staging/main libgssapi-krb5-2 armhf 1.11.3+dfsg-3 [146 kB]
Get:28 http://172.17.0.1/private/ jessie-staging/main libidn11 armhf 1.28-1 [181 kB]
Get:29 http://172.17.0.1/private/ jessie-staging/main libmagic1 armhf 1:5.14-2 [213 kB]
Get:30 http://172.17.0.1/private/ jessie-staging/main libpython2.7-minimal armhf 2.7.5-8+rvt [540 kB]
Get:31 http://172.17.0.1/private/ jessie-staging/main mime-support all 3.54 [36.4 kB]
Get:32 http://172.17.0.1/private/ jessie-staging/main libexpat1 armhf 2.1.0-4 [117 kB]
Get:33 http://172.17.0.1/private/ jessie-staging/main libffi6 armhf 3.0.13-4 [19.8 kB]
Get:34 http://172.17.0.1/private/ jessie-staging/main libsqlite3-0 armhf 3.8.1-1 [417 kB]
Get:35 http://172.17.0.1/private/ jessie-staging/main libpython2.7-stdlib armhf 2.7.5-8+rvt [2477 kB]
Get:36 http://172.17.0.1/private/ jessie-staging/main libpython2.7 armhf 2.7.5-8+rvt [1232 kB]
Get:37 http://172.17.0.1/private/ jessie-staging/main libxml2 armhf 2.9.1+dfsg1-3 [836 kB]
Get:38 http://172.17.0.1/private/ jessie-staging/main python2.7-minimal armhf 2.7.5-8+rvt [1492 kB]
Get:39 http://172.17.0.1/private/ jessie-staging/main libdrm2 armhf 2.4.46-3 [466 kB]
Get:40 http://172.17.0.1/private/ jessie-staging/main libglapi-mesa armhf 9.2.2-1 [63.2 kB]
Get:41 http://172.17.0.1/private/ jessie-staging/main libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:42 http://172.17.0.1/private/ jessie-staging/main libxdmcp6 armhf 1:1.1.1-1 [24.6 kB]
Get:43 http://172.17.0.1/private/ jessie-staging/main libxcb1 armhf 1.9.1-3 [43.3 kB]
Get:44 http://172.17.0.1/private/ jessie-staging/main libx11-data all 2:1.6.2-1 [125 kB]
Get:45 http://172.17.0.1/private/ jessie-staging/main libx11-6 armhf 2:1.6.2-1 [867 kB]
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Get:47 http://172.17.0.1/private/ jessie-staging/main libxcb-dri2-0 armhf 1.9.1-3 [12.1 kB]
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Get:49 http://172.17.0.1/private/ jessie-staging/main libxfixes3 armhf 1:5.0.1-1 [21.0 kB]
Get:50 http://172.17.0.1/private/ jessie-staging/main libxdamage1 armhf 1:1.1.4-1 [14.6 kB]
Get:51 http://172.17.0.1/private/ jessie-staging/main libxext6 armhf 2:1.3.2-1 [51.1 kB]
Get:52 http://172.17.0.1/private/ jessie-staging/main libxxf86vm1 armhf 1:1.1.3-1 [20.0 kB]
Get:53 http://172.17.0.1/private/ jessie-staging/main libgl1-mesa-glx armhf 9.2.2-1 [128 kB]
Get:54 http://172.17.0.1/private/ jessie-staging/main libxi6 armhf 2:1.7.2-1 [76.8 kB]
Get:55 http://172.17.0.1/private/ jessie-staging/main freeglut3 armhf 2.8.1-1 [132 kB]
Get:56 http://172.17.0.1/private/ jessie-staging/main libavahi-common-data armhf 0.6.31-2 [137 kB]
Get:57 http://172.17.0.1/private/ jessie-staging/main libavahi-common3 armhf 0.6.31-2 [52.6 kB]
Get:58 http://172.17.0.1/private/ jessie-staging/main libavahi-client3 armhf 0.6.31-2 [55.4 kB]
Get:59 http://172.17.0.1/private/ jessie-staging/main libllvm3.3 armhf 1:3.3-9 [8354 kB]
Get:60 http://172.17.0.1/private/ jessie-staging/main libwayland-client0 armhf 1.3.0-1 [20.9 kB]
Get:61 http://172.17.0.1/private/ jessie-staging/main libwayland-server0 armhf 1.3.0-1 [25.2 kB]
Get:62 http://172.17.0.1/private/ jessie-staging/main libgbm1 armhf 9.2.2-1 [418 kB]
Get:63 http://172.17.0.1/private/ jessie-staging/main libxcb-render0 armhf 1.9.1-3 [16.8 kB]
Get:64 http://172.17.0.1/private/ jessie-staging/main libxcb-shape0 armhf 1.9.1-3 [10.9 kB]
Get:65 http://172.17.0.1/private/ jessie-staging/main libxcb-xfixes0 armhf 1.9.1-3 [13.8 kB]
Get:66 http://172.17.0.1/private/ jessie-staging/main libegl1-mesa armhf 9.2.2-1 [74.6 kB]
Get:67 http://172.17.0.1/private/ jessie-staging/main libfreetype6 armhf 2.4.9-1.1 [401 kB]
Get:68 http://172.17.0.1/private/ jessie-staging/main ucf all 3.0027+nmu1 [70.6 kB]
Get:69 http://172.17.0.1/private/ jessie-staging/main fonts-dejavu-core all 2.33+svn2514-3 [1042 kB]
Get:70 http://172.17.0.1/private/ jessie-staging/main ttf-dejavu-core all 2.33+svn2514-3 [29.8 kB]
Get:71 http://172.17.0.1/private/ jessie-staging/main fontconfig-config all 2.11.0-1 [269 kB]
Get:72 http://172.17.0.1/private/ jessie-staging/main libfontconfig1 armhf 2.11.0-1 [330 kB]
Get:73 http://172.17.0.1/private/ jessie-staging/main libpixman-1-0 armhf 0.30.2-1 [446 kB]
Get:74 http://172.17.0.1/private/ jessie-staging/main libpng12-0 armhf 1.2.49-5 [179 kB]
Get:75 http://172.17.0.1/private/ jessie-staging/main libxcb-shm0 armhf 1.9.1-3 [10.4 kB]
Get:76 http://172.17.0.1/private/ jessie-staging/main libxrender1 armhf 1:0.9.8-1 [30.4 kB]
Get:77 http://172.17.0.1/private/ jessie-staging/main libcairo2 armhf 1.12.16-2 [998 kB]
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Get:81 http://172.17.0.1/private/ jessie-staging/main libcupsimage2 armhf 1.6.3-1+rpi1 [107 kB]
Get:82 http://172.17.0.1/private/ jessie-staging/main libjpeg8 armhf 8d-1 [132 kB]
Get:83 http://172.17.0.1/private/ jessie-staging/main libjbig0 armhf 2.0-2 [31.5 kB]
Get:84 http://172.17.0.1/private/ jessie-staging/main libtiff4 armhf 3.9.7-2 [188 kB]
Get:85 http://172.17.0.1/private/ jessie-staging/main libcupsfilters1 armhf 1.0.34-3+b1 [82.2 kB]
Get:86 http://172.17.0.1/private/ jessie-staging/main libdrm-nouveau2 armhf 2.4.46-3 [460 kB]
Get:87 http://172.17.0.1/private/ jessie-staging/main libdrm-omap1 armhf 2.4.46-3 [451 kB]
Get:88 http://172.17.0.1/private/ jessie-staging/main libdrm-radeon1 armhf 2.4.46-3 [468 kB]
Get:89 http://172.17.0.1/private/ jessie-staging/main libgfortran3 armhf 4.8.2-1+rpi1 [226 kB]
Get:90 http://172.17.0.1/private/ jessie-staging/main libglu1-mesa armhf 9.0.0-2 [166 kB]
Get:91 http://172.17.0.1/private/ jessie-staging/main x11-common all 1:7.7+4 [282 kB]
Get:92 http://172.17.0.1/private/ jessie-staging/main libice6 armhf 2:1.0.8-2 [56.2 kB]
Get:93 http://172.17.0.1/private/ jessie-staging/main libsm6 armhf 2:1.2.1-2 [32.5 kB]
Get:94 http://172.17.0.1/private/ jessie-staging/main libxt6 armhf 1:1.1.4-1 [183 kB]
Get:95 http://172.17.0.1/private/ jessie-staging/main libxmu6 armhf 2:1.1.1-1 [59.1 kB]
Get:96 http://172.17.0.1/private/ jessie-staging/main libglew1.7 armhf 1.7.0-3 [154 kB]
Get:97 http://172.17.0.1/private/ jessie-staging/main libgraphite2-3 armhf 1.2.3-1 [55.0 kB]
Get:98 http://172.17.0.1/private/ jessie-staging/main libharfbuzz0a armhf 0.9.19-1 [432 kB]
Get:99 http://172.17.0.1/private/ jessie-staging/main libicu48 armhf 4.8.1.1-13+nmu1 [4516 kB]
Get:100 http://172.17.0.1/private/ jessie-staging/main libjasper1 armhf 1.900.1-14 [141 kB]
Get:101 http://172.17.0.1/private/ jessie-staging/main liblcms1 armhf 1.19.dfsg-1.2 [98.5 kB]
Get:102 http://172.17.0.1/private/ jessie-staging/main liblcms2-2 armhf 2.2+git20110628-2.3 [124 kB]
Get:103 http://172.17.0.1/private/ jessie-staging/main libpaper1 armhf 1.1.24+nmu2 [20.9 kB]
Get:104 http://172.17.0.1/private/ jessie-staging/main libopenjpeg2 armhf 1.3+dfsg-4.6 [75.9 kB]
Get:105 http://172.17.0.1/private/ jessie-staging/main libpoppler19 armhf 0.18.4-8 [990 kB]
Get:106 http://172.17.0.1/private/ jessie-staging/main libexpat1-dev armhf 2.1.0-4 [210 kB]
Get:107 http://172.17.0.1/private/ jessie-staging/main libpython2.7-dev armhf 2.7.5-8+rvt [22.8 MB]
Get:108 http://172.17.0.1/private/ jessie-staging/main libunistring0 armhf 0.9.3-5 [408 kB]
Get:109 http://172.17.0.1/private/ jessie-staging/main libxpm4 armhf 1:3.5.10-1 [44.9 kB]
Get:110 http://172.17.0.1/private/ jessie-staging/main libxaw7 armhf 2:1.0.11-1 [195 kB]
Get:111 http://172.17.0.1/private/ jessie-staging/main poppler-data all 0.4.6-4 [1481 kB]
Get:112 http://172.17.0.1/private/ jessie-staging/main file armhf 1:5.14-2 [53.8 kB]
Get:113 http://172.17.0.1/private/ jessie-staging/main gettext-base armhf 0.18.3.1-1 [136 kB]
Get:114 http://172.17.0.1/private/ jessie-staging/main python2.7 armhf 2.7.5-8+rvt [233 kB]
Get:115 http://172.17.0.1/private/ jessie-staging/main python-minimal armhf 2.7.5-5 [43.1 kB]
Get:116 http://172.17.0.1/private/ jessie-staging/main libpython-stdlib armhf 2.7.5-5 [19.8 kB]
Get:117 http://172.17.0.1/private/ jessie-staging/main python armhf 2.7.5-5 [180 kB]
Get:118 http://172.17.0.1/private/ jessie-staging/main python-support all 1.0.15 [33.6 kB]
Get:119 http://172.17.0.1/private/ jessie-staging/main gettext armhf 0.18.3.1-1 [1837 kB]
Get:120 http://172.17.0.1/private/ jessie-staging/main intltool-debian all 0.35.0+20060710.1 [29.8 kB]
Get:121 http://172.17.0.1/private/ jessie-staging/main po-debconf all 1.0.16+nmu2 [223 kB]
Get:122 http://172.17.0.1/private/ jessie-staging/main debhelper all 9.20130921 [688 kB]
Get:123 http://172.17.0.1/private/ jessie-staging/main xorg-sgml-doctools all 1:1.11-1 [21.9 kB]
Get:124 http://172.17.0.1/private/ jessie-staging/main x11proto-core-dev all 7.0.24-1 [779 kB]
Get:125 http://172.17.0.1/private/ jessie-staging/main libxau-dev armhf 1:1.0.8-1 [23.0 kB]
Get:126 http://172.17.0.1/private/ jessie-staging/main libxdmcp-dev armhf 1:1.1.1-1 [40.8 kB]
Get:127 http://172.17.0.1/private/ jessie-staging/main x11proto-input-dev all 2.3-1 [177 kB]
Get:128 http://172.17.0.1/private/ jessie-staging/main x11proto-kb-dev all 1.0.6-2 [269 kB]
Get:129 http://172.17.0.1/private/ jessie-staging/main xtrans-dev all 1.2.7-1 [112 kB]
Get:130 http://172.17.0.1/private/ jessie-staging/main libpthread-stubs0-dev armhf 0.3-4 [4042 B]
Get:131 http://172.17.0.1/private/ jessie-staging/main libxcb1-dev armhf 1.9.1-3 [98.5 kB]
Get:132 http://172.17.0.1/private/ jessie-staging/main libx11-dev armhf 2:1.6.2-1 [991 kB]
Get:133 http://172.17.0.1/private/ jessie-staging/main libdrm-dev armhf 2.4.46-3 [577 kB]
Get:134 http://172.17.0.1/private/ jessie-staging/main mesa-common-dev armhf 9.2.2-1 [276 kB]
Get:135 http://172.17.0.1/private/ jessie-staging/main libx11-xcb-dev armhf 2:1.6.2-1 [165 kB]
Get:136 http://172.17.0.1/private/ jessie-staging/main libxcb-dri2-0-dev armhf 1.9.1-3 [15.5 kB]
Get:137 http://172.17.0.1/private/ jessie-staging/main libxcb-glx0-dev armhf 1.9.1-3 [45.9 kB]
Get:138 http://172.17.0.1/private/ jessie-staging/main x11proto-xext-dev all 7.2.1-1 [273 kB]
Get:139 http://172.17.0.1/private/ jessie-staging/main x11proto-fixes-dev all 1:5.0-2 [19.2 kB]
Get:140 http://172.17.0.1/private/ jessie-staging/main libxfixes-dev armhf 1:5.0.1-1 [24.1 kB]
Get:141 http://172.17.0.1/private/ jessie-staging/main x11proto-damage-dev all 1:1.2.1-2 [11.8 kB]
Get:142 http://172.17.0.1/private/ jessie-staging/main libxdamage-dev armhf 1:1.1.4-1 [14.3 kB]
Get:143 http://172.17.0.1/private/ jessie-staging/main libxext-dev armhf 2:1.3.2-1 [110 kB]
Get:144 http://172.17.0.1/private/ jessie-staging/main x11proto-xf86vidmode-dev all 2.3.1-2 [6114 B]
Get:145 http://172.17.0.1/private/ jessie-staging/main libxxf86vm-dev armhf 1:1.1.3-1 [25.5 kB]
Get:146 http://172.17.0.1/private/ jessie-staging/main x11proto-dri2-dev all 2.8-2 [18.2 kB]
Get:147 http://172.17.0.1/private/ jessie-staging/main x11proto-gl-dev all 1.4.16-2 [32.1 kB]
Get:148 http://172.17.0.1/private/ jessie-staging/main libgl1-mesa-dev armhf 9.2.2-1 [35.1 kB]
Get:149 http://172.17.0.1/private/ jessie-staging/main libglu1-mesa-dev armhf 9.0.0-2 [238 kB]
Get:150 http://172.17.0.1/private/ jessie-staging/main libice-dev armhf 2:1.0.8-2 [65.9 kB]
Get:151 http://172.17.0.1/private/ jessie-staging/main libsm-dev armhf 2:1.2.1-2 [35.6 kB]
Get:152 http://172.17.0.1/private/ jessie-staging/main libxt-dev armhf 1:1.1.4-1 [447 kB]
Get:153 http://172.17.0.1/private/ jessie-staging/main freeglut3-dev armhf 2.8.1-1 [213 kB]
Get:154 http://172.17.0.1/private/ jessie-staging/main libblas3 armhf 1.2.20110419-7 [186 kB]
Get:155 http://172.17.0.1/private/ jessie-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-1 [212 kB]
Get:156 http://172.17.0.1/private/ jessie-staging/main libfreetype6-dev armhf 2.4.9-1.1 [748 kB]
Get:157 http://172.17.0.1/private/ jessie-staging/main libglew-dev armhf 1.7.0-3 [145 kB]
Get:158 http://172.17.0.1/private/ jessie-staging/main libijs-0.35 armhf 0.35-8 [19.0 kB]
Get:159 http://172.17.0.1/private/ jessie-staging/main libjbig2dec0 armhf 0.11+20120125-1 [46.4 kB]
Get:160 http://172.17.0.1/private/ jessie-staging/main libgs9-common all 9.05~dfsg-8 [1981 kB]
Get:161 http://172.17.0.1/private/ jessie-staging/main libgs9 armhf 9.05~dfsg-8 [1546 kB]
Get:162 http://172.17.0.1/private/ jessie-staging/main libkpathsea6 armhf 2013.20130729.30972-2 [160 kB]
Get:163 http://172.17.0.1/private/ jessie-staging/main liblapack3 armhf 3.4.2+dfsg-4 [2288 kB]
Get:164 http://172.17.0.1/private/ jessie-staging/main libpaper-utils armhf 1.1.24+nmu2 [17.9 kB]
Get:165 http://172.17.0.1/private/ jessie-staging/main libpng12-dev armhf 1.2.49-5 [258 kB]
Get:166 http://172.17.0.1/private/ jessie-staging/main libptexenc1 armhf 2013.20130729.30972-2 [55.7 kB]
Get:167 http://172.17.0.1/private/ jessie-staging/main libpython-dev armhf 2.7.5-5 [19.9 kB]
Get:168 http://172.17.0.1/private/ jessie-staging/main tex-common all 4.04 [639 kB]
Get:169 http://172.17.0.1/private/ jessie-staging/main luatex armhf 0.76.0-3 [3601 kB]
Get:170 http://172.17.0.1/private/ jessie-staging/main python2.7-dev armhf 2.7.5-8+rvt [297 kB]
Get:171 http://172.17.0.1/private/ jessie-staging/main python-dev armhf 2.7.5-5 [1088 B]
Get:172 http://172.17.0.1/private/ jessie-staging/main python-numpy armhf 1:1.7.1-3 [1926 kB]
Get:173 http://172.17.0.1/private/ jessie-staging/main xdg-utils all 1.1.0~rc1+git20111210-7 [83.7 kB]
Get:174 http://172.17.0.1/private/ jessie-staging/main texlive-binaries armhf 2013.20130729.30972-2 [5951 kB]
Get:175 http://172.17.0.1/private/ jessie-staging/main texlive-base all 2013.20131010-2 [16.1 MB]
Get:176 http://172.17.0.1/private/ jessie-staging/main texlive-latex-base all 2013.20131010-2 [854 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Unpacking replacement g++-4.8 ...
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Unpacking replacement libgcc-4.8-dev:armhf ...
Selecting previously unselected package libpipeline1:armhf.
Unpacking libpipeline1:armhf (from .../libpipeline1_1.2.4-1_armhf.deb) ...
Selecting previously unselected package libssl1.0.0:armhf.
Unpacking libssl1.0.0:armhf (from .../libssl1.0.0_1.0.1e-3+rpi1_armhf.deb) ...
Selecting previously unselected package groff-base.
Unpacking groff-base (from .../groff-base_1.22.2-3_armhf.deb) ...
Selecting previously unselected package bsdmainutils.
Unpacking bsdmainutils (from .../bsdmainutils_9.0.5_armhf.deb) ...
Selecting previously unselected package man-db.
Unpacking man-db (from .../man-db_2.6.5-2_armhf.deb) ...
Selecting previously unselected package libasprintf0c2:armhf.
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Selecting previously unselected package libgcrypt11:armhf.
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Selecting previously unselected package libp11-kit0:armhf.
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Selecting previously unselected package libtasn1-3:armhf.
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Selecting previously unselected package libgnutls26:armhf.
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Selecting previously unselected package libkeyutils1:armhf.
Unpacking libkeyutils1:armhf (from .../libkeyutils1_1.5.6-1_armhf.deb) ...
Selecting previously unselected package libkrb5support0:armhf.
Unpacking libkrb5support0:armhf (from .../libkrb5support0_1.11.3+dfsg-3_armhf.deb) ...
Selecting previously unselected package libk5crypto3:armhf.
Unpacking libk5crypto3:armhf (from .../libk5crypto3_1.11.3+dfsg-3_armhf.deb) ...
Selecting previously unselected package libkrb5-3:armhf.
Unpacking libkrb5-3:armhf (from .../libkrb5-3_1.11.3+dfsg-3_armhf.deb) ...
Selecting previously unselected package libgssapi-krb5-2:armhf.
Unpacking libgssapi-krb5-2:armhf (from .../libgssapi-krb5-2_1.11.3+dfsg-3_armhf.deb) ...
Selecting previously unselected package libidn11:armhf.
Unpacking libidn11:armhf (from .../libidn11_1.28-1_armhf.deb) ...
Selecting previously unselected package libmagic1:armhf.
Unpacking libmagic1:armhf (from .../libmagic1_1%3a5.14-2_armhf.deb) ...
Selecting previously unselected package libpython2.7-minimal:armhf.
Unpacking libpython2.7-minimal:armhf (from .../libpython2.7-minimal_2.7.5-8+rvt_armhf.deb) ...
Selecting previously unselected package mime-support.
Unpacking mime-support (from .../mime-support_3.54_all.deb) ...
Selecting previously unselected package libexpat1:armhf.
Unpacking libexpat1:armhf (from .../libexpat1_2.1.0-4_armhf.deb) ...
Selecting previously unselected package libffi6:armhf.
Unpacking libffi6:armhf (from .../libffi6_3.0.13-4_armhf.deb) ...
Selecting previously unselected package libsqlite3-0:armhf.
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Selecting previously unselected package libpython2.7-stdlib:armhf.
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Selecting previously unselected package libpython2.7:armhf.
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Selecting previously unselected package libxml2:armhf.
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Selecting previously unselected package python2.7-minimal.
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Selecting previously unselected package libdrm2:armhf.
Unpacking libdrm2:armhf (from .../libdrm2_2.4.46-3_armhf.deb) ...
Selecting previously unselected package libglapi-mesa:armhf.
Unpacking libglapi-mesa:armhf (from .../libglapi-mesa_9.2.2-1_armhf.deb) ...
Selecting previously unselected package libxau6:armhf.
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Selecting previously unselected package libxdmcp6:armhf.
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Unpacking libxcb1:armhf (from .../libxcb1_1.9.1-3_armhf.deb) ...
Selecting previously unselected package libx11-data.
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Selecting previously unselected package libx11-6:armhf.
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Selecting previously unselected package libxcb-glx0:armhf.
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Selecting previously unselected package libxdamage1:armhf.
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Selecting previously unselected package libxext6:armhf.
Unpacking libxext6:armhf (from .../libxext6_2%3a1.3.2-1_armhf.deb) ...
Selecting previously unselected package libxxf86vm1:armhf.
Unpacking libxxf86vm1:armhf (from .../libxxf86vm1_1%3a1.1.3-1_armhf.deb) ...
Selecting previously unselected package libgl1-mesa-glx:armhf.
Unpacking libgl1-mesa-glx:armhf (from .../libgl1-mesa-glx_9.2.2-1_armhf.deb) ...
Selecting previously unselected package libxi6:armhf.
Unpacking libxi6:armhf (from .../libxi6_2%3a1.7.2-1_armhf.deb) ...
Selecting previously unselected package freeglut3:armhf.
Unpacking freeglut3:armhf (from .../freeglut3_2.8.1-1_armhf.deb) ...
Selecting previously unselected package libavahi-common-data:armhf.
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Selecting previously unselected package libavahi-client3:armhf.
Unpacking libavahi-client3:armhf (from .../libavahi-client3_0.6.31-2_armhf.deb) ...
Selecting previously unselected package libllvm3.3:armhf.
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Selecting previously unselected package libwayland-client0:armhf.
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Selecting previously unselected package libwayland-server0:armhf.
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Selecting previously unselected package libgbm1:armhf.
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Setting up libdrm-nouveau2:armhf (2.4.46-3) ...
Setting up libdrm-omap1:armhf (2.4.46-3) ...
Setting up libdrm-radeon1:armhf (2.4.46-3) ...
Setting up libgfortran3:armhf (4.8.2-1+rpi1) ...
Setting up libglu1-mesa:armhf (9.0.0-2) ...
Setting up x11-common (1:7.7+4) ...
update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
All runlevel operations denied by policy
invoke-rc.d: policy-rc.d denied execution of start.
Setting up libice6:armhf (2:1.0.8-2) ...
Setting up libsm6:armhf (2:1.2.1-2) ...
Setting up libxt6:armhf (1:1.1.4-1) ...
Setting up libxmu6:armhf (2:1.1.1-1) ...
Setting up libglew1.7:armhf (1.7.0-3) ...
Setting up libgraphite2-3:armhf (1.2.3-1) ...
Setting up libharfbuzz0a:armhf (0.9.19-1) ...
Setting up libicu48:armhf (4.8.1.1-13+nmu1) ...
Setting up libjasper1:armhf (1.900.1-14) ...
Setting up liblcms1:armhf (1.19.dfsg-1.2) ...
Setting up liblcms2-2:armhf (2.2+git20110628-2.3) ...
Setting up libpaper1:armhf (1.1.24+nmu2) ...
Creating config file /etc/papersize with new version
Setting up libopenjpeg2:armhf (1.3+dfsg-4.6) ...
Setting up libpoppler19:armhf (0.18.4-8) ...
Setting up libexpat1-dev:armhf (2.1.0-4) ...
Setting up libpython2.7-dev:armhf (2.7.5-8+rvt) ...
Setting up libunistring0:armhf (0.9.3-5) ...
Setting up libxpm4:armhf (1:3.5.10-1) ...
Setting up libxaw7:armhf (2:1.0.11-1) ...
Setting up poppler-data (0.4.6-4) ...
Setting up file (1:5.14-2) ...
Setting up gettext-base (0.18.3.1-1) ...
Setting up python2.7 (2.7.5-8+rvt) ...
Setting up python-minimal (2.7.5-5) ...
Setting up libpython-stdlib:armhf (2.7.5-5) ...
Setting up python (2.7.5-5) ...
Setting up python-support (1.0.15) ...
Setting up gettext (0.18.3.1-1) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu2) ...
Setting up debhelper (9.20130921) ...
Setting up xorg-sgml-doctools (1:1.11-1) ...
Setting up x11proto-core-dev (7.0.24-1) ...
Setting up libxau-dev:armhf (1:1.0.8-1) ...
Setting up libxdmcp-dev:armhf (1:1.1.1-1) ...
Setting up x11proto-input-dev (2.3-1) ...
Setting up x11proto-kb-dev (1.0.6-2) ...
Setting up xtrans-dev (1.2.7-1) ...
Setting up libpthread-stubs0-dev:armhf (0.3-4) ...
Setting up libxcb1-dev:armhf (1.9.1-3) ...
Setting up libx11-dev:armhf (2:1.6.2-1) ...
Setting up libdrm-dev (2.4.46-3) ...
Setting up mesa-common-dev (9.2.2-1) ...
Setting up libx11-xcb-dev (2:1.6.2-1) ...
Setting up libxcb-dri2-0-dev:armhf (1.9.1-3) ...
Setting up libxcb-glx0-dev:armhf (1.9.1-3) ...
Setting up x11proto-xext-dev (7.2.1-1) ...
Setting up x11proto-fixes-dev (1:5.0-2) ...
Setting up libxfixes-dev (1:5.0.1-1) ...
Setting up x11proto-damage-dev (1:1.2.1-2) ...
Setting up libxdamage-dev (1:1.1.4-1) ...
Setting up libxext-dev:armhf (2:1.3.2-1) ...
Setting up x11proto-xf86vidmode-dev (2.3.1-2) ...
Setting up libxxf86vm-dev:armhf (1:1.1.3-1) ...
Setting up x11proto-dri2-dev (2.8-2) ...
Setting up x11proto-gl-dev (1.4.16-2) ...
Setting up libgl1-mesa-dev (9.2.2-1) ...
Setting up libglu1-mesa-dev (9.0.0-2) ...
Setting up libice-dev:armhf (2:1.0.8-2) ...
Setting up libsm-dev:armhf (2:1.2.1-2) ...
Setting up libxt-dev:armhf (1:1.1.4-1) ...
Setting up freeglut3-dev:armhf (2.8.1-1) ...
Setting up libblas3 (1.2.20110419-7) ...
update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-1) ...
Setting up libfreetype6-dev (2.4.9-1.1) ...
Setting up libglew-dev:armhf (1.7.0-3) ...
Setting up libijs-0.35 (0.35-8) ...
Setting up libjbig2dec0 (0.11+20120125-1) ...
Setting up libgs9-common (9.05~dfsg-8) ...
Setting up libkpathsea6 (2013.20130729.30972-2) ...
Setting up liblapack3 (3.4.2+dfsg-4) ...
update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up libpaper-utils (1.1.24+nmu2) ...
Setting up libpng12-dev (1.2.49-5) ...
Setting up libptexenc1 (2013.20130729.30972-2) ...
Setting up libpython-dev:armhf (2.7.5-5) ...
Setting up tex-common (4.04) ...
Running mktexlsr. This may take some time... done.
texlive-base is not ready, delaying updmap-sys call
texlive-base is not ready, skipping fmtutil-sys --all call
Setting up luatex (0.76.0-3) ...
texlive-base is not ready, cannot create formats
Setting up python2.7-dev (2.7.5-8+rvt) ...
Setting up python-dev (2.7.5-5) ...
Setting up python-numpy (1:1.7.1-3) ...
Setting up xdg-utils (1.1.0~rc1+git20111210-7) ...
Setting up libcupsimage2:armhf (1.6.3-1+rpi1) ...
Setting up libcupsfilters1:armhf (1.0.34-3+b1) ...
Setting up libgs9 (9.05~dfsg-8) ...
Setting up texlive-binaries (2013.20130729.30972-2) ...
update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode
update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode
Building format(s) --refresh.
This may take some time... done.
Setting up texlive-base (2013.20131010-2) ...
/usr/bin/tl-paper: setting paper size for dvips to a4.
/usr/bin/tl-paper: setting paper size for dvipdfmx to a4.
/usr/bin/tl-paper: setting paper size for xdvi to a4.
/usr/bin/tl-paper: setting paper size for pdftex to a4.
Running mktexlsr. This may take some time... done.
Building format(s) --all.
This may take some time... done.
Processing triggers for tex-common ...
Running updmap-sys. This may take some time... done.
Running mktexlsr /var/lib/texmf ... done.
Setting up texlive-latex-base (2013.20131010-2) ...
Running mktexlsr. This may take some time... done.
Building format(s) --all --cnffile /etc/texmf/fmt.d/10texlive-latex-base.cnf.
This may take some time... done.
Processing triggers for tex-common ...
Running updmap-sys. This may take some time... done.
Running mktexlsr /var/lib/texmf ... done.
Setting up sbuild-build-depends-pymol-dummy (0.invalid.0) ...
Processing triggers for libc-bin ...
Processing triggers for python-support ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.11.0-armv7-x13 armhf (armv7l)
Toolchain package versions: binutils_2.23.90.20130927-1 dpkg-dev_1.16.12 g++-4.8_4.8.2-1+rpi1 gcc-4.8_4.8.2-1+rpi1 libc6-dev_2.17-93 libstdc++-4.8-dev_4.8.2-1+rpi1 libstdc++6_4.8.2-1+rpi1 linux-libc-dev_3.10.1-1+rpi1+b2
Package versions: apt_0.9.11.4+rpi1 base-files_7.2+rpi1 base-passwd_3.5.28 bash_4.2+dfsg-1 binutils_2.23.90.20130927-1 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.5 build-essential_11.6 bzip2_1.0.6-5 coreutils_8.21-1 cpio_2.11+dfsg-1 cpp_4:4.8.1-3 cpp-4.8_4.8.2-1+rpi1 dash_0.5.7-3 debconf_1.5.51 debconf-i18n_1.5.51 debfoster_2.7-1.2 debhelper_9.20130921 debianutils_4.4 diffutils_1:3.3-1 dpkg_1.16.12 dpkg-dev_1.16.12 e2fslibs_1.42.8-1 e2fsprogs_1.42.8-1 fakeroot_1.18.4-2 file_1:5.14-2 findutils_4.4.2-6 fontconfig-config_2.11.0-1 fonts-dejavu-core_2.33+svn2514-3 freeglut3_2.8.1-1 freeglut3-dev_2.8.1-1 g++_4:4.8.1-3 g++-4.8_4.8.2-1+rpi1 gcc_4:4.8.1-3 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6-base_4.6.4-4+rpi1 gcc-4.7-base_4.7.3-4+rpi1 gcc-4.8_4.8.2-1+rpi1 gcc-4.8-base_4.8.2-1+rpi1 gettext_0.18.3.1-1 gettext-base_0.18.3.1-1 gnupg_1.4.15-1.1 gpgv_1.4.15-1.1 grep_2.14-4 groff-base_1.22.2-3 gzip_1.6-2 hostname_3.14 initramfs-tools_0.114 initscripts_2.88dsf-43 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 klibc-utils_2.0.1-3.1+rpi1 kmod_9-3 libacl1_2.2.52-1 libapt-pkg4.12_0.9.11.4+rpi1 libasan0_4.8.2-1+rpi1 libasprintf0c2_0.18.3.1-1 libatomic1_4.8.2-1+rpi1 libattr1_1:2.4.47-1 libavahi-client3_0.6.31-2 libavahi-common-data_0.6.31-2 libavahi-common3_0.6.31-2 libblas3_1.2.20110419-7 libblkid1_2.20.1-5.5 libbz2-1.0_1.0.6-5 libc-bin_2.17-93 libc-dev-bin_2.17-93 libc6_2.17-93 libc6-dev_2.17-93 libcairo2_1.12.16-2 libcap2_1:2.22-1.2 libcloog-isl4_0.18.0-2 libcomerr2_1.42.8-1 libcroco3_0.6.8-2 libcups2_1.6.3-1+rpi1 libcupsfilters1_1.0.34-3+b1 libcupsimage2_1.6.3-1+rpi1 libdb5.1_5.1.29-6 libdbus-1-3_1.6.16-1 libdpkg-perl_1.16.12 libdrm-dev_2.4.46-3 libdrm-nouveau2_2.4.46-3 libdrm-omap1_2.4.46-3 libdrm-radeon1_2.4.46-3 libdrm2_2.4.46-3 libegl1-mesa_9.2.2-1 libexpat1_2.1.0-4 libexpat1-dev_2.1.0-4 libffi6_3.0.13-4 libfontconfig1_2.11.0-1 libfreetype6_2.4.9-1.1 libfreetype6-dev_2.4.9-1.1 libgbm1_9.2.2-1 libgc1c2_1:7.2d-5 libgcc-4.8-dev_4.8.2-1+rpi1 libgcc1_1:4.8.2-1+rpi1 libgcrypt11_1.5.3-2 libgdbm3_1.8.3-12 libgfortran3_4.8.2-1+rpi1 libgl1-mesa-dev_9.2.2-1 libgl1-mesa-glx_9.2.2-1 libglapi-mesa_9.2.2-1 libglew-dev_1.7.0-3 libglew1.7_1.7.0-3 libglib2.0-0_2.36.4-1 libglu1-mesa_9.0.0-2 libglu1-mesa-dev_9.0.0-2 libgmp10_2:5.1.2+dfsg-3 libgnutls26_2.12.23-8 libgomp1_4.8.2-1+rpi1 libgpg-error0_1.12-0.2 libgraphite2-3_1.2.3-1 libgs9_9.05~dfsg-8 libgs9-common_9.05~dfsg-8 libgssapi-krb5-2_1.11.3+dfsg-3 libharfbuzz0a_0.9.19-1 libice-dev_2:1.0.8-2 libice6_2:1.0.8-2 libicu48_4.8.1.1-13+nmu1 libidn11_1.28-1 libijs-0.35_0.35-8 libisl10_0.11.2-1 libjasper1_1.900.1-14 libjbig0_2.0-2 libjbig2dec0_0.11+20120125-1 libjpeg8_8d-1 libk5crypto3_1.11.3+dfsg-3 libkeyutils1_1.5.6-1 libklibc_2.0.1-3.1+rpi1 libkmod2_9-3 libkpathsea6_2013.20130729.30972-2 libkrb5-3_1.11.3+dfsg-3 libkrb5support0_1.11.3+dfsg-3 liblapack3_3.4.2+dfsg-4 liblcms1_1.19.dfsg-1.2 liblcms2-2_2.2+git20110628-2.3 libllvm3.3_1:3.3-9 liblocale-gettext-perl_1.05-7+b3 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.14-2 libmount1_2.20.1-5.5 libmpc3_1.0.1-1 libmpfr4_3.1.1-2 libncurses5_5.9+20130608-1 libncursesw5_5.9+20130608-1 libnih-dbus1_1.0.3-4.1+b1 libnih1_1.0.3-4.1+b1 libopenjpeg2_1.3+dfsg-4.6 libp11-kit0_0.18.5-3 libpam-modules_1.1.3-9 libpam-modules-bin_1.1.3-9 libpam-runtime_1.1.3-9 libpam0g_1.1.3-9 libpaper-utils_1.1.24+nmu2 libpaper1_1.1.24+nmu2 libpcre3_1:8.31-2 libpipeline1_1.2.4-1 libpixman-1-0_0.30.2-1 libpng12-0_1.2.49-5 libpng12-dev_1.2.49-5 libpoppler19_0.18.4-8 libprocps0_1:3.3.4-2 libptexenc1_2013.20130729.30972-2 libpthread-stubs0-dev_0.3-4 libpython-dev_2.7.5-5 libpython-stdlib_2.7.5-5 libpython2.7_2.7.5-8+rvt libpython2.7-dev_2.7.5-8+rvt libpython2.7-minimal_2.7.5-8+rvt libpython2.7-stdlib_2.7.5-8+rvt libreadline6_6.2+dfsg-0.1 libselinux1_2.1.13-3+rpi1 libsemanage-common_2.1.10-3+rpi1 libsemanage1_2.1.10-3+rpi1 libsepol1_2.1.9-2 libslang2_2.2.4-15 libsm-dev_2:1.2.1-2 libsm6_2:1.2.1-2 libsqlite3-0_3.8.1-1 libss2_1.42.8-1 libssl1.0.0_1.0.1e-3+rpi1 libstdc++-4.8-dev_4.8.2-1+rpi1 libstdc++6_4.8.2-1+rpi1 libtasn1-3_2.14-3 libtext-charwidth-perl_0.04-7+b3 libtext-iconv-perl_1.7-5+b3 libtext-wrapi18n-perl_0.06-7 libtiff4_3.9.7-2 libtimedate-perl_1.2000-1 libtinfo5_5.9+20130608-1 libudev1_204-5 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.2 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.5 libwayland-client0_1.3.0-1 libwayland-server0_1.3.0-1 libx11-6_2:1.6.2-1 libx11-data_2:1.6.2-1 libx11-dev_2:1.6.2-1 libx11-xcb-dev_2:1.6.2-1 libx11-xcb1_2:1.6.2-1 libxau-dev_1:1.0.8-1 libxau6_1:1.0.8-1 libxaw7_2:1.0.11-1 libxcb-dri2-0_1.9.1-3 libxcb-dri2-0-dev_1.9.1-3 libxcb-glx0_1.9.1-3 libxcb-glx0-dev_1.9.1-3 libxcb-render0_1.9.1-3 libxcb-shape0_1.9.1-3 libxcb-shm0_1.9.1-3 libxcb-xfixes0_1.9.1-3 libxcb1_1.9.1-3 libxcb1-dev_1.9.1-3 libxdamage-dev_1:1.1.4-1 libxdamage1_1:1.1.4-1 libxdmcp-dev_1:1.1.1-1 libxdmcp6_1:1.1.1-1 libxext-dev_2:1.3.2-1 libxext6_2:1.3.2-1 libxfixes-dev_1:5.0.1-1 libxfixes3_1:5.0.1-1 libxi6_2:1.7.2-1 libxml2_2.9.1+dfsg1-3 libxmu6_2:1.1.1-1 libxpm4_1:3.5.10-1 libxrender1_1:0.9.8-1 libxt-dev_1:1.1.4-1 libxt6_1:1.1.4-1 libxxf86vm-dev_1:1.1.3-1 libxxf86vm1_1:1.1.3-1 linux-libc-dev_3.10.1-1+rpi1+b2 login_1:4.1.5.1-1 lsb-base_4.1+Debian12+rpi1 luatex_0.76.0-3 make_3.81-8.2 makedev_2.3.1-93 man-db_2.6.5-2 mawk_1.3.3-17 mesa-common-dev_9.2.2-1 mime-support_3.54 mount_2.20.1-5.5 mountall_2.52 multiarch-support_2.17-93 ncurses-base_5.9+20130608-1 ncurses-bin_5.9+20130608-1 passwd_1:4.1.5.1-1 patch_2.7.1-3 perl_5.18.1-4 perl-base_5.18.1-4 perl-modules_5.18.1-4 plymouth_0.8.8-6+deb8u3 po-debconf_1.0.16+nmu2 poppler-data_0.4.6-4 procps_1:3.3.4-2 python_2.7.5-5 python-dev_2.7.5-5 python-minimal_2.7.5-5 python-numpy_1:1.7.1-3 python-support_1.0.15 python2.7_2.7.5-8+rvt python2.7-dev_2.7.5-8+rvt python2.7-minimal_2.7.5-8+rvt raspbian-archive-keyring_20120528.2 readline-common_6.2+dfsg-0.1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-pymol-dummy_0.invalid.0 sed_4.2.2-2 sensible-utils_0.0.9 sysv-rc_2.88dsf-43 sysvinit_2.88dsf-43 sysvinit-utils_2.88dsf-43 tar_1.26+dfsg-8 tex-common_4.04 texlive-base_2013.20131010-2 texlive-binaries_2013.20130729.30972-2 texlive-latex-base_2013.20131010-2 ttf-dejavu-core_2.33+svn2514-3 tzdata_2013d-1 ucf_3.0027+nmu1 udev_204-5 util-linux_2.20.1-5.5 x11-common_1:7.7+4 x11proto-core-dev_7.0.24-1 x11proto-damage-dev_1:1.2.1-2 x11proto-dri2-dev_2.8-2 x11proto-fixes-dev_1:5.0-2 x11proto-gl-dev_1.4.16-2 x11proto-input-dev_2.3-1 x11proto-kb-dev_1.0.6-2 x11proto-xext-dev_7.2.1-1 x11proto-xf86vidmode-dev_2.3.1-2 xdg-utils_1.1.0~rc1+git20111210-7 xorg-sgml-doctools_1:1.11-1 xtrans-dev_1.2.7-1 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1 zlib1g-dev_1:1.2.8.dfsg-1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Thu Oct 31 07:59:41 2013 UTC using DSA key ID 6A461052
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./pymol_1.6.0.0-1.1.dsc
dpkg-source: info: extracting pymol in pymol-1.6.0.0
dpkg-source: info: unpacking pymol_1.6.0.0.orig.tar.bz2
dpkg-source: info: unpacking pymol_1.6.0.0-1.1.debian.tar.gz
dpkg-source: info: applying 02_test-suite.patch
dpkg-source: info: applying 03_povray.patch
dpkg-source: info: applying 21_fix_png_batch_mode.patch
dpkg-source: info: applying 22_fix_pymol_import.patch
dpkg-source: info: applying 27_fix_pymol_path_in_setup.patch
dpkg-source: info: applying 28_no_data_install_in_python_path.patch
dpkg-source: info: applying 29_fix_path_to_splash.patch
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LANG=en_GB.UTF-8
LC_ALL=POSIX
LOGNAME=root
MAIL=/var/mail/root
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/root
SCHROOT_ALIAS_NAME=jessie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=jessie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=jessie-staging-armhf-sbuild-3956d5bf-bb14-4bd9-84a5-caa0430a89a3
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
SHLVL=1
SSH_CLIENT=172.17.0.6 57274 22
SSH_CONNECTION=172.17.0.6 57274 172.17.2.3 22
SSH_TTY=/dev/pts/0
TERM=xterm
USER=root
_=/etc/init.d/buildd
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package pymol
dpkg-buildpackage: source version 1.6.0.0-1.1
dpkg-source --before-build pymol-1.6.0.0
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean --with python2 --parallel
dh_testdir -O--parallel
debian/rules override_dh_auto_clean
make[1]: Entering directory `/«PKGBUILDDIR»'
[ ! -f Makefile ] || /usr/bin/make distclean
dh_auto_clean -Spython_distutils
running clean
'build/lib.linux-armv7l-2.7' does not exist -- can't clean it
'build/bdist.linux-armv7l' does not exist -- can't clean it
'build/scripts-2.7' does not exist -- can't clean it
make[1]: Leaving directory `/«PKGBUILDDIR»'
debian/rules override_dh_clean
make[1]: Entering directory `/«PKGBUILDDIR»'
rm -f -r build test/tmp test/cmp generated
dh_clean debian/pymol.launch debian/pymol-ref-card.* \
Rules.make create_shadertext.pyc
make[1]: Leaving directory `/«PKGBUILDDIR»'
debian/rules build-arch
dh build-arch --with python2 --parallel
dh_testdir -a -O--parallel
debian/rules override_dh_auto_configure
make[1]: Entering directory `/«PKGBUILDDIR»'
dh_auto_configure -Spython_distutils
make[1]: Leaving directory `/«PKGBUILDDIR»'
debian/rules override_dh_auto_build
make[1]: Entering directory `/«PKGBUILDDIR»'
dh_auto_build -Spython_distutils
running build
running build_py
creating build
creating build/lib.linux-armv7l-2.7
creating build/lib.linux-armv7l-2.7/web
copying modules/web/pymolhttpd.py -> build/lib.linux-armv7l-2.7/web
copying modules/web/__init__.py -> build/lib.linux-armv7l-2.7/web
creating build/lib.linux-armv7l-2.7/web/examples
copying modules/web/examples/justhttpd.py -> build/lib.linux-armv7l-2.7/web/examples
copying modules/web/examples/__init__.py -> build/lib.linux-armv7l-2.7/web/examples
creating build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/creating.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/experimenting.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/parser.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/moving.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/xray.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/internal.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/parsing.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/headering.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/xwin.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/editor.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/colorramping.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/helping.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/monitoring.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/selecting.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/constants_palette.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/checking.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/menu.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/externing.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/selector.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/importing.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/api.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/cgo.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/cmd.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/preset.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/feedingback.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/fitting.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/constants.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/callback.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/gui.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/m4x.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/setting.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/completing.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/movie.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/invocation.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/vfont.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/rpc.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/keywords.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/wizarding.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/util.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/editing.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/keyboard.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/locking.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/computing.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/controlling.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/querying.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/viewing.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/shortcut.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/povray.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/exporting.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/__init__.py -> build/lib.linux-armv7l-2.7/pymol
copying modules/pymol/commanding.py -> build/lib.linux-armv7l-2.7/pymol
creating build/lib.linux-armv7l-2.7/pymol/contrib
copying modules/pymol/contrib/__init__.py -> build/lib.linux-armv7l-2.7/pymol/contrib
creating build/lib.linux-armv7l-2.7/pymol/embed
copying modules/pymol/embed/__init__.py -> build/lib.linux-armv7l-2.7/pymol/embed
creating build/lib.linux-armv7l-2.7/pymol/embed/wxpymol
copying modules/pymol/embed/wxpymol/__init__.py -> build/lib.linux-armv7l-2.7/pymol/embed/wxpymol
creating build/lib.linux-armv7l-2.7/pymol/embed/epymol
copying modules/pymol/embed/epymol/__init__.py -> build/lib.linux-armv7l-2.7/pymol/embed/epymol
creating build/lib.linux-armv7l-2.7/pymol/opengl
copying modules/pymol/opengl/__init__.py -> build/lib.linux-armv7l-2.7/pymol/opengl
creating build/lib.linux-armv7l-2.7/pymol/opengl/gl
copying modules/pymol/opengl/gl/glconst.py -> build/lib.linux-armv7l-2.7/pymol/opengl/gl
copying modules/pymol/opengl/gl/__init__.py -> build/lib.linux-armv7l-2.7/pymol/opengl/gl
creating build/lib.linux-armv7l-2.7/pymol/opengl/glu
copying modules/pymol/opengl/glu/gluconst.py -> build/lib.linux-armv7l-2.7/pymol/opengl/glu
copying modules/pymol/opengl/glu/__init__.py -> build/lib.linux-armv7l-2.7/pymol/opengl/glu
creating build/lib.linux-armv7l-2.7/pymol/opengl/glut
copying modules/pymol/opengl/glut/__init__.py -> build/lib.linux-armv7l-2.7/pymol/opengl/glut
copying modules/pymol/opengl/glut/glutconst.py -> build/lib.linux-armv7l-2.7/pymol/opengl/glut
creating build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/measurement.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/demo.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/message.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/benchmark.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/dragging.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/distance.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/filter.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/charge.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/box.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/pair_fit.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/annotation.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/fedora.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/stereodemo.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/label.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/cleanup.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/renaming.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/pseudoatom.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/mutagenesis.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/appearance.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/__init__.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/density.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/sculpting.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/toggle.py -> build/lib.linux-armv7l-2.7/pymol/wizard
copying modules/pymol/wizard/security.py -> build/lib.linux-armv7l-2.7/pymol/wizard
creating build/lib.linux-armv7l-2.7/pymol/plugins
copying modules/pymol/plugins/legacysupport.py -> build/lib.linux-armv7l-2.7/pymol/plugins
copying modules/pymol/plugins/managergui.py -> build/lib.linux-armv7l-2.7/pymol/plugins
copying modules/pymol/plugins/repository.py -> build/lib.linux-armv7l-2.7/pymol/plugins
copying modules/pymol/plugins/installation.py -> build/lib.linux-armv7l-2.7/pymol/plugins
copying modules/pymol/plugins/__init__.py -> build/lib.linux-armv7l-2.7/pymol/plugins
creating build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/protein.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/io.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/brick.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/protein_amber99.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/charge.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/mass.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/protein_residues.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/arc.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/cc1.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/water_residues.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/models.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/cex.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/cif.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/cpv.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/mol2.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/water_amber.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/gms.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/solvate.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/mae.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/map.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/lst.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/mmd.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/mol.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/pdb.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/pkl.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/protein_mmff.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/sdf.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/place.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/bond_mmff.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/xyz.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/protein_amber.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/dictdb.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/neighbor.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/gamess1.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/bonds.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/__init__.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/hetatm.py -> build/lib.linux-armv7l-2.7/chempy
copying modules/chempy/bond_amber.py -> build/lib.linux-armv7l-2.7/chempy
creating build/lib.linux-armv7l-2.7/chempy/bmin
copying modules/chempy/bmin/commands.py -> build/lib.linux-armv7l-2.7/chempy/bmin
copying modules/chempy/bmin/state.py -> build/lib.linux-armv7l-2.7/chempy/bmin
copying modules/chempy/bmin/util.py -> build/lib.linux-armv7l-2.7/chempy/bmin
copying modules/chempy/bmin/__init__.py -> build/lib.linux-armv7l-2.7/chempy/bmin
copying modules/chempy/bmin/realtime.py -> build/lib.linux-armv7l-2.7/chempy/bmin
creating build/lib.linux-armv7l-2.7/chempy/fast
copying modules/chempy/fast/__init__.py -> build/lib.linux-armv7l-2.7/chempy/fast
creating build/lib.linux-armv7l-2.7/chempy/champ
copying modules/chempy/champ/assign.py -> build/lib.linux-armv7l-2.7/chempy/champ
copying modules/chempy/champ/amber99.py -> build/lib.linux-armv7l-2.7/chempy/champ
copying modules/chempy/champ/formal_charges.py -> build/lib.linux-armv7l-2.7/chempy/champ
copying modules/chempy/champ/__init__.py -> build/lib.linux-armv7l-2.7/chempy/champ
creating build/lib.linux-armv7l-2.7/chempy/tinker
copying modules/chempy/tinker/state.py -> build/lib.linux-armv7l-2.7/chempy/tinker
copying modules/chempy/tinker/amber.py -> build/lib.linux-armv7l-2.7/chempy/tinker
copying modules/chempy/tinker/__init__.py -> build/lib.linux-armv7l-2.7/chempy/tinker
copying modules/chempy/tinker/realtime.py -> build/lib.linux-armv7l-2.7/chempy/tinker
copying modules/chempy/tinker/keyword.py -> build/lib.linux-armv7l-2.7/chempy/tinker
creating build/lib.linux-armv7l-2.7/chempy/fragments
copying modules/chempy/fragments/__init__.py -> build/lib.linux-armv7l-2.7/chempy/fragments
creating build/lib.linux-armv7l-2.7/pmg_tk
copying modules/pmg_tk/PyMOLMapLoad.py -> build/lib.linux-armv7l-2.7/pmg_tk
copying modules/pmg_tk/Demo.py -> build/lib.linux-armv7l-2.7/pmg_tk
copying modules/pmg_tk/Setting.py -> build/lib.linux-armv7l-2.7/pmg_tk
copying modules/pmg_tk/SetEditor.py -> build/lib.linux-armv7l-2.7/pmg_tk
copying modules/pmg_tk/ColorEditor.py -> build/lib.linux-armv7l-2.7/pmg_tk
copying modules/pmg_tk/PMGApp.py -> build/lib.linux-armv7l-2.7/pmg_tk
copying modules/pmg_tk/__init__.py -> build/lib.linux-armv7l-2.7/pmg_tk
creating build/lib.linux-armv7l-2.7/pmg_tk/skins
copying modules/pmg_tk/skins/__init__.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins
creating build/lib.linux-armv7l-2.7/pmg_tk/skins/demo
copying modules/pmg_tk/skins/demo/__init__.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/demo
creating build/lib.linux-armv7l-2.7/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/volume.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/ModalWindow.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/ColorRampModel.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/builder.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/ColorMap.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/hist.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/SimpleColorChooser.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal
copying modules/pmg_tk/skins/normal/__init__.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal
creating build/lib.linux-armv7l-2.7/pmg_tk/startup
copying modules/pmg_tk/startup/apbs_tools.py -> build/lib.linux-armv7l-2.7/pmg_tk/startup
copying modules/pmg_tk/startup/remote_pdb_load.py -> build/lib.linux-armv7l-2.7/pmg_tk/startup
copying modules/pmg_tk/startup/__init__.py -> build/lib.linux-armv7l-2.7/pmg_tk/startup
creating build/lib.linux-armv7l-2.7/pmg_wx
copying modules/pmg_wx/__init__.py -> build/lib.linux-armv7l-2.7/pmg_wx
creating build/lib.linux-armv7l-2.7/pymol2
copying modules/pymol2/make_cmd2.py -> build/lib.linux-armv7l-2.7/pymol2
copying modules/pymol2/__init__.py -> build/lib.linux-armv7l-2.7/pymol2
copying modules/pymol2/cmd2.py -> build/lib.linux-armv7l-2.7/pymol2
running build_ext
building 'pymol._cmd' extension
creating build/temp.linux-armv7l-2.7
creating build/temp.linux-armv7l-2.7/ov
creating build/temp.linux-armv7l-2.7/ov/src
creating build/temp.linux-armv7l-2.7/layer0
creating build/temp.linux-armv7l-2.7/layer1
creating build/temp.linux-armv7l-2.7/layer2
creating build/temp.linux-armv7l-2.7/layer3
creating build/temp.linux-armv7l-2.7/layer4
creating build/temp.linux-armv7l-2.7/layer5
creating build/temp.linux-armv7l-2.7/modules
creating build/temp.linux-armv7l-2.7/modules/cealign
creating build/temp.linux-armv7l-2.7/modules/cealign/src
creating build/temp.linux-armv7l-2.7/generated
creating build/temp.linux-armv7l-2.7/generated/src
creating build/temp.linux-armv7l-2.7/contrib
creating build/temp.linux-armv7l-2.7/contrib/uiuc
creating build/temp.linux-armv7l-2.7/contrib/uiuc/plugins
creating build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin
creating build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c ov/src/OVHeap.c -o build/temp.linux-armv7l-2.7/ov/src/OVHeap.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Parse.c -o build/temp.linux-armv7l-2.7/layer0/Parse.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Debug.c -o build/temp.linux-armv7l-2.7/layer0/Debug.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/P.c -o build/temp.linux-armv7l-2.7/layer1/P.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Queue.c -o build/temp.linux-armv7l-2.7/layer0/Queue.o -ffast-math -funroll-loops -O3 -fcommon
layer0/Parse.c: In function 'ParseFloat3List':
layer0/Parse.c:172:7: warning: array subscript has type 'char' [-Wchar-subscripts]
buf[blen] = 0;
^
layer0/Parse.c:174:2: warning: implicit declaration of function 'isdigit' [-Wimplicit-function-declaration]
if (!isdigit(buf[i]) && buf[i]!='.'){
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c ov/src/OVOneToAny.c -o build/temp.linux-armv7l-2.7/ov/src/OVOneToAny.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Crystal.c -o build/temp.linux-armv7l-2.7/layer0/Crystal.o -ffast-math -funroll-loops -O3 -fcommon
layer1/P.c: In function 'PLabelExprUsesVariable':
layer1/P.c:191:17: warning: variable 'buffer' set but not used [-Wunused-but-set-variable]
OrthoLineType buffer;
^
layer1/P.c: In function 'PAlterAtomState':
layer1/P.c:806:59: warning: variable 'z_id1' set but not used [-Wunused-but-set-variable]
PyObject *x_id1, *x_id2 = NULL, *y_id1, *y_id2 = NULL, *z_id1, *z_id2 = NULL;
^
layer1/P.c:806:36: warning: variable 'y_id1' set but not used [-Wunused-but-set-variable]
PyObject *x_id1, *x_id2 = NULL, *y_id1, *y_id2 = NULL, *z_id1, *z_id2 = NULL;
^
layer1/P.c:806:13: warning: variable 'x_id1' set but not used [-Wunused-but-set-variable]
PyObject *x_id1, *x_id2 = NULL, *y_id1, *y_id2 = NULL, *z_id1, *z_id2 = NULL;
^
layer1/P.c: In function 'PFlush':
layer1/P.c:2616:7: warning: implicit declaration of function 'OrthoCommandOutSize' [-Wimplicit-function-declaration]
while(size = OrthoCommandOutSize(G)){
^
layer1/P.c:2616:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
layer1/P.c: In function 'PFlushFast':
layer1/P.c:2660:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
while(size = OrthoCommandOutSize(G)){
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c ov/src/OVOneToOne.c -o build/temp.linux-armv7l-2.7/ov/src/OVOneToOne.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Map.c -o build/temp.linux-armv7l-2.7/layer0/Map.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Tracker.c -o build/temp.linux-armv7l-2.7/layer0/Tracker.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c ov/src/ov_utility.c -o build/temp.linux-armv7l-2.7/ov/src/ov_utility.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c ov/src/OVRandom.c -o build/temp.linux-armv7l-2.7/ov/src/OVRandom.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c ov/src/OVContext.c -o build/temp.linux-armv7l-2.7/ov/src/OVContext.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Feedback.c -o build/temp.linux-armv7l-2.7/layer0/Feedback.o -ffast-math -funroll-loops -O3 -fcommon
ov/src/OVContext.c: In function 'OVContext_Del':
ov/src/OVContext.c:21:13: warning: variable 'heap' set but not used [-Wunused-but-set-variable]
OVHeap *heap = I->heap;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c ov/src/OVHeapArray.c -o build/temp.linux-armv7l-2.7/ov/src/OVHeapArray.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c ov/src/OVLexicon.c -o build/temp.linux-armv7l-2.7/ov/src/OVLexicon.o -ffast-math -funroll-loops -O3 -fcommon
ov/src/OVLexicon.c: In function 'OVLexicon_BorrowFromCString':
ov/src/OVLexicon.c:360:11: warning: variable 'cur_index' set but not used [-Wunused-but-set-variable]
ov_word cur_index = 0;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Match.c -o build/temp.linux-armv7l-2.7/layer0/Match.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Vector.c -o build/temp.linux-armv7l-2.7/layer0/Vector.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Raw.c -o build/temp.linux-armv7l-2.7/layer0/Raw.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Tetsurf.c -o build/temp.linux-armv7l-2.7/layer0/Tetsurf.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/MemoryCache.c -o build/temp.linux-armv7l-2.7/layer0/MemoryCache.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Block.c -o build/temp.linux-armv7l-2.7/layer0/Block.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/ShaderMgr.c -o build/temp.linux-armv7l-2.7/layer0/ShaderMgr.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Control.c -o build/temp.linux-armv7l-2.7/layer1/Control.o -ffast-math -funroll-loops -O3 -fcommon
layer0/ShaderMgr.c: In function 'CShaderPrg_ReplaceStringsInPlace':
layer0/ShaderMgr.c:153:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
while(rstr=strstr(dest_line, replaceStrings[i])){
^
layer0/ShaderMgr.c: In function 'CShaderMgr_Reload_Shader_Variables':
layer0/ShaderMgr.c:386:7: warning: variable 'bg_image_mode_solid' set but not used [-Wunused-but-set-variable]
int bg_image_mode_solid;
^
layer0/ShaderMgr.c: In function 'CShaderPrg_BindAttribLocations':
layer0/ShaderMgr.c:491:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (err = glGetError()){
^
layer0/ShaderMgr.c:495:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (err = glGetError()){
^
layer0/ShaderMgr.c:499:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (err = glGetError()){
^
layer0/ShaderMgr.c: In function 'CShaderPrg_BindCylinderAttribLocations':
layer0/ShaderMgr.c:513:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (err = glGetError()){
^
layer0/ShaderMgr.c:517:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (err = glGetError()){
^
layer0/ShaderMgr.c:521:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (err = glGetError()){
^
layer0/ShaderMgr.c:525:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (err = glGetError()){
^
layer0/ShaderMgr.c: In function 'ShaderMgrConfig':
layer0/ShaderMgr.c:845:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (err = glGetError()){
^
layer0/ShaderMgr.c:849:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (err = glGetError()){
^
layer0/ShaderMgr.c: In function 'CShaderMgr_ReadShaderFromDisk':
layer0/ShaderMgr.c:1185:7: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'size_t' [-Wformat=]
" PyMOLShader_NewFromFile-Error: size(%ld)!=res(%ld)\n", size,res ENDFB(G);
^
layer0/ShaderMgr.c: In function 'CShaderPrg_Enable_CylinderShader':
layer0/ShaderMgr.c:1838:10: warning: variable 'm' set but not used [-Wunused-but-set-variable]
float *m;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Isosurf.c -o build/temp.linux-armv7l-2.7/layer0/Isosurf.o -ffast-math -funroll-loops -O3 -fcommon
layer1/Control.c: In function 'ControlDrag':
layer1/Control.c:251:7: warning: variable 'width' set but not used [-Wunused-but-set-variable]
int width;
^
layer0/Isosurf.c: In function 'IsosurfNewFromPyList':
layer0/Isosurf.c:168:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Basis.c -o build/temp.linux-armv7l-2.7/layer1/Basis.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/TypeFace.c -o build/temp.linux-armv7l-2.7/layer1/TypeFace.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Font.c -o build/temp.linux-armv7l-2.7/layer1/Font.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/CGO.c -o build/temp.linux-armv7l-2.7/layer1/CGO.o -ffast-math -funroll-loops -O3 -fcommon
layer1/CGO.c: In function 'CGONewFromPyList':
layer1/CGO.c:329:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
layer1/CGO.c: In function 'CGOFromFloatArray':
layer1/CGO.c:526:7: warning: variable 'c' set but not used [-Wunused-but-set-variable]
int c;
^
layer1/CGO.c: In function 'CGOCombineBeginEnd':
layer1/CGO.c:1915:11: warning: variable 'pickColorValsUC' set but not used [-Wunused-but-set-variable]
uchar *pickColorValsUC;
^
layer1/CGO.c: In function 'CGOCountNumVerticesForScreen':
layer1/CGO.c:2282:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
while(op = (CGO_MASK & CGO_read_int(pc))) {
^
layer1/CGO.c: In function 'OptimizePointsToVBO':
layer1/CGO.c:2612:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: OptimizePointsToVBO() BEFORE glGenBuffers returns err=%d\n");
^
layer1/CGO.c:2615:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: OptimizePointsToVBO() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:2619:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: OptimizePointsToVBO() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:2627:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: OptimizePointsToVBO() glBufferData returns err=%d\n");
^
layer1/CGO.c:2641:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: OptimizePointsToVBO() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:2652:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: OptimizePointsToVBO() glBufferData returns err=%d\n");
^
layer1/CGO.c:2658:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: OptimizePointsToVBO() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:2669:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: OptimizePointsToVBO() glBufferData returns err=%d\n");
^
layer1/CGO.c:2420:9: warning: variable 'err' set but not used [-Wunused-but-set-variable]
short err = 0;
^
layer1/CGO.c: In function 'CGOProcessCGOtoArrays':
layer1/CGO.c:2700:9: warning: variable 'err' set but not used [-Wunused-but-set-variable]
short err = 0;
^
layer1/CGO.c: In function 'CGOProcessScreenCGOtoArrays':
layer1/CGO.c:2982:8: warning: variable 'has_texcoord' set but not used [-Wunused-but-set-variable]
short has_texcoord = false;
^
layer1/CGO.c:2936:9: warning: variable 'err' set but not used [-Wunused-but-set-variable]
short err = 0;
^
layer1/CGO.c: In function 'CGOOptimizeToVBONotIndexedWithReturnedData':
layer1/CGO.c:3190:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:3194:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3202:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3206:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3218:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3222:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3234:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3238:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3245:4: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3475:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:3479:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3487:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3491:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3503:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3507:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3519:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBONotIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3111:9: warning: variable 'err' set but not used [-Wunused-but-set-variable]
short err = 0;
^
layer1/CGO.c: In function 'CGOOptimizeToVBOIndexedWithColorImpl':
layer1/CGO.c:3860:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() BEFORE glGenBuffers returns err=%d\n");
^
layer1/CGO.c:3863:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:3867:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3875:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3879:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3891:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3895:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3907:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3911:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3919:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3923:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:3930:4: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:4170:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() BEFORE glGenBuffers returns err=%d\n");
^
layer1/CGO.c:4173:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:4177:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:4185:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:4189:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:4201:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:4205:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:4217:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:4221:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:4229:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeToVBOIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c:3601:9: warning: variable 'err' set but not used [-Wunused-but-set-variable]
short err = 0;
^
layer1/CGO.c: In function 'CGOOptimizeGLSLCylindersToVBOIndexedImpl':
layer1/CGO.c:4592:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeGLSLCylindersToVBO() BEFORE glGenBuffers returns err=%d\n");
^
layer1/CGO.c:4595:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeGLSLCylindersToVBO() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:4599:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeGLSLCylindersToVBO() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:4632:4: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeGLSLCylindersToVBO() glBufferData returns err=%d\n");
^
layer1/CGO.c:4638:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeGLSLCylindersToVBO() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:4642:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeGLSLCylindersToVBO() glBufferData returns err=%d\n");
^
layer1/CGO.c: In function 'CGOOptimizeSpheresToVBONonIndexedImpl':
layer1/CGO.c:4903:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeSpheresToVBONonIndexed() BEFORE glGenBuffers returns err=%d\n");
^
layer1/CGO.c:4906:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeSpheresToVBONonIndexed() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:4910:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeSpheresToVBONonIndexed() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:4934:4: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeSpheresToVBONonIndexed() glBufferData returns err=%d\n");
^
layer1/CGO.c: In function 'CGOSimplify':
layer1/CGO.c:5137:11: warning: variable 'pickColorValsUC' set but not used [-Wunused-but-set-variable]
uchar *pickColorValsUC;
^
layer1/CGO.c: In function 'CGOOptimizeTextures':
layer1/CGO.c:5351:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeTextures() BEFORE glGenBuffers returns err=%d\n");
^
layer1/CGO.c:5355:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeTextures() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:5358:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeTextures() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:5366:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeTextures() glBufferData returns err=%d\n");
^
layer1/CGO.c:5371:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeTextures() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:5378:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeTextures() glBufferData returns err=%d\n");
^
layer1/CGO.c:5382:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeTextures() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:5389:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeTextures() glBufferData returns err=%d\n")
^
layer1/CGO.c: In function 'CGOOptimizeLabels':
layer1/CGO.c:5548:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() BEFORE glGenBuffers returns err=%d\n");
^
layer1/CGO.c:5552:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:5555:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:5563:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() glBufferData returns err=%d\n");
^
layer1/CGO.c:5568:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:5575:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() glBufferData returns err=%d\n");
^
layer1/CGO.c:5579:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:5586:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() glBufferData returns err=%d\n")
^
layer1/CGO.c:5590:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:5597:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeLabels() glBufferData returns err=%d\n")
^
layer1/CGO.c: In function 'CGOExpandDrawTextures':
layer1/CGO.c:5645:30: warning: variable 'onvals' set but not used [-Wunused-but-set-variable]
int nvals = narrays*nverts, onvals;
^
layer1/CGO.c: In function 'CGORenderRay':
layer1/CGO.c:6186:42: warning: variable 'pickColorVals' set but not used [-Wunused-but-set-variable]
float *normalVals = 0, *colorVals = 0, *pickColorVals;
^
layer1/CGO.c: In function 'CGO_gl_draw_buffers_indexed':
layer1/CGO.c:6628:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("beginning of CGO_gl_draw_buffers_indexed\n");
^
layer1/CGO.c:6628:3: warning: too many arguments for format [-Wformat-extra-args]
layer1/CGO.c:6754:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("CGO_gl_draw_buffers_indexed: before glDrawElements\n");
^
layer1/CGO.c:6754:3: warning: too many arguments for format [-Wformat-extra-args]
layer1/CGO.c:6756:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("CGO_gl_draw_buffers_indexed: after glDrawElements\n");
^
layer1/CGO.c:6756:3: warning: too many arguments for format [-Wformat-extra-args]
layer1/CGO.c:6801:1: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("CGO_gl_draw_buffers_indexed: end\n");
^
layer1/CGO.c:6801:1: warning: too many arguments for format [-Wformat-extra-args]
layer1/CGO.c: In function 'CGO_gl_draw_label':
layer1/CGO.c:7102:50: warning: variable 'textExtent' set but not used [-Wunused-but-set-variable]
float worldPos[4], screenMin[3], screenMax[3], textExtent[4];
^
layer1/CGO.c:7102:36: warning: variable 'screenMax' set but not used [-Wunused-but-set-variable]
float worldPos[4], screenMin[3], screenMax[3], textExtent[4];
^
layer1/CGO.c:7102:22: warning: variable 'screenMin' set but not used [-Wunused-but-set-variable]
float worldPos[4], screenMin[3], screenMax[3], textExtent[4];
^
layer1/CGO.c: In function 'CGO_gl_draw_texture':
layer1/CGO.c:7143:50: warning: variable 'textExtent' set but not used [-Wunused-but-set-variable]
float worldPos[4], screenMin[3], screenMax[3], textExtent[4];
^
layer1/CGO.c:7143:36: warning: variable 'screenMax' set but not used [-Wunused-but-set-variable]
float worldPos[4], screenMin[3], screenMax[3], textExtent[4];
^
layer1/CGO.c:7143:22: warning: variable 'screenMin' set but not used [-Wunused-but-set-variable]
float worldPos[4], screenMin[3], screenMax[3], textExtent[4];
^
layer1/CGO.c: In function 'CGORenderGLPicking':
layer1/CGO.c:7661:73: warning: variable 'pbnd' set but not used [-Wunused-but-set-variable]
int nverts = CGO_get_int(pc+3), v, pl, idx = -1, pidx, bnd = -1, pbnd;
^
layer1/CGO.c:7661:57: warning: variable 'pidx' set but not used [-Wunused-but-set-variable]
int nverts = CGO_get_int(pc+3), v, pl, idx = -1, pidx, bnd = -1, pbnd;
^
layer1/CGO.c: In function 'CGOSimpleCone':
layer1/CGO.c:8729:15: warning: variable 'nub2' set but not used [-Wunused-but-set-variable]
float nub1, nub2;
^
layer1/CGO.c:8729:9: warning: variable 'nub1' set but not used [-Wunused-but-set-variable]
float nub1, nub2;
^
In file included from layer1/CGO.c:24:0:
layer1/CGO.c: In function 'CGOGetSizeWithoutStops':
layer1/CGO.h:35:26: warning: value computed is not used [-Wunused-value]
#define CGO_read_int(p) (*((int*)((p)++)))
^
layer1/CGO.c:9009:5: note: in expansion of macro 'CGO_read_int'
CGO_read_int(pc);
^
layer1/CGO.c: In function 'CGOChangeShadersTo':
layer1/CGO.c:9531:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
while(op = (CGO_MASK & CGO_read_int(pc))) {
^
layer1/CGO.c: In function 'CGOOptimizeScreenTexturesAndPolygons':
layer1/CGO.c:9649:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeScreenTexturesAndPolygons() glGenBuffers returns err=%d\n");
^
layer1/CGO.c:9653:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeScreenTexturesAndPolygons() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:9661:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeScreenTexturesAndPolygons() glBufferData returns err=%d\n");
^
layer1/CGO.c:9665:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeScreenTexturesAndPolygons() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:9673:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeScreenTexturesAndPolygons() glBufferData returns err=%d\n");
^
layer1/CGO.c:9677:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeScreenTexturesAndPolygons() glBindBuffer returns err=%d\n");
^
layer1/CGO.c:9688:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
CHECK_GL_ERROR_OK("ERROR: CGOOptimizeScreenTexturesAndPolygons() glBufferData returns err=%d\n");
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Matrix.c -o build/temp.linux-armv7l-2.7/layer0/Matrix.o -ffast-math -funroll-loops -O3 -fcommon
layer1/CGO.c: In function 'CGO_gl_draw_label':
layer1/CGO.c:7126:15: warning: 'buf1' may be used uninitialized in this function [-Wmaybe-uninitialized]
glBindBuffer(GL_ARRAY_BUFFER, buf1);
^
layer1/CGO.c:7128:15: warning: 'buf2' may be used uninitialized in this function [-Wmaybe-uninitialized]
glBindBuffer(GL_ARRAY_BUFFER, buf2);
^
layer1/CGO.c: In function 'CGO_gl_draw_texture':
layer1/CGO.c:7167:15: warning: 'buf1' may be used uninitialized in this function [-Wmaybe-uninitialized]
glBindBuffer(GL_ARRAY_BUFFER, buf1);
^
layer1/CGO.c:7169:15: warning: 'buf2' may be used uninitialized in this function [-Wmaybe-uninitialized]
glBindBuffer(GL_ARRAY_BUFFER, buf2);
^
layer0/Matrix.c: In function 'MatrixFitRMSTTTf':
layer0/Matrix.c:1167:18: warning: variable 'ix' set but not used [-Wunused-but-set-variable]
int iters, ix, iy, iz, unchanged = 0;
^
layer1/CGO.c: In function 'CGO_gl_draw_buffers':
layer1/CGO.c:6615:23: warning: 'shaderPrg' may be used uninitialized in this function [-Wmaybe-uninitialized]
CShaderPrg_Disable(shaderPrg);
^
layer1/CGO.c: In function 'CGO_gl_draw_arrays':
layer1/CGO.c:6476:12: warning: 'vertexVals' may be used uninitialized in this function [-Wmaybe-uninitialized]
float *vertexVals;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Field.c -o build/temp.linux-armv7l-2.7/layer0/Field.o -ffast-math -funroll-loops -O3 -fcommon
layer0/Field.c: In function 'FieldNewFromPyList':
layer0/Field.c:126:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
layer0/Field.c:125:16: warning: variable 'n_elem' set but not used [-Wunused-but-set-variable]
unsigned int n_elem;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Triangle.c -o build/temp.linux-armv7l-2.7/layer0/Triangle.o -ffast-math -funroll-loops -O3 -fcommon
layer0/Triangle.c: In function 'TriangleBuildLast':
layer0/Triangle.c:1511:7: warning: variable 'both_active' set but not used [-Wunused-but-set-variable]
int both_active;
^
layer1/CGO.c: In function 'CGOCombineBeginEnd':
layer1/CGO.c:1967:73: warning: 'normalVals' may be used uninitialized in this function [-Wmaybe-uninitialized]
normalVals[pl] = tmp_ptr[0]; normalVals[pl+1] = tmp_ptr[1]; normalVals[pl+2] = tmp_ptr[2];
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Deferred.c -o build/temp.linux-armv7l-2.7/layer0/Deferred.o -ffast-math -funroll-loops -O3 -fcommon
layer1/CGO.c: In function 'OptimizePointsToVBO':
layer1/CGO.c:2577:29: warning: 'pickColorValsDA' may be used uninitialized in this function [-Wmaybe-uninitialized]
SetVertexValuesForVBO(I->G, cgo, arrays, pl, plc, cnt, incr++,
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Err.c -o build/temp.linux-armv7l-2.7/layer0/Err.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/ScrollBar.c -o build/temp.linux-armv7l-2.7/layer1/ScrollBar.o -ffast-math -funroll-loops -O3 -fcommon
layer1/CGO.c: In function 'CGOProcessCGOtoArrays':
layer1/CGO.c:2857:29: warning: 'pickColorValsDA' may be used uninitialized in this function [-Wmaybe-uninitialized]
SetVertexValuesForVBO(G, cgo, arrays, pl, plc, cnt, incr++,
^
layer1/CGO.c:2857:29: warning: 'accessibilityValsDA' may be used uninitialized in this function [-Wmaybe-uninitialized]
layer1/CGO.c:2857:29: warning: 'normalValsDA' may be used uninitialized in this function [-Wmaybe-uninitialized]
layer1/CGO.c: In function 'CGOProcessScreenCGOtoArrays':
layer1/CGO.c:3036:72: warning: array subscript is above array bounds [-Warray-bounds]
colorVals[cpl+2] = cgo->color[2]; colorVals[cpl+3] = cgo->color[3];
^
layer1/CGO.c: In function 'CGOOptimizeToVBONotIndexedWithReturnedData':
layer1/CGO.c:3399:29: warning: 'pickColorValsDA' may be used uninitialized in this function [-Wmaybe-uninitialized]
SetVertexValuesForVBO(I->G, cgo, arrays, pl, plc, cnt, incr++,
^
layer1/CGO.c:3399:29: warning: 'normalValsDA' may be used uninitialized in this function [-Wmaybe-uninitialized]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Text.c -o build/temp.linux-armv7l-2.7/layer1/Text.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Util.c -o build/temp.linux-armv7l-2.7/layer0/Util.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/os_gl.c -o build/temp.linux-armv7l-2.7/layer0/os_gl.o -ffast-math -funroll-loops -O3 -fcommon
layer1/CGO.c: In function 'CGOSimplify':
layer1/CGO.c:5179:73: warning: 'normalVals' may be used uninitialized in this function [-Wmaybe-uninitialized]
normalVals[pl] = tmp_ptr[0]; normalVals[pl+1] = tmp_ptr[1]; normalVals[pl+2] = tmp_ptr[2];
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Texture.c -o build/temp.linux-armv7l-2.7/layer0/Texture.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Sphere.c -o build/temp.linux-armv7l-2.7/layer0/Sphere.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/MyPNG.c -o build/temp.linux-armv7l-2.7/layer0/MyPNG.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Pixmap.c -o build/temp.linux-armv7l-2.7/layer0/Pixmap.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/Word.c -o build/temp.linux-armv7l-2.7/layer0/Word.o -ffast-math -funroll-loops -O3 -fcommon
layer1/CGO.c: In function 'CGORenderRay':
layer1/CGO.c:6185:9: warning: 'vertexVals' may be used uninitialized in this function [-Wmaybe-uninitialized]
float *vertexVals;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Shaker.c -o build/temp.linux-armv7l-2.7/layer1/Shaker.o -ffast-math -funroll-loops -O3 -fcommon
layer1/CGO.c: In function 'CGORenderGLPicking':
layer1/CGO.c:7717:13: warning: 'pca' may be used uninitialized in this function [-Wmaybe-uninitialized]
float *pca;
^
layer1/CGO.c:7739:26: warning: 'nverts' may be used uninitialized in this function [-Wmaybe-uninitialized]
pickColorVals = pca + nverts;
^
layer1/Shaker.c: In function 'ShakerGetPyra':
layer1/Shaker.c:73:16: warning: variable 't0' set but not used [-Wunused-but-set-variable]
float av[3], t0[3];
^
layer1/Shaker.c: In function 'ShakerDoPyra':
layer1/Shaker.c:94:16: warning: variable 't0' set but not used [-Wunused-but-set-variable]
float av[3], t0[3], push[3];
^
layer1/CGO.c: In function 'CGORenderGL':
layer1/CGO.c:8049:12: warning: 'normalVals_tmp' may be used uninitialized in this function [-Wmaybe-uninitialized]
n2 = normalVals_tmp + 3;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/PConv.c -o build/temp.linux-armv7l-2.7/layer1/PConv.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer0/MemoryDebug.c -o build/temp.linux-armv7l-2.7/layer0/MemoryDebug.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/SculptCache.c -o build/temp.linux-armv7l-2.7/layer2/SculptCache.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepNonbonded.c -o build/temp.linux-armv7l-2.7/layer2/RepNonbonded.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/FontGLUT8x13.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUT8x13.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/FontGLUT9x15.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUT9x15.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/FontGLUTHel10.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel10.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/FontGLUTHel12.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel12.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/FontGLUTHel18.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel18.o -ffast-math -funroll-loops -O3 -fcommon
layer1/CGO.c: In function 'CGOOptimizeGLSLCylindersToVBOIndexedImpl':
layer1/CGO.c:4613:15: warning: 'org_colorVals' may be used uninitialized in this function [-Wmaybe-uninitialized]
glBufferData(GL_ARRAY_BUFFER, sizeof(float)*total_vert*4, org_colorVals, GL_STATIC_DRAW);
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/FontType.c -o build/temp.linux-armv7l-2.7/layer1/FontType.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/Sculpt.c -o build/temp.linux-armv7l-2.7/layer2/Sculpt.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Movie.c -o build/temp.linux-armv7l-2.7/layer1/Movie.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Pop.c -o build/temp.linux-armv7l-2.7/layer1/Pop.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Ray.c -o build/temp.linux-armv7l-2.7/layer1/Ray.o -ffast-math -funroll-loops -O3 -fcommon
In file included from layer1/Ray.c:44:0:
layer1/Basis.c: In function 'ConeLineToSphereCapped':
layer1/Basis.c:846:11: warning: variable 'base2orig_len' set but not used [-Wunused-but-set-variable]
float base2orig_len, base2orig_len_sq;
^
layer1/Basis.c: In function 'BasisHitShadow':
layer1/Basis.c:2361:7: warning: variable 'check_interior_flag' set but not used [-Wunused-but-set-variable]
int check_interior_flag;
^
layer1/Basis.c:2360:7: warning: variable 'excl_trans_flag' set but not used [-Wunused-but-set-variable]
int excl_trans_flag;
^
layer1/Ray.c: In function 'RayRenderG3d':
layer1/Ray.c:967:36: warning: variable 'scale_z' set but not used [-Wunused-but-set-variable]
register float scale_x, scale_y, scale_z;
^
layer1/Ray.c: In function 'RayRenderIDTF':
layer1/Ray.c:2132:11: warning: variable 'mesh_start' set but not used [-Wunused-but-set-variable]
int mesh_start = 0;
^
layer1/Ray.c: In function 'RayRenderPOV':
layer1/Ray.c:2445:28: warning: variable 'bkrd_bottom' set but not used [-Wunused-but-set-variable]
float *bkrd, *bkrd_top, *bkrd_bottom;
^
layer1/Ray.c:2445:17: warning: variable 'bkrd_top' set but not used [-Wunused-but-set-variable]
float *bkrd, *bkrd_top, *bkrd_bottom;
^
layer1/Ray.c:2443:7: warning: variable 'fogRangeFlag' set but not used [-Wunused-but-set-variable]
int fogRangeFlag = false;
^
layer1/Ray.c:2442:7: warning: variable 'fogFlag' set but not used [-Wunused-but-set-variable]
int fogFlag = false;
^
layer1/Ray.c: In function 'RayRender':
layer1/Ray.c:6119:15: warning: variable 'dc' set but not used [-Wunused-but-set-variable]
int dc = 0;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepDihedral.c -o build/temp.linux-armv7l-2.7/layer2/RepDihedral.o -ffast-math -funroll-loops -O3 -fcommon
layer2/RepDihedral.c: In function 'RepDihedralRender':
layer2/RepDihedral.c:101:12: warning: value computed is not used [-Wunused-value]
ok &+ ray->fSausage3fv(ray, v, v + 3, radius, vc, vc);
^
layer2/RepDihedral.c: In function 'RepDihedralNew':
layer2/RepDihedral.c:527:15: warning: variable 'mod_pos' set but not used [-Wunused-but-set-variable]
float mod_pos;
^
layer2/RepDihedral.c:383:37: warning: variable 'v6' set but not used [-Wunused-but-set-variable]
float *v1, *v2, *v3, *v4, *v5, *v6;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepEllipsoid.c -o build/temp.linux-armv7l-2.7/layer2/RepEllipsoid.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectMolecule.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectVolume.c -o build/temp.linux-armv7l-2.7/layer2/ObjectVolume.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectMolecule.c: In function 'ObjectMoleculeFixSeleHydrogens':
layer2/ObjectMolecule.c:686:13: warning: variable 'cs' set but not used [-Wunused-but-set-variable]
CoordSet *cs;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadTRJFile':
layer2/ObjectMolecule.c:841:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadPMOFile':
layer2/ObjectMolecule.c:2784:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeRenderSele':
layer2/ObjectMolecule.c:3219:51: warning: variable 'ai' set but not used [-Wunused-but-set-variable]
register AtomInfoType *atInfo = I->AtomInfo, *ai;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadXYZFile':
layer2/ObjectMolecule.c:3810:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeAttach':
layer2/ObjectMolecule.c:4406:10: warning: variable 'nn' set but not used [-Wunused-but-set-variable]
int n, nn;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeFindOpenValenceVector':
layer2/ObjectMolecule.c:4629:22: warning: variable 'ai1' set but not used [-Wunused-but-set-variable]
AtomInfoType *ai, *ai1;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeCreateSpheroid':
layer2/ObjectMolecule.c:4810:10: warning: variable 'spl' set but not used [-Wunused-but-set-variable]
float *spl;
^
In file included from layer1/Ray.c:44:0:
layer1/Basis.c: In function 'BasisMakeMap':
layer1/Basis.c:3195:13: warning: 'n' may be used uninitialized in this function [-Wmaybe-uninitialized]
printf("BasisMakeMap: %d>%d\n", n, extra_vert);
^
In file included from layer1/Ray.c:24:0:
layer0/Err.h:29:43: warning: 'tempRef' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define CHECKOK(ok, var) ok &= var ? true : false;
^
In file included from layer1/Ray.c:44:0:
layer1/Basis.c:2871:17: note: 'tempRef' was declared here
register int *tempRef;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeGuessValences':
layer2/ObjectMolecule.c:6279:29: warning: variable 'bnd2' set but not used [-Wunused-but-set-variable]
int bnd2[5];
^
layer2/ObjectMolecule.c:6053:38: warning: variable 'c2_len' set but not used [-Wunused-but-set-variable]
float c1_len = 0.0F, c2_len = 0.0F;
^
layer2/ObjectMolecule.c:6053:23: warning: variable 'c1_len' set but not used [-Wunused-but-set-variable]
float c1_len = 0.0F, c2_len = 0.0F;
^
layer2/ObjectMolecule.c:6052:56: warning: variable 'c2_bd' set but not used [-Wunused-but-set-variable]
int c1_at = -1, c2_at = -1, c1_bd = 0, c2_bd = 0;
^
layer2/ObjectMolecule.c:6052:45: warning: variable 'c1_bd' set but not used [-Wunused-but-set-variable]
int c1_at = -1, c2_at = -1, c1_bd = 0, c2_bd = 0;
^
layer2/ObjectMolecule.c:6047:68: warning: variable 'o4_len' set but not used [-Wunused-but-set-variable]
float o1_len = 0.0F, o2_len = 0.0F, o3_len = 0.0F, o4_len = 0.0F;
^
layer2/ObjectMolecule.c:6047:53: warning: variable 'o3_len' set but not used [-Wunused-but-set-variable]
float o1_len = 0.0F, o2_len = 0.0F, o3_len = 0.0F, o4_len = 0.0F;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeMOL2SetFormalCharges':
layer2/ObjectMolecule.c:8887:46: warning: variable 'n' set but not used [-Wunused-but-set-variable]
int at, fcharge = 0, isProtein = 0, k, n;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeMOL2Str2CoordSet':
layer2/ObjectMolecule.c:9287:38: warning: variable 'resv_flag' set but not used [-Wunused-but-set-variable]
int chain_flag, resn_flag, resv_flag;
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeInvalidateAtomType':
layer2/ObjectMolecule.c:12111:16: warning: variable 'a' set but not used [-Wunused-but-set-variable]
int ai, atm, a;
^
layer2/ObjectVolume.c: In function 'ObjectVolumeNewFromPyList':
layer2/ObjectVolume.c:238:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
layer2/ObjectVolume.c: In function 'ObjectVolumeUpdate':
layer2/ObjectVolume.c:583:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/ObjectVolume.c: In function 'ObjectVolumeRender':
layer2/ObjectVolume.c:911:20: warning: variable 'max_ext' set but not used [-Wunused-but-set-variable]
float *min_ext, *max_ext, *corner, *m;
^
layer2/ObjectVolume.c:911:10: warning: variable 'min_ext' set but not used [-Wunused-but-set-variable]
float *min_ext, *max_ext, *corner, *m;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectMolecule2.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule2.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectMolecule2.c: In function 'ObjectMoleculePDBStr2CoordSet':
layer2/ObjectMolecule2.c:1671:7: warning: variable 'have_conect' set but not used [-Wunused-but-set-variable]
int have_conect = false;
^
layer2/ObjectMolecule2.c:1670:7: warning: variable 'seen_conect' set but not used [-Wunused-but-set-variable]
int seen_conect = false;
^
layer2/ObjectMolecule2.c: In function 'ObjectMoleculeNewFromPyList':
layer2/ObjectMolecule2.c:3682:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Character.c -o build/temp.linux-armv7l-2.7/layer1/Character.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/View.c -o build/temp.linux-armv7l-2.7/layer1/View.o -ffast-math -funroll-loops -O3 -fcommon
layer1/View.c: In function 'matrix_interpolate':
layer1/View.c:657:23: warning: variable 'center' set but not used [-Wunused-but-set-variable]
float p0[3], p1[3], center[3];
^
layer1/View.c:657:16: warning: variable 'p1' set but not used [-Wunused-but-set-variable]
float p0[3], p1[3], center[3];
^
layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadRSTFile':
layer2/ObjectMolecule.c:1331:10: warning: 'buffer' may be used uninitialized in this function [-Wmaybe-uninitialized]
mfree(buffer);
^
In file included from layer2/ObjectMolecule2.c:30:0:
layer2/ObjectMolecule2.c: In function 'ObjectMoleculePDBStr2CoordSet':
layer0/Feedback.h:259:97: warning: 'nReal' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define PRINTFB(G,sysmod,mask) { FeedbackLineType _FBstr; if(Feedback(G,sysmod,mask)) {(sprintf)( _FBstr,
^
layer2/ObjectMolecule2.c:1641:15: note: 'nReal' was declared here
int b1, b2, nReal, maxAt;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Color.c -o build/temp.linux-armv7l-2.7/layer1/Color.o -ffast-math -funroll-loops -O3 -fcommon
layer1/Color.c: In function 'ColorExtFromPyList':
layer1/Color.c:404:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
layer1/Color.c: In function 'ColorDef':
layer1/Color.c:574:7: warning: variable 'best' set but not used [-Wunused-but-set-variable]
int best;
^
layer1/Color.c: In function 'Color3fToInt':
layer1/Color.c:3065:16: warning: unused variable 'result' [-Wunused-variable]
unsigned int result;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Rep.c -o build/temp.linux-armv7l-2.7/layer1/Rep.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Seq.c -o build/temp.linux-armv7l-2.7/layer1/Seq.o -ffast-math -funroll-loops -O3 -fcommon
layer1/Seq.c: In function 'SeqDrag':
layer1/Seq.c:181:16: warning: variable 'col' set but not used [-Wunused-but-set-variable]
CSeqCol *col;
^
layer1/Seq.c: In function 'SeqRelease':
layer1/Seq.c:212:16: warning: variable 'col' set but not used [-Wunused-but-set-variable]
CSeqCol *col;
^
layer1/Seq.c: In function 'SeqClick':
layer1/Seq.c:266:16: warning: variable 'col' set but not used [-Wunused-but-set-variable]
CSeqCol *col;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Setting.c -o build/temp.linux-armv7l-2.7/layer1/Setting.o -ffast-math -funroll-loops -O3 -fcommon
layer1/Setting.c: In function 'SettingSet_color':
layer1/Setting.c:1743:7: warning: implicit declaration of function 'ParseFloat3List' [-Wimplicit-function-declaration]
ok = ParseFloat3List(value, vals);
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Ortho.c -o build/temp.linux-armv7l-2.7/layer1/Ortho.o -ffast-math -funroll-loops -O3 -fcommon
layer1/Ortho.c: In function 'OrthoDoDraw':
layer1/Ortho.c:1514:10: warning: variable 'v' set but not used [-Wunused-but-set-variable]
float *v;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/PyMOLObject.c -o build/temp.linux-armv7l-2.7/layer1/PyMOLObject.o -ffast-math -funroll-loops -O3 -fcommon
layer1/Ortho.c: In function 'bg_grad':
layer1/Ortho.c:1424:14: warning: 'cgo2' may be used uninitialized in this function [-Wmaybe-uninitialized]
CGOFree(cgo2);
^
layer1/PyMOLObject.c: In function 'ObjectMotion':
layer1/PyMOLObject.c:383:13: warning: variable 'zero_flag' set but not used [-Wunused-but-set-variable]
int zero_flag = -1;
^
layer1/PyMOLObject.c: In function 'ObjectStateFromPyList':
layer1/PyMOLObject.c:1468:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll = 0;
^
In file included from layer0/OOMac.h:21:0,
from layer2/ObjectMolecule2.c:26:
layer2/ObjectMolecule2.c: In function 'ObjectMoleculeSort':
layer0/Err.h:29:43: warning: 'dAtmToIdx' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define CHECKOK(ok, var) ok &= var ? true : false;
^
layer2/ObjectMolecule2.c:4308:8: note: 'dAtmToIdx' was declared here
int *dAtmToIdx;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Wizard.c -o build/temp.linux-armv7l-2.7/layer1/Wizard.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepMesh.c -o build/temp.linux-armv7l-2.7/layer2/RepMesh.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/GadgetSet.c -o build/temp.linux-armv7l-2.7/layer2/GadgetSet.o -ffast-math -funroll-loops -O3 -fcommon
layer2/GadgetSet.c: In function 'GadgetSetFromPyList':
layer2/GadgetSet.c:93:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
layer2/GadgetSet.c: In function 'GadgetSetRender':
layer2/GadgetSet.c:303:13: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/GadgetSet.c:290:9: warning: variable 'use_shader' set but not used [-Wunused-but-set-variable]
short use_shader;
^
layer2/RepMesh.c: In function 'RepMeshRender':
layer2/RepMesh.c:314:27: warning: 'origin' may be used uninitialized in this function [-Wmaybe-uninitialized]
axis[1] = v[1] - origin[1];
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectCGO.c -o build/temp.linux-armv7l-2.7/layer2/ObjectCGO.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectCGO.c: In function 'ObjectCGOStateFromPyList':
layer2/ObjectCGO.c:69:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Extrude.c -o build/temp.linux-armv7l-2.7/layer1/Extrude.o -ffast-math -funroll-loops -O3 -fcommon
layer1/Extrude.c: In function 'ExtrudeCGOSurfaceVariableTube':
layer1/Extrude.c:1292:14: warning: variable 'stop' set but not used [-Wunused-but-set-variable]
int start, stop;
^
layer1/Extrude.c:1292:7: warning: variable 'start' set but not used [-Wunused-but-set-variable]
int start, stop;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectMap.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMap.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectMap.c: In function 'ObjectMapStateTrim':
layer2/ObjectMap.c:434:7: warning: variable 'max' set but not used [-Wunused-but-set-variable]
int max[3];
^
layer2/ObjectMap.c: In function 'ObjectMapStateInterpolate':
layer2/ObjectMap.c:1064:10: warning: variable 'out' set but not used [-Wunused-but-set-variable]
float *out;
^
layer2/ObjectMap.c: In function 'ObjectMapNewFromPyList':
layer2/ObjectMap.c:1543:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
layer2/ObjectMap.c: In function 'ObjectMapCCP4StrToMap':
layer2/ObjectMap.c:2396:14: warning: variable 'xref' set but not used [-Wunused-but-set-variable]
int cc[3], xref[3];
^
layer2/ObjectMap.c: In function 'ObjectMapLoadCCP4':
layer2/ObjectMap.c:4498:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/ObjectMap.c: In function 'ObjectMapLoadPHI':
layer2/ObjectMap.c:4669:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/ObjectMap.c: In function 'ObjectMapLoadDXFile':
layer2/ObjectMap.c:5024:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/ObjectMap.c: In function 'ObjectMapLoadACNTFile':
layer2/ObjectMap.c:5272:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/ObjectMap.c: In function 'ObjectMapLoadFLDFile':
layer2/ObjectMap.c:5325:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/RepMesh.c: In function 'RepMeshNew':
layer2/RepMesh.c:1176:23: warning: 'field' may be used uninitialized in this function [-Wmaybe-uninitialized]
IsosurfFieldFree(G, field);
^
In file included from layer0/OOMac.h:21:0,
from layer1/Extrude.c:25:
layer1/Extrude.c: In function 'ExtrudeCGOSurfaceTube':
layer0/Err.h:29:43: warning: 'TN' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define CHECKOK(ok, var) ok &= var ? true : false;
^
layer1/Extrude.c:756:47: note: 'TN' was declared here
float *sv, *sn, *tv, *tn, *tv1, *tn1, *TV, *TN;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepNonbondedSphere.c -o build/temp.linux-armv7l-2.7/layer2/RepNonbondedSphere.o -ffast-math -funroll-loops -O3 -fcommon
layer2/RepNonbondedSphere.c: In function 'RepNonbondedSphereRender':
layer2/RepNonbondedSphere.c:197:25: warning: variable 'use_default_shader' set but not used [-Wunused-but-set-variable]
short use_shader, use_default_shader, use_sphere_shader, generate_shader_cgo = 0, use_display_lists = 0;
^
In file included from layer0/OOMac.h:21:0,
from layer1/Extrude.c:25:
layer1/Extrude.c: In function 'ExtrudeCGOSurfacePolygon':
layer0/Err.h:29:43: warning: 'TN' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define CHECKOK(ok, var) ok &= var ? true : false;
^
layer1/Extrude.c:1686:47: note: 'TN' was declared here
float *sv, *sn, *tv, *tn, *tv1, *tn1, *TV, *TN;
^
In file included from layer0/OOMac.h:21:0,
from layer1/Extrude.c:25:
layer1/Extrude.c: In function 'ExtrudeCGOSurfaceStrand':
layer0/Err.h:29:43: warning: 'TN' may be used uninitialized in this function [-Wmaybe-uninitialized]
#define CHECKOK(ok, var) ok &= var ? true : false;
^
layer1/Extrude.c:2159:47: note: 'TN' was declared here
float *sv, *sn, *tv, *tn, *tv1, *tn1, *TV, *TN;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/CoordSet.c -o build/temp.linux-armv7l-2.7/layer2/CoordSet.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectMolecule.c: In function 'ObjectMoleculeMerge':
layer2/ObjectMolecule.c:9912:16: warning: 'i2a' may be used uninitialized in this function [-Wmaybe-uninitialized]
cs->IdxToAtm = i2a;
^
layer2/ObjectMolecule.c:9908:12: warning: 'nAt' may be used uninitialized in this function [-Wmaybe-uninitialized]
I->NAtom = nAt;
^
layer2/CoordSet.c: In function 'CoordSetAtomToChemPyAtom':
layer2/CoordSet.c:1021:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/ButMode.c -o build/temp.linux-armv7l-2.7/layer1/ButMode.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Symmetry.c -o build/temp.linux-armv7l-2.7/layer1/Symmetry.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectMolecule.c: In function 'ObjectMoleculeFillOpenValences':
layer2/ObjectMolecule.c:4548:12: warning: 'cs' may be used uninitialized in this function [-Wmaybe-uninitialized]
if(cs->fFree)
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/Scene.c -o build/temp.linux-armv7l-2.7/layer1/Scene.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectMolecule.c: In function 'ObjectMoleculeAddSeleHydrogens':
layer2/ObjectMolecule.c:4020:16: warning: 'cs' may be used uninitialized in this function [-Wmaybe-uninitialized]
if(cs->fFree)
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectGadgetRamp.c -o build/temp.linux-armv7l-2.7/layer2/ObjectGadgetRamp.o -ffast-math -funroll-loops -O3 -fcommon
layer1/Scene.c: In function 'SceneDrawImageOverlay':
layer1/Scene.c:3351:20: warning: variable 'color_word' set but not used [-Wunused-but-set-variable]
unsigned int color_word;
^
layer1/Scene.c: In function 'SceneReadTriplets':
layer1/Scene.c:3574:7: warning: variable 'dim' set but not used [-Wunused-but-set-variable]
int dim[3];
^
layer1/Scene.c: In function 'SceneDrag':
layer1/Scene.c:5961:8: warning: variable 'result' set but not used [-Wunused-but-set-variable]
int result, which_light;
^
layer1/Scene.c:6009:8: warning: variable 'result' set but not used [-Wunused-but-set-variable]
int result, which_light;
^
layer1/Scene.c: In function 'SceneReshape':
layer1/Scene.c:6385:7: warning: variable 'y' set but not used [-Wunused-but-set-variable]
int y = height;
^
layer1/Scene.c: In function 'SceneApplyImageGamma':
layer1/Scene.c:6542:7: warning: variable 'big_endian' set but not used [-Wunused-but-set-variable]
int big_endian;
^
layer1/Scene.c: In function 'SceneRay':
layer1/Scene.c:6770:7: warning: variable 'curState' set but not used [-Wunused-but-set-variable]
int curState;
^
layer2/ObjectGadgetRamp.c: In function 'ObjectGadgetRampUpdateCGO':
layer2/ObjectGadgetRamp.c:651:10: warning: variable 'p' set but not used [-Wunused-but-set-variable]
float *p;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepSphere.c -o build/temp.linux-armv7l-2.7/layer2/RepSphere.o -ffast-math -funroll-loops -O3 -fcommon
layer2/RepSphere.c: In function 'RenderSphereMode_Direct':
layer2/RepSphere.c:995:13: warning: variable 'last_vdw' set but not used [-Wunused-but-set-variable]
float last_vdw = -1.0F;
^
layer2/RepSphere.c: In function 'RepSphereNew':
layer2/RepSphere.c:2882:26: warning: variable 'nbr_flag' set but not used [-Wunused-but-set-variable]
register int nbr_flag;
^
layer2/RepSphere.c:2569:17: warning: variable 'ai2' set but not used [-Wunused-but-set-variable]
AtomInfoType *ai2;
^
layer2/RepSphere.c: In function 'RepSphereRender':
layer2/RepSphere.c:2494:29: warning: 'radius' may be used uninitialized in this function [-Wmaybe-uninitialized]
RenderSphereMode_Points(G, I, info, radius, c);
^
layer2/RepSphere.c:2500:24: warning: 'n_quad_verts' may be used uninitialized in this function [-Wmaybe-uninitialized]
RenderSphereMode_9(G, I, info, n_quad_verts, &v, radius, c);
^
layer2/RepSphere.c: In function 'RepSphereNew':
layer2/RepSphere.c:3261:45: warning: 'v' may be used uninitialized in this function [-Wmaybe-uninitialized]
I->V = ReallocForSure(I->V, float, (v - I->V));
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/VFont.c -o build/temp.linux-armv7l-2.7/layer2/VFont.o -ffast-math -funroll-loops -O3 -fcommon
layer2/VFont.c: In function 'VFontIndent':
layer2/VFont.c:145:10: warning: variable 'pc' set but not used [-Wunused-but-set-variable]
float *pc;
^
layer2/VFont.c:144:9: warning: variable 'base' set but not used [-Wunused-but-set-variable]
float base[3], pen[3];
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepAngle.c -o build/temp.linux-armv7l-2.7/layer2/RepAngle.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectAlignment.c -o build/temp.linux-armv7l-2.7/layer2/ObjectAlignment.o -ffast-math -funroll-loops -O3 -fcommon
layer2/RepAngle.c: In function 'RepAngleNew':
layer2/RepAngle.c:453:15: warning: variable 'mod_pos' set but not used [-Wunused-but-set-variable]
float mod_pos;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepDistDash.c -o build/temp.linux-armv7l-2.7/layer2/RepDistDash.o -ffast-math -funroll-loops -O3 -fcommon
layer2/RepDistDash.c: In function 'RepDistDashNew':
layer2/RepDistDash.c:351:29: warning: variable 'd1' set but not used [-Wunused-but-set-variable]
float *v, *v1, *v2, d[3], d1[3];
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepWireBond.c -o build/temp.linux-armv7l-2.7/layer2/RepWireBond.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectCallback.c -o build/temp.linux-armv7l-2.7/layer2/ObjectCallback.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectDist.c -o build/temp.linux-armv7l-2.7/layer2/ObjectDist.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectMesh.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMesh.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectDist.c: In function 'ObjectDistGetDistSetFromM4XBond':
layer2/ObjectDist.c:187:25: warning: variable 'dist' set but not used [-Wunused-but-set-variable]
float *vv0, *vv1, dist;
^
layer2/ObjectMesh.c: In function 'ObjectMeshNewFromPyList':
layer2/ObjectMesh.c:231:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
layer2/ObjectMesh.c: In function 'ObjectMeshUpdate':
layer2/ObjectMesh.c:604:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer2/ObjectMesh.c: In function 'ObjectMeshRenderImpl':
layer2/ObjectMesh.c:1123:58: warning: value computed is not used [-Wunused-value]
for(; ok && (c = *(n++)); v += 3, vc && (vc += 3)) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/DistSet.c -o build/temp.linux-armv7l-2.7/layer2/DistSet.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectSlice.c -o build/temp.linux-armv7l-2.7/layer2/ObjectSlice.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectSlice.c: In function 'ObjectSliceStateFromPyList':
layer2/ObjectSlice.c:103:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
layer2/ObjectSlice.c: In function 'ObjectSliceNewFromPyList':
layer2/ObjectSlice.c:172:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
layer2/ObjectSlice.c: In function 'ObjectSliceUpdate':
layer2/ObjectSlice.c:709:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer1/FontGLUT.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUT.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepDot.c -o build/temp.linux-armv7l-2.7/layer2/RepDot.o -ffast-math -funroll-loops -O3 -fcommon
layer2/RepDot.c: In function 'RepDotRender':
layer2/RepDot.c:195:33: warning: "/*" within comment [-Wcomment]
/* if(normals) /* NORMALS do not get set for points
^
layer2/RepDot.c:220:24: warning: 'tmpCGO' may be used uninitialized in this function [-Wmaybe-uninitialized]
CGOFreeWithoutVBOs(tmpCGO);
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer3/Selector.c -o build/temp.linux-armv7l-2.7/layer3/Selector.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectGroup.c -o build/temp.linux-armv7l-2.7/layer2/ObjectGroup.o -ffast-math -funroll-loops -O3 -fcommon
layer3/Selector.c: In function 'SelectorGetSpacialMapFromSeleCoord':
layer3/Selector.c:1451:23: warning: variable 'ai' set but not used [-Wunused-but-set-variable]
AtomInfoType *ai;
^
layer3/Selector.c: In function 'SelectorAssignSS':
layer3/Selector.c:2049:11: warning: variable 'c' set but not used [-Wunused-but-set-variable]
int c, i, h, k, l;
^
layer3/Selector.c: In function 'SelectorGetPairIndices':
layer3/Selector.c:3512:23: warning: variable 'ai2' set but not used [-Wunused-but-set-variable]
AtomInfoType *ai1, *ai2;
^
layer3/Selector.c:3512:17: warning: variable 'ai1' set but not used [-Wunused-but-set-variable]
AtomInfoType *ai1, *ai2;
^
layer3/Selector.c: In function 'SelectorMapMaskVDW':
layer3/Selector.c:5305:11: warning: variable 'n2' set but not used [-Wunused-but-set-variable]
int n1, n2;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepDistLabel.c -o build/temp.linux-armv7l-2.7/layer2/RepDistLabel.o -ffast-math -funroll-loops -O3 -fcommon
layer3/Selector.c: In function 'SelectorSelect0':
layer3/Selector.c:8556:15: warning: variable 's' set but not used [-Wunused-but-set-variable]
int at, s;
^
layer3/Selector.c: In function 'SelectorSelect1':
layer3/Selector.c:8991:11: warning: variable 'prevmodel' set but not used [-Wunused-but-set-variable]
int prevmodel;
^
layer3/Selector.c:9053:11: warning: variable 'prevmodel' set but not used [-Wunused-but-set-variable]
int prevmodel;
^
layer3/Selector.c: In function 'SelectorLogic1':
layer3/Selector.c:10164:21: warning: variable 'ai' set but not used [-Wunused-but-set-variable]
AtomInfoType *ai;
^
layer3/Selector.c: In function 'SelectorEvaluate':
layer3/Selector.c:10696:19: warning: variable 'cc2' set but not used [-Wunused-but-set-variable]
char *q, *cc1, *cc2;
^
layer3/Selector.c:10695:15: warning: variable 'opFlag2' set but not used [-Wunused-but-set-variable]
int opFlag, opFlag2, maxLevel;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepCylBond.c -o build/temp.linux-armv7l-2.7/layer2/RepCylBond.o -ffast-math -funroll-loops -O3 -fcommon
layer2/RepDistLabel.c: In function 'RepDistLabelNew':
layer2/RepDistLabel.c:403:24: warning: variable 'v6' set but not used [-Wunused-but-set-variable]
float *v4, *v5, *v6;
^
layer2/RepDistLabel.c:403:19: warning: variable 'v5' set but not used [-Wunused-but-set-variable]
float *v4, *v5, *v6;
^
layer2/ObjectSlice.c: In function 'GenerateOutlineOfSlice':
layer2/ObjectSlice.c:1120:14: warning: 'origin' may be used uninitialized in this function [-Wmaybe-uninitialized]
CGOSphere(cgo, origin, 1.f);
^
layer2/RepCylBond.c: In function 'RepCylBondPopulateAdjacentAtoms':
layer2/RepCylBond.c:1382:25: warning: variable 'h_scale' set but not used [-Wunused-but-set-variable]
float radius, transp, h_scale;
^
layer2/RepCylBond.c:1382:17: warning: variable 'transp' set but not used [-Wunused-but-set-variable]
float radius, transp, h_scale;
^
layer2/RepCylBond.c:1382:9: warning: variable 'radius' set but not used [-Wunused-but-set-variable]
float radius, transp, h_scale;
^
layer2/RepCylBond.c:1379:10: warning: variable 'ord' set but not used [-Wunused-but-set-variable]
int a, ord, a1, a2, stick_color, c1, c2, s1, s2, half_bonds, hide_long = false;
^
layer2/RepCylBond.c: In function 'RepCylBondNew':
layer2/RepCylBond.c:2001:96: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
if(s2 && (!marked[b2]) && (!stick_ball_filter_single_atoms || (ord==1 || adjacent_atoms[a2] && adjacent_atoms[a2][0] > 1))) {
^
layer2/RepCylBond.c:2165:6: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses]
if (capdraw1)
^
layer2/RepCylBond.c:2168:6: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses]
if (capdraw2)
^
layer2/RepCylBond.c:1542:16: warning: variable 'v_size' set but not used [-Wunused-but-set-variable]
unsigned int v_size, vr_size;
^
layer2/RepCylBond.c:1535:7: warning: variable 'stick_round_nub' set but not used [-Wunused-but-set-variable]
int stick_round_nub;
^
layer2/RepCylBond.c: At top level:
layer2/RepCylBond.c:2352:13: warning: 'subdivide' defined but not used [-Wunused-function]
static void subdivide(int n, float *x, float *y)
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:40:0:
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes]
static vasp_plugindata_t *vasp_plugindata_malloc()
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:41:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
static int get_pte_idx_from_string(const char *label) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepLabel.c -o build/temp.linux-armv7l-2.7/layer2/RepLabel.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:42:0:
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes]
static vasp_plugindata_t *vasp_plugindata_malloc()
^
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function]
static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepCartoon.c -o build/temp.linux-armv7l-2.7/layer2/RepCartoon.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -ffast-math -funroll-loops -O3 -fcommon
layer2/RepCartoon.c: In function 'do_ring':
layer2/RepCartoon.c:282:7: warning: variable 'cartoon_color' set but not used [-Wunused-but-set-variable]
int cartoon_color;
^
layer2/RepCartoon.c: In function 'nuc_acid':
layer2/RepCartoon.c:1497:22: warning: variable 'v_n' set but not used [-Wunused-but-set-variable]
float *v_o, *v_c, *v_n, t0[3];
^
layer2/RepCartoon.c: In function 'GenerateRepCartoonCGO':
layer2/RepCartoon.c:1662:31: warning: variable 'ring_finder_eff' set but not used [-Wunused-but-set-variable]
int ring_mode, ring_finder, ring_finder_eff;
^
layer2/RepCartoon.c: In function 'RepCartoonInvalidate':
layer2/RepCartoon.c:2833:3: warning: implicit declaration of function 'RepInvalidate' [-Wimplicit-function-declaration]
RepInvalidate(I, cs, level);
^
layer2/RepCartoon.c: In function 'RepCartoonNew':
layer2/RepCartoon.c:2889:9: warning: variable 'alpha' set but not used [-Wunused-but-set-variable]
float alpha;
^
layer2/RepCartoon.c:2876:7: warning: variable 'skip_to' set but not used [-Wunused-but-set-variable]
int skip_to;
^
layer2/RepCartoon.c:2865:7: warning: variable 'highlight_color' set but not used [-Wunused-but-set-variable]
int highlight_color;
^
layer2/RepCartoon.c:2861:7: warning: variable 'cartoon_debug' set but not used [-Wunused-but-set-variable]
int cartoon_debug;
^
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'read_molden_rundata':
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:585:25: warning: variable 'hessian_data' set but not used [-Wunused-but-set-variable]
molfile_qm_hessian_t *hessian_data;
^
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'get_basis':
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:828:36: warning: unused variable 's_coeff2' [-Wunused-variable]
char s_expon[128], s_coeff1[128], s_coeff2[128];
^
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:828:21: warning: unused variable 's_coeff1' [-Wunused-variable]
char s_expon[128], s_coeff1[128], s_coeff2[128];
^
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:828:7: warning: unused variable 's_expon' [-Wunused-variable]
char s_expon[128], s_coeff1[128], s_coeff2[128];
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:37:0:
contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: At top level:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
static const char *get_pte_label(const int idx)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: 'get_pte_mass' defined but not used [-Wunused-function]
static float get_pte_mass(const int idx)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: 'get_pte_vdw_radius' defined but not used [-Wunused-function]
static float get_pte_vdw_radius(const int idx)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
static int get_pte_idx(const char *label)
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:38:0:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:706:12: warning: 'symmetry_expand' defined but not used [-Wunused-function]
static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms,
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1001:12: warning: 'have_keyline' defined but not used [-Wunused-function]
static int have_keyline(FILE *file, const char *keystring1,
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1072:13: warning: 'thisline' defined but not used [-Wunused-function]
static void thisline(FILE *file) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1092:13: warning: 'whereami' defined but not used [-Wunused-function]
static void whereami(FILE *file) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:485:13: warning: 'replace_wavefunction' defined but not used [-Wunused-function]
static void replace_wavefunction(qm_timestep_t *ts, int n) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:502:13: warning: 'del_wavefunction' defined but not used [-Wunused-function]
static void del_wavefunction(qm_timestep_t *ts) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:580:13: warning: 'print_matrix4' defined but not used [-Wunused-function]
static void print_matrix4(const float mat[16]) {
^
layer2/RepCartoon.c: In function 'do_ring':
layer2/RepCartoon.c:1288:27: warning: 'ai' may be used uninitialized in this function [-Wmaybe-uninitialized]
color = ColorGet(G, AtomInfoGetColorWithElement(G, ai, "C")); /* NEED TO CHANGE TO CARBON COLOR */
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -ffast-math -funroll-loops -O3 -fcommon
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'have_gamess':
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1101:8: warning: variable 'word' set but not used [-Wunused-but-set-variable]
char word[3][BUFSIZ];
^
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_basis_stats':
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2258:8: warning: variable 'word' set but not used [-Wunused-but-set-variable]
char word[7][BUFSIZ];
^
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_wavefunction':
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:3561:8: warning: variable 'word' set but not used [-Wunused-but-set-variable]
char word[6][BUFSIZ];
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160:0:
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: At top level:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:890:12: warning: 'iswhiteline' defined but not used [-Wunused-function]
static int iswhiteline(char *s) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:896:14: warning: 'strtoupper' defined but not used [-Wunused-function]
static char *strtoupper(char *s) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1072:13: warning: 'thisline' defined but not used [-Wunused-function]
static void thisline(FILE *file) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1092:13: warning: 'whereami' defined but not used [-Wunused-function]
static void whereami(FILE *file) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:580:13: warning: 'print_matrix4' defined but not used [-Wunused-function]
static void print_matrix4(const float mat[16]) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1023:12: warning: 'fpexpftoc' defined but not used [-Wunused-function]
static int fpexpftoc(char *ftocstr) {
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:162:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
static const char *get_pte_label(const int idx)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: 'get_pte_mass' defined but not used [-Wunused-function]
static float get_pte_mass(const int idx)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: 'get_pte_vdw_radius' defined but not used [-Wunused-function]
static float get_pte_vdw_radius(const int idx)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
static int get_pte_idx(const char *label)
^
contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:997:13: warning: 'print_input_data' defined but not used [-Wunused-function]
static void print_input_data(qmdata_t *data) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:57:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
static int get_pte_idx_from_string(const char *label) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:33:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
static int get_pte_idx(const char *label)
^
layer2/RepCartoon.c: In function 'GenerateRepCartoonCGO':
layer2/RepCartoon.c:1288:27: warning: 'ai' may be used uninitialized in this function [-Wmaybe-uninitialized]
layer2/RepCartoon.c:277:17: note: 'ai' was declared here
AtomInfoType *ai;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -ffast-math -funroll-loops -O3 -fcommon
contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c: In function 'write_psf_structure':
contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:652:19: warning: variable 'atomname' set but not used [-Wunused-but-set-variable]
const char *atomname;
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/fortread.h:28:0,
from contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:29:
contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c: At top level:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'swap2_aligned' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'swap8_aligned' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:29:0:
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: 'fort_eat_recmark' defined but not used [-Wunused-function]
static int fort_eat_recmark(FILE *ifp, int recmarklen) {
^
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: 'fort_get_endian_reclen' defined but not used [-Wunused-function]
static int fort_get_endian_reclen(int reclen, int word0, int word1,
^
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:103:12: warning: 'fortread_4' defined but not used [-Wunused-function]
static int fortread_4(void *dest, int n, int swap, FILE *fd) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:51:0:
contrib/uiuc/plugins/molfile_plugin/src/fastio.h:468:12: warning: 'fio_read_int32' defined but not used [-Wunused-function]
static int fio_read_int32(fio_fd fd, int *i) {
^
contrib/uiuc/plugins/molfile_plugin/src/fastio.h:472:12: warning: 'fio_write_str' defined but not used [-Wunused-function]
static int fio_write_str(fio_fd fd, const char *str) {
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:60:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'swap2_aligned' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -ffast-math -funroll-loops -O3 -fcommon
contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c: In function 'write_crd_timestep':
contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c:167:6: warning: 'lfdone' may be used uninitialized in this function [-Wmaybe-uninitialized]
if (!lfdone)
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:47:0:
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes]
static vasp_plugindata_t *vasp_plugindata_malloc()
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:48:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
static int get_pte_idx_from_string(const char *label) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:40:0:
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes]
static vasp_plugindata_t *vasp_plugindata_malloc()
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:41:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
static int get_pte_idx_from_string(const char *label) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -ffast-math -funroll-loops -O3 -fcommon
contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function 'vtf_parse_atom':
contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:234:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat=]
if (sscanf(s, "%16s %n", &atom.name, &n) < 1) {
^
contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:243:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat=]
if (sscanf(s, "%16s %n", &atom.type, &n) < 1) {
^
contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:269:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat=]
if (sscanf(s, "%8s %n", &atom.resname, &n) < 1) {
^
contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:284:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat=]
if (sscanf(s, "%8s %n", &atom.segid, &n) < 1) {
^
contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:293:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat=]
if (sscanf(s, "%2s %n", &atom.insertion, &n) < 1) {
^
contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:305:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat=]
if (sscanf(s, "%2s %n", &atom.chain, &n) < 1) {
^
contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:339:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat=]
if (sscanf(s, "%2s %n", &atom.altloc, &n) < 1) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -ffast-math -funroll-loops -O3 -fcommon
contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function 'get_atom_radius':
contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:16: warning: variable 'type' set but not used [-Wunused-but-set-variable]
char *name, *type;
^
contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:9: warning: variable 'name' set but not used [-Wunused-but-set-variable]
char *name, *type;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepRibbon.c -o build/temp.linux-armv7l-2.7/layer2/RepRibbon.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:42:0:
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes]
static vasp_plugindata_t *vasp_plugindata_malloc()
^
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function]
static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:43:0:
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:706:12: warning: 'symmetry_expand' defined but not used [-Wunused-function]
static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms,
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:830:13: warning: 'eatline' defined but not used [-Wunused-function]
static void eatline(FILE * fd, int n)
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:841:13: warning: 'eatwhitelines' defined but not used [-Wunused-function]
static void eatwhitelines(FILE *file) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:890:12: warning: 'iswhiteline' defined but not used [-Wunused-function]
static int iswhiteline(char *s) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:896:14: warning: 'strtoupper' defined but not used [-Wunused-function]
static char *strtoupper(char *s) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:957:12: warning: 'goto_keyline' defined but not used [-Wunused-function]
static int goto_keyline(FILE *file, ...) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1001:12: warning: 'have_keyline' defined but not used [-Wunused-function]
static int have_keyline(FILE *file, const char *keystring1,
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1072:13: warning: 'thisline' defined but not used [-Wunused-function]
static void thisline(FILE *file) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1092:13: warning: 'whereami' defined but not used [-Wunused-function]
static void whereami(FILE *file) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:433:18: warning: 'init_qmdata' defined but not used [-Wunused-function]
static qmdata_t* init_qmdata(qmdata_t *data) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:466:27: warning: 'add_wavefunction' defined but not used [-Wunused-function]
static qm_wavefunction_t* add_wavefunction(qm_timestep_t *ts) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:485:13: warning: 'replace_wavefunction' defined but not used [-Wunused-function]
static void replace_wavefunction(qm_timestep_t *ts, int n) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:502:13: warning: 'del_wavefunction' defined but not used [-Wunused-function]
static void del_wavefunction(qm_timestep_t *ts) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:535:13: warning: 'angular_momentum_expon' defined but not used [-Wunused-function]
static void angular_momentum_expon(int *ang_mom_expon,
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:580:13: warning: 'print_matrix4' defined but not used [-Wunused-function]
static void print_matrix4(const float mat[16]) {
^
contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1023:12: warning: 'fpexpftoc' defined but not used [-Wunused-function]
static int fpexpftoc(char *ftocstr) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -ffast-math -funroll-loops -O3 -fcommon
contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function 'open_rst_read':
contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:43:11: warning: variable 'timesteprst' set but not used [-Wunused-but-set-variable]
double timesteprst;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/RepSurface.c -o build/temp.linux-armv7l-2.7/layer2/RepSurface.o -ffast-math -funroll-loops -O3 -fcommon
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In member function 'bool desres::molfile::Timekeys::init(const string&)':
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:486:71: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t {aka unsigned int}' [-Wformat=]
fprintf(stderr, "non-constant framesize at frame %ld\n", i);
^
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:488:48: warning: format '%d' expects argument of type 'int', but argument 2 has type 'uint64_t {aka long long unsigned int}' [-Wformat=]
keys[i].size(), m_framesize);
^
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:488:48: warning: format '%d' expects argument of type 'int', but argument 3 has type 'uint64_t {aka long long unsigned int}' [-Wformat=]
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:494:67: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t {aka unsigned int}' [-Wformat=]
"non-constant time interval at frame %ld\n", i);
^
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:499:67: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t {aka unsigned int}' [-Wformat=]
fprintf(stderr, "unexpected offset for frame %ld\n", i);
^
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'int handle_wrapped_v2({anonymous}::BlobMap&, uint32_t, bool, molfile_timestep_t*)':
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1302:28: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'uint64_t {aka long long unsigned int}' [-Wformat=]
3*natoms, pos.count);
^
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1311:30: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'uint64_t {aka long long unsigned int}' [-Wformat=]
3*natoms, vel.count);
^
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'int handle_wrapped_v1({anonymous}::BlobMap&, uint32_t, bool, molfile_timestep_t*)':
contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1573:34: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'uint64_t {aka long long unsigned int}' [-Wformat=]
velblob.count, 3*natoms);
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o -ffast-math -funroll-loops -O3 -fcommon
contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c: In function 'read_js_structure':
contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:403:16: warning: unused variable 'bszmask' [-Wunused-variable]
fio_size_t bszmask;
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/hash.h:37:0,
from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:87:
contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c: At top level:
contrib/uiuc/plugins/molfile_plugin/src/hash.c:183:21: warning: 'hash_delete' defined but not used [-Wunused-function]
VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) {
^
contrib/uiuc/plugins/molfile_plugin/src/hash.c:270:24: warning: 'hash_stats' defined but not used [-Wunused-function]
VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) {
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:88:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
layer2/RepSurface.c: In function 'RepSurfaceRender':
layer2/RepSurface.c:1957:11: warning: variable 'col' set but not used [-Wunused-but-set-variable]
float *col;
^
layer2/RepSurface.c:2218:28: warning: variable 'col' set but not used [-Wunused-but-set-variable]
float *col;
^
layer2/RepSurface.c: In function 'RepSurfaceInvalidate':
layer2/RepSurface.c:3454:3: warning: implicit declaration of function 'RepInvalidate' [-Wimplicit-function-declaration]
RepInvalidate(I, cs, level);
^
layer2/RepSurface.c: In function 'RepSurfaceColor':
layer2/RepSurface.c:3711:22: warning: variable 'planew' set but not used [-Wunused-but-set-variable]
float d[3], *vn0, planew, v0mod[3];
^
layer2/RepSurface.c:3790:29: warning: variable 'planew' set but not used [-Wunused-but-set-variable]
float d[3], *vn0, pt[3], planew, v0mod[3];
^
layer2/RepSurface.c:3790:22: warning: variable 'pt' set but not used [-Wunused-but-set-variable]
float d[3], *vn0, pt[3], planew, v0mod[3];
^
layer2/RepSurface.c:3946:36: warning: variable 'pai2' set but not used [-Wunused-but-set-variable]
AtomInfoType *pai = NULL, *pai2 = NULL; /* variables for color smoothing */
^
layer2/RepSurface.c: In function 'SolventDotNew':
layer2/RepSurface.c:5684:7: warning: variable 'maxDot' set but not used [-Wunused-but-set-variable]
int maxDot = 0;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -ffast-math -funroll-loops -O3 -fcommon
layer2/RepSurface.c: In function 'SurfaceJobRun':
layer2/RepSurface.c:4645:18: warning: 'solv_map' may be used uninitialized in this function [-Wmaybe-uninitialized]
MapFree(solv_map);
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:40:0:
contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes]
static vasp_plugindata_t *vasp_plugindata_malloc()
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:41:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
static int get_pte_idx_from_string(const char *label) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In function 'int {anonymous}::write_structure(void*, int, const molfile_atom_t*)':
contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1883:9: warning: unused variable 'last_ctnumber' [-Wunused-variable]
int last_ctnumber = -1;
^
layer2/RepSurface.c: In function 'RepSurfaceRender':
layer2/RepSurface.c:3321:13: warning: 'simple' may be used uninitialized in this function [-Wmaybe-uninitialized]
CGOFree(simple);
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer3/PlugIOManager.c -o build/temp.linux-armv7l-2.7/layer3/PlugIOManager.o -ffast-math -funroll-loops -O3 -fcommon
layer3/PlugIOManager.c: In function 'PlugIOManagerLoadVol':
layer3/PlugIOManager.c:341:17: warning: variable 'isNew' set but not used [-Wunused-but-set-variable]
int isNew = false;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer3/Editor.c -o build/temp.linux-armv7l-2.7/layer3/Editor.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:70:0:
contrib/uiuc/plugins/molfile_plugin/src/vmddir.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/vmddir.h:137:12: warning: 'int vmd_file_is_executable(const char*)' defined but not used [-Wunused-function]
static int vmd_file_is_executable(const char * filename) {
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:71:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
layer3/Editor.c: In function 'EditorDrawDihedral':
layer3/Editor.c:113:22: warning: variable 'sele3' set but not used [-Wunused-but-set-variable]
int sele0, sele3;
^
layer3/Editor.c:113:15: warning: variable 'sele0' set but not used [-Wunused-but-set-variable]
int sele0, sele3;
^
layer3/Editor.c: In function 'EditorAttach':
layer3/Editor.c:934:7: warning: variable 'state' set but not used [-Wunused-but-set-variable]
int state;
^
layer3/Editor.c: In function 'EditorReplace':
layer3/Editor.c:1115:7: warning: variable 'state' set but not used [-Wunused-but-set-variable]
int state;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function 'int read_plt_data(void*, int, float*, float*)':
contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:143:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if ( fread(datablock, sizeof(float), ndata, fd) != ndata ) {
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:42:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mmcif.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp: In function 'int read_mmcif_timestep(void*, int, molfile_timestep_t*)':
contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:85:14: warning: unused variable 'data' [-Wunused-variable]
mmcifdata *data = (mmcifdata *)mydata;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectSurface.c -o build/temp.linux-armv7l-2.7/layer2/ObjectSurface.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:64:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: 'const char* get_pte_label(int)' defined but not used [-Wunused-function]
static const char *get_pte_label(const int idx)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: 'float get_pte_mass(int)' defined but not used [-Wunused-function]
static float get_pte_mass(const int idx)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: 'float get_pte_vdw_radius(int)' defined but not used [-Wunused-function]
static float get_pte_vdw_radius(const int idx)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'int get_pte_idx(const char*)' defined but not used [-Wunused-function]
static int get_pte_idx(const char *label)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function]
static int get_pte_idx_from_string(const char *label) {
^
contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:98:14: warning: 'void* open_mmcif_write(const char*, const char*, int)' defined but not used [-Wunused-function]
static void *open_mmcif_write(const char *filename, const char *filetype,
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
layer2/ObjectSurface.c: In function 'ObjectSurfaceUpdate':
layer2/ObjectSurface.c:498:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:37:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function]
static int get_pte_idx_from_string(const char *label) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer4/Cmd.c -o build/temp.linux-armv7l-2.7/layer4/Cmd.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function 'int read_spider_data(void*, int, float*, float*)':
contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:7: warning: unused variable 'x' [-Wunused-variable]
int x, y, z, xsize, ysize, zsize, xysize, total;
^
contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:10: warning: unused variable 'y' [-Wunused-variable]
int x, y, z, xsize, ysize, zsize, xysize, total;
^
contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:13: warning: unused variable 'z' [-Wunused-variable]
int x, y, z, xsize, ysize, zsize, xysize, total;
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:36:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
layer4/Cmd.c: In function 'CmdAlign':
layer4/Cmd.c:2186:9: warning: variable 'result' set but not used [-Wunused-but-set-variable]
float result = -1.0;
^
layer4/Cmd.c: In function 'CmdGetViewPort':
layer4/Cmd.c:2301:5: warning: implicit declaration of function 'SceneGetViewPortWidthHeight' [-Wimplicit-function-declaration]
SceneGetViewPortWidthHeight(G, &width, &height);
^
layer4/Cmd.c: In function 'Cmd_New':
layer4/Cmd.c:4165:11: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
layer4/Cmd.c: In function 'CmdLoadObject':
layer4/Cmd.c:6906:9: warning: variable 'isTmp' set but not used [-Wunused-but-set-variable]
int isTmp;
^
layer4/Cmd.c: In function 'CmdSetObjectColor':
layer4/Cmd.c:7868:7: warning: variable 'result' set but not used [-Wunused-but-set-variable]
int result = -1;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/AtomInfo.c -o build/temp.linux-armv7l-2.7/layer2/AtomInfo.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer2/ObjectGadget.c -o build/temp.linux-armv7l-2.7/layer2/ObjectGadget.o -ffast-math -funroll-loops -O3 -fcommon
layer2/ObjectGadget.c: In function 'ObjectGadgetInitFromPyList':
layer2/ObjectGadget.c:305:7: warning: variable 'll' set but not used [-Wunused-but-set-variable]
int ll;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer3/Executive.c -o build/temp.linux-armv7l-2.7/layer3/Executive.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:47:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:48:0:
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function]
static int fort_eat_recmark(FILE *ifp, int recmarklen) {
^
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function]
static int fort_get_endian_reclen(int reclen, int word0, int word1,
^
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function]
static void strnwscpy(char *target, const char *source, const int len) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
layer3/Executive.c: In function 'ExecutiveVolume':
layer3/Executive.c:1102:19: warning: variable 'sele_obj' set but not used [-Wunused-but-set-variable]
ObjectMolecule *sele_obj = NULL;
^
layer3/Executive.c: In function 'ExecutiveMapSet':
layer3/Executive.c:6537:21: warning: variable 'tmp' set but not used [-Wunused-but-set-variable]
float tmp[3];
^
layer3/Executive.c: In function 'ExecutiveSculptIterate':
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -ffast-math -funroll-loops -O3 -fcommon
layer3/Executive.c:7012:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable]
int ok = true;
^
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
layer3/Executive.c: In function 'ExecutiveRemoveAtoms':
layer3/Executive.c:9353:7: warning: variable 'flag' set but not used [-Wunused-but-set-variable]
int flag = false;
^
layer3/Executive.c: In function 'ExecutiveIterateList':
layer3/Executive.c:10670:14: warning: variable 'cs' set but not used [-Wunused-but-set-variable]
CoordSet *cs = NULL;
^
layer3/Executive.c: In function 'ExecutiveCenter':
layer3/Executive.c:13657:23: warning: variable 'df' set but not used [-Wunused-but-set-variable]
float mn[3], mx[3], df[3];
^
contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp: In function 'int read_pbeq_data(void*, int, float*, float*)':
contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:262:55: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
printf("pbeqplugin) offset: %d\n", ftell(fd));
^
layer3/Executive.c: In function 'ExecutiveRelease':
layer3/Executive.c:15687:7: warning: variable 'n' set but not used [-Wunused-but-set-variable]
int n;
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:53:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'int count_mdf_bonds(const char*)':
contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:135:7: warning: unused variable 'retval' [-Wunused-variable]
int retval;
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/hash.h:37:0,
from contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:45:
contrib/uiuc/plugins/molfile_plugin/src/hash.c: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/hash.c:183:21: warning: 'int hash_delete(hash_t*, const char*)' defined but not used [-Wunused-function]
VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) {
^
contrib/uiuc/plugins/molfile_plugin/src/hash.c:270:24: warning: 'char* hash_stats(hash_t*)' defined but not used [-Wunused-function]
VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
In file included from contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp:51:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function 'int read_ccp4_data(void*, int, float*, float*)':
contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:370:68: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if ( fread(rowdata, sizeof(float), extent[0], fd) != extent[0] ) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
In file included from contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:44:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
In file included from contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:59:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:60:0:
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function]
static int fort_eat_recmark(FILE *ifp, int recmarklen) {
^
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function]
static int fort_get_endian_reclen(int reclen, int word0, int word1,
^
contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function]
static void strnwscpy(char *target, const char *source, const int len) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'void* open_uhbd_read(const char*, const char*, int*)':
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:22: warning: variable 'o' set but not used [-Wunused-but-set-variable]
float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
^
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:28: warning: variable 's' set but not used [-Wunused-but-set-variable]
float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
^
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'int read_uhbd_data(void*, int, float*, float*)':
contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:254:69: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (fread(datablock + z*xysize, sizeof(float), xysize, fd) != xysize) {
^
In file included from contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:47:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
In file included from contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:42:0:
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'int get_pte_idx(const char*)' defined but not used [-Wunused-function]
static int get_pte_idx(const char *label)
^
contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function]
static int get_pte_idx_from_string(const char *label) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function 'int read_edm_data(void*, int, float*, float*)':
contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:207:10: warning: unused variable 'l' [-Wunused-variable]
int z, l, sentinel, convcnt;
^
contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:220:7: warning: unused variable 'leftover' [-Wunused-variable]
int leftover = (nperslice - (nlines - 1) * 6);
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
In file included from contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:63:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_aligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30:0:
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function 'int xtc_3dfcoord(md_file*, float*, int*, float*)':
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1764:37: warning: 'bitsizeint[2]' may be used uninitialized in this function [-Wmaybe-uninitialized]
unsigned sizeint[3], sizesmall[3], bitsizeint[3], size3;
^
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1764:37: warning: 'bitsizeint[1]' may be used uninitialized in this function [-Wmaybe-uninitialized]
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1764:37: warning: 'bitsizeint[0]' may be used uninitialized in this function [-Wmaybe-uninitialized]
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1831:32: warning: 'smallidx' may be used uninitialized in this function [-Wmaybe-uninitialized]
small = xtc_magicints[smallidx] / 2;
^
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1816:36: warning: '*((void*)& maxint +4)' may be used uninitialized in this function [-Wmaybe-uninitialized]
sizeint[1] = maxint[1] - minint[1]+1;
^
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1815:36: warning: 'maxint' may be used uninitialized in this function [-Wmaybe-uninitialized]
sizeint[0] = maxint[0] - minint[0]+1;
^
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1861:28: warning: '*((void*)& minint +8)' may be used uninitialized in this function [-Wmaybe-uninitialized]
thiscoord[2] += minint[2];
^
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1860:28: warning: '*((void*)& minint +4)' may be used uninitialized in this function [-Wmaybe-uninitialized]
thiscoord[1] += minint[1];
^
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1859:28: warning: 'minint' may be used uninitialized in this function [-Wmaybe-uninitialized]
thiscoord[0] += minint[0];
^
contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1817:36: warning: '*((void*)& maxint +8)' may be used uninitialized in this function [-Wmaybe-uninitialized]
sizeint[2] = maxint[2] - minint[2]+1;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer4/Menu.c -o build/temp.linux-armv7l-2.7/layer4/Menu.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer4/PopUp.c -o build/temp.linux-armv7l-2.7/layer4/PopUp.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer4/Export.c -o build/temp.linux-armv7l-2.7/layer4/Export.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:48:0,
from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer5/TestPyMOL.c -o build/temp.linux-armv7l-2.7/layer5/TestPyMOL.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
layer5/TestPyMOL.c: In function 'get_st':
layer5/TestPyMOL.c:76:25: warning: variable 'p' set but not used [-Wunused-but-set-variable]
char *result = NULL, *p;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer5/PyMOL.c -o build/temp.linux-armv7l-2.7/layer5/PyMOL.o -ffast-math -funroll-loops -O3 -fcommon
In file included from contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:40:0:
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap2_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap4_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_unaligned(void *v, long ndata) {
^
contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
static void swap8_aligned(void *v, long ndata) {
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
layer5/PyMOL.c: In function 'PyMOL_CmdGetNames':
layer5/PyMOL.c:4580:15: warning: variable 'arg' set but not used [-Wunused-but-set-variable]
char *res, *arg;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer3/Seeker.c -o build/temp.linux-armv7l-2.7/layer3/Seeker.o -ffast-math -funroll-loops -O3 -fcommon
layer3/Seeker.c: In function 'SeekerRefresh':
layer3/Seeker.c:505:22: warning: variable 'not_selected' set but not used [-Wunused-but-set-variable]
register int not_selected;
^
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c layer5/main.c -o build/temp.linux-armv7l-2.7/layer5/main.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c modules/cealign/src/ccealignmodule.cpp -o build/temp.linux-armv7l-2.7/modules/cealign/src/ccealignmodule.o -ffast-math -funroll-loops -O3 -fcommon
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c generated/src/ShaderText.c -o build/temp.linux-armv7l-2.7/generated/src/ShaderText.o -ffast-math -funroll-loops -O3 -fcommon
c++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/ov/src/OVHeap.o build/temp.linux-armv7l-2.7/ov/src/OVOneToAny.o build/temp.linux-armv7l-2.7/ov/src/OVOneToOne.o build/temp.linux-armv7l-2.7/ov/src/ov_utility.o build/temp.linux-armv7l-2.7/ov/src/OVRandom.o build/temp.linux-armv7l-2.7/ov/src/OVContext.o build/temp.linux-armv7l-2.7/ov/src/OVHeapArray.o build/temp.linux-armv7l-2.7/ov/src/OVLexicon.o build/temp.linux-armv7l-2.7/layer0/Vector.o build/temp.linux-armv7l-2.7/layer0/Isosurf.o build/temp.linux-armv7l-2.7/layer0/Deferred.o build/temp.linux-armv7l-2.7/layer0/Err.o build/temp.linux-armv7l-2.7/layer0/Parse.o build/temp.linux-armv7l-2.7/layer0/Map.o build/temp.linux-armv7l-2.7/layer0/Raw.o build/temp.linux-armv7l-2.7/layer0/MemoryCache.o build/temp.linux-armv7l-2.7/layer0/Block.o build/temp.linux-armv7l-2.7/layer0/ShaderMgr.o build/temp.linux-armv7l-2.7/layer0/Matrix.o build/temp.linux-armv7l-2.7/layer0/Util.o build/temp.linux-armv7l-2.7/layer0/Texture.o build/temp.linux-armv7l-2.7/layer0/Pixmap.o build/temp.linux-armv7l-2.7/layer0/Word.o build/temp.linux-armv7l-2.7/layer0/MemoryDebug.o build/temp.linux-armv7l-2.7/layer0/Debug.o build/temp.linux-armv7l-2.7/layer0/Queue.o build/temp.linux-armv7l-2.7/layer0/Crystal.o build/temp.linux-armv7l-2.7/layer0/Tracker.o build/temp.linux-armv7l-2.7/layer0/Feedback.o build/temp.linux-armv7l-2.7/layer0/Match.o build/temp.linux-armv7l-2.7/layer0/Tetsurf.o build/temp.linux-armv7l-2.7/layer0/Field.o build/temp.linux-armv7l-2.7/layer0/Triangle.o build/temp.linux-armv7l-2.7/layer0/os_gl.o build/temp.linux-armv7l-2.7/layer0/Sphere.o build/temp.linux-armv7l-2.7/layer0/MyPNG.o build/temp.linux-armv7l-2.7/layer1/P.o build/temp.linux-armv7l-2.7/layer1/Control.o build/temp.linux-armv7l-2.7/layer1/Basis.o build/temp.linux-armv7l-2.7/layer1/TypeFace.o build/temp.linux-armv7l-2.7/layer1/Font.o build/temp.linux-armv7l-2.7/layer1/CGO.o build/temp.linux-armv7l-2.7/layer1/Pop.o build/temp.linux-armv7l-2.7/layer1/Ray.o build/temp.linux-armv7l-2.7/layer1/Rep.o build/temp.linux-armv7l-2.7/layer1/Seq.o build/temp.linux-armv7l-2.7/layer1/Setting.o build/temp.linux-armv7l-2.7/layer1/Ortho.o build/temp.linux-armv7l-2.7/layer1/ScrollBar.o build/temp.linux-armv7l-2.7/layer1/Text.o build/temp.linux-armv7l-2.7/layer1/Character.o build/temp.linux-armv7l-2.7/layer1/View.o build/temp.linux-armv7l-2.7/layer1/Color.o build/temp.linux-armv7l-2.7/layer1/PyMOLObject.o build/temp.linux-armv7l-2.7/layer1/Wizard.o build/temp.linux-armv7l-2.7/layer1/Extrude.o build/temp.linux-armv7l-2.7/layer1/ButMode.o build/temp.linux-armv7l-2.7/layer1/Symmetry.o build/temp.linux-armv7l-2.7/layer1/Scene.o build/temp.linux-armv7l-2.7/layer1/FontGLUT.o build/temp.linux-armv7l-2.7/layer1/Shaker.o build/temp.linux-armv7l-2.7/layer1/PConv.o build/temp.linux-armv7l-2.7/layer1/FontGLUT8x13.o build/temp.linux-armv7l-2.7/layer1/FontGLUT9x15.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel10.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel12.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel18.o build/temp.linux-armv7l-2.7/layer1/FontType.o build/temp.linux-armv7l-2.7/layer1/Movie.o build/temp.linux-armv7l-2.7/layer2/RepDihedral.o build/temp.linux-armv7l-2.7/layer2/RepEllipsoid.o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule.o build/temp.linux-armv7l-2.7/layer2/SculptCache.o build/temp.linux-armv7l-2.7/layer2/RepNonbonded.o build/temp.linux-armv7l-2.7/layer2/Sculpt.o build/temp.linux-armv7l-2.7/layer2/ObjectVolume.o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule2.o build/temp.linux-armv7l-2.7/layer2/GadgetSet.o build/temp.linux-armv7l-2.7/layer2/ObjectCGO.o build/temp.linux-armv7l-2.7/layer2/ObjectMap.o build/temp.linux-armv7l-2.7/layer2/RepAngle.o build/temp.linux-armv7l-2.7/layer2/RepDistDash.o build/temp.linux-armv7l-2.7/layer2/RepWireBond.o build/temp.linux-armv7l-2.7/layer2/ObjectSlice.o build/temp.linux-armv7l-2.7/layer2/RepMesh.o build/temp.linux-armv7l-2.7/layer2/RepNonbondedSphere.o build/temp.linux-armv7l-2.7/layer2/CoordSet.o build/temp.linux-armv7l-2.7/layer2/ObjectGadgetRamp.o build/temp.linux-armv7l-2.7/layer2/RepSphere.o build/temp.linux-armv7l-2.7/layer2/VFont.o build/temp.linux-armv7l-2.7/layer2/ObjectAlignment.o build/temp.linux-armv7l-2.7/layer2/ObjectCallback.o build/temp.linux-armv7l-2.7/layer2/ObjectDist.o build/temp.linux-armv7l-2.7/layer2/DistSet.o build/temp.linux-armv7l-2.7/layer2/RepDot.o build/temp.linux-armv7l-2.7/layer2/RepCylBond.o build/temp.linux-armv7l-2.7/layer2/ObjectMesh.o build/temp.linux-armv7l-2.7/layer2/ObjectGroup.o build/temp.linux-armv7l-2.7/layer2/RepDistLabel.o build/temp.linux-armv7l-2.7/layer2/RepLabel.o build/temp.linux-armv7l-2.7/layer2/RepCartoon.o build/temp.linux-armv7l-2.7/layer2/RepRibbon.o build/temp.linux-armv7l-2.7/layer2/RepSurface.o build/temp.linux-armv7l-2.7/layer2/ObjectSurface.o build/temp.linux-armv7l-2.7/layer2/AtomInfo.o build/temp.linux-armv7l-2.7/layer2/ObjectGadget.o build/temp.linux-armv7l-2.7/layer3/Executive.o build/temp.linux-armv7l-2.7/layer3/Seeker.o build/temp.linux-armv7l-2.7/layer3/Selector.o build/temp.linux-armv7l-2.7/layer3/PlugIOManager.o build/temp.linux-armv7l-2.7/layer3/Editor.o build/temp.linux-armv7l-2.7/layer4/Cmd.o build/temp.linux-armv7l-2.7/layer4/Menu.o build/temp.linux-armv7l-2.7/layer4/PopUp.o build/temp.linux-armv7l-2.7/layer4/Export.o build/temp.linux-armv7l-2.7/layer5/TestPyMOL.o build/temp.linux-armv7l-2.7/layer5/PyMOL.o build/temp.linux-armv7l-2.7/layer5/main.o build/temp.linux-armv7l-2.7/modules/cealign/src/ccealignmodule.o build/temp.linux-armv7l-2.7/generated/src/ShaderText.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mmcif.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -lpng -lfreetype -lGL -lGLU -lGLEW -lglut -o build/lib.linux-armv7l-2.7/pymol/_cmd.so
building 'chempy.champ._champ' extension
creating build/temp.linux-armv7l-2.7/contrib/champ
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/vla.c -o build/temp.linux-armv7l-2.7/contrib/champ/vla.o
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/strblock.c -o build/temp.linux-armv7l-2.7/contrib/champ/strblock.o
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/err2.c -o build/temp.linux-armv7l-2.7/contrib/champ/err2.o
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/chiral.c -o build/temp.linux-armv7l-2.7/contrib/champ/chiral.o
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/list.c -o build/temp.linux-armv7l-2.7/contrib/champ/list.o
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/os_memory.c -o build/temp.linux-armv7l-2.7/contrib/champ/os_memory.o
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/sort.c -o build/temp.linux-armv7l-2.7/contrib/champ/sort.o
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/champ_module.c -o build/temp.linux-armv7l-2.7/contrib/champ/champ_module.o
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/champ.c -o build/temp.linux-armv7l-2.7/contrib/champ/champ.o
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/feedback2.c -o build/temp.linux-armv7l-2.7/contrib/champ/feedback2.o
contrib/champ/champ.c: In function 'ChampSmiToPat':
contrib/champ/champ.c:5005:9: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'int' [-Wformat=]
ENDFB;
^
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/contrib/champ/vla.o build/temp.linux-armv7l-2.7/contrib/champ/strblock.o build/temp.linux-armv7l-2.7/contrib/champ/chiral.o build/temp.linux-armv7l-2.7/contrib/champ/err2.o build/temp.linux-armv7l-2.7/contrib/champ/list.o build/temp.linux-armv7l-2.7/contrib/champ/os_memory.o build/temp.linux-armv7l-2.7/contrib/champ/sort.o build/temp.linux-armv7l-2.7/contrib/champ/champ_module.o build/temp.linux-armv7l-2.7/contrib/champ/champ.o build/temp.linux-armv7l-2.7/contrib/champ/feedback2.o -o build/lib.linux-armv7l-2.7/chempy/champ/_champ.so
building 'pymol.opengl.glu._glu_num' extension
creating build/temp.linux-armv7l-2.7/contrib/pyopengl
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/pyopengl/_glu_nummodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_glu_nummodule.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/contrib/pyopengl/_glu_nummodule.o -lGL -lGLU -lGLEW -lglut -o build/lib.linux-armv7l-2.7/pymol/opengl/glu/_glu_num.so
building 'pymol.opengl.glu._glu' extension
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/pyopengl/_glumodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_glumodule.o -ffast-math -funroll-loops -O3 -fcommon
contrib/pyopengl/_glumodule.c:236:13: warning: 'suppress_compiler_warnings' defined but not used [-Wunused-function]
static void suppress_compiler_warnings(void)
^
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/contrib/pyopengl/_glumodule.o -lGL -lGLU -lGLEW -lglut -o build/lib.linux-armv7l-2.7/pymol/opengl/glu/_glu.so
building 'pymol.opengl.glut._glut' extension
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/pyopengl/_glutmodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_glutmodule.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/contrib/pyopengl/_glutmodule.o -lGL -lGLU -lGLEW -lglut -o build/lib.linux-armv7l-2.7/pymol/opengl/glut/_glut.so
building 'pymol.opengl.gl._opengl_num' extension
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/pyopengl/_opengl_nummodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_opengl_nummodule.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/contrib/pyopengl/_opengl_nummodule.o -lGL -lGLU -lGLEW -lglut -o build/lib.linux-armv7l-2.7/pymol/opengl/gl/_opengl_num.so
building 'pymol.opengl.gl._opengl' extension
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/pyopengl/_openglmodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_openglmodule.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/contrib/pyopengl/_openglmodule.o -lGL -lGLU -lGLEW -lglut -o build/lib.linux-armv7l-2.7/pymol/opengl/gl/_opengl.so
building 'pymol.opengl.gl.openglutil' extension
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/pyopengl/openglutil.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/openglutil.o -ffast-math -funroll-loops -O3 -fcommon
contrib/pyopengl/openglutil.c:49:13: warning: 'suppress_compiler_warnings' defined but not used [-Wunused-function]
static void suppress_compiler_warnings(void)
^
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/contrib/pyopengl/openglutil.o -lGL -lGLU -lGLEW -lglut -o build/lib.linux-armv7l-2.7/pymol/opengl/gl/openglutil.so
building 'pymol.opengl.gl.openglutil_num' extension
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c contrib/pyopengl/openglutil_num.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/openglutil_num.o -ffast-math -funroll-loops -O3 -fcommon
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/contrib/pyopengl/openglutil_num.o -lGL -lGLU -lGLEW -lglut -o build/lib.linux-armv7l-2.7/pymol/opengl/gl/openglutil_num.so
make[1]: Leaving directory `/«PKGBUILDDIR»'
debian/rules override_dh_auto_test
make[1]: Entering directory `/«PKGBUILDDIR»'
#dh_auto_test
chmod +x test/pymol-test
(cd test && python run)
run_tests: C0001quit...
run_tests: C0001quit.log DIFFERS over about 4 lines:
['1,8d0\n', '< PyMOL>quit\n', '< ================================= HEAP =================================\n', '< OVHeap: Summary: Blocks expected 0, found 0, peaked at 79.\n', '< OVHeap: Summary: Total bytes allocated 0x0 (0.000 MB).\n', '< ========================================================================\n', '< Memory: 0 blocks expected, 0 found, 118 maximum allocated.\n', '< Memory: current memory allocated 0 bytes (0.0 MB).\n', '< PyMOL: normal program termination.\n']
run_tests: C0010hello...
run_tests: C0010hello.log DIFFERS over about 1 lines:
['1,2d0\n', '< PyMOL>print "hello"\n', '< hello\n']
run_tests: C0020pdb...
run_tests: C0020pdb.log DIFFERS over about 4 lines:
['1,8d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>print cmd.select("(all)")\n', '< 107\n', '< PyMOL>save cmp/C0020pdb.pdb\n', '< Save: wrote "cmp/C0020pdb.pdb".\n']
run_tests: C0020pdb.pdb is missing.
run_tests: C0021pdbstr...
run_tests: C0021pdbstr.log DIFFERS over about 3 lines:
['1,6d0\n', '< PyMOL>f=open("dat/pept.pdb","rb")\n', '< PyMOL>l=f.read()\n', '< PyMOL>f.close()\n', '< PyMOL>cmd.read_pdbstr(l,"test")\n', '< PyMOL>print cmd.count_atoms()\n', '< 107\n']
run_tests: C0025mol...
run_tests: C0025mol.log DIFFERS over about 3 lines:
['1,6d0\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>print cmd.get_names()\n', "< ['small01']\n", '< PyMOL>print cmd.select("(all)")\n', '< 36\n']
run_tests: C0026sdf...
run_tests: C0026sdf.log DIFFERS over about 17 lines:
['1,34d0\n', '< PyMOL>load dat/ligs3d.sdf\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/ligs3d.sdf" loaded as "ligs3d", through state 10.\n', '< PyMOL>print cmd.get_names()\n', "< ['ligs3d']\n", '< PyMOL>print cmd.select("(all)")\n', '< 337\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>frame 1\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 91 graphics primitives.\n', '< PyMOL>frame 10\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 70 graphics primitives.\n', '< PyMOL>hide\n', '< PyMOL>show sticks\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 70 graphics primitives.\n', '< PyMOL>unset valence\n', '< Setting: valence set to off.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 42 graphics primitives.\n']
run_tests: C0027mol2...
run_tests: C0027mol2.log DIFFERS over about 36 lines:
['1,71d0\n', '< PyMOL>load dat/small03.mol2\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/small03.mol2" loaded as "small03", through state 16.\n', '< PyMOL>print cmd.get_names()\n', "< ['small03']\n", '< PyMOL>print cmd.count_states()\n', '< 16\n', '< PyMOL>print cmd.select("(all)")\n', '< 389\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>frame 1\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 19 graphics primitives.\n', '< PyMOL>frame 10\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 41 graphics primitives.\n', '< PyMOL>hide\n', '< PyMOL>show sticks\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 41 graphics primitives.\n', '< PyMOL>unset valence\n', '< Setting: valence set to off.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 37 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small03.mol2, discrete=0\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/small03.mol2" loaded as "small03", through state 16.\n', '< PyMOL>count_atoms\n', '< count_atoms: 369 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small03.mol2, multiplex=1\n', '< ExecutiveLoad: loaded 16 objects from "dat/small03.mol2".\n', '< PyMOL>print cmd.get_names()\n', "< ['AGLYSL01', 'AMHTAR01', 'AMPTRB10', 'ARGIND11', 'BAOXLM01', 'BBSPRT10', 'BEVJER10', 'BEWCUB', 'BEWKUJ04', 'BIHKEI01', 'BIPDEJ02', 'BIPJUF10', 'BIPYCL01', 'BITNAT10', 'BIYBIU10', 'BODKOU']\n", '< PyMOL>print cmd.count_states()\n', '< 1\n', '< PyMOL>print cmd.select("(all)")\n', '< 389\n', '< PyMOL>dele all\n', '< PyMOL>set multiplex, 1\n', '< Setting: multiplex set to 1.\n', '< PyMOL>load dat/small03.mol2\n', '< ExecutiveLoad: loaded 16 objects from "dat/small03.mol2".\n', '< PyMOL>print cmd.get_names()\n', "< ['AGLYSL01', 'AMHTAR01', 'AMPTRB10', 'ARGIND11', 'BAOXLM01', 'BBSPRT10', 'BEVJER10', 'BEWCUB', 'BEWKUJ04', 'BIHKEI01', 'BIPDEJ02', 'BIPJUF10', 'BIPYCL01', 'BITNAT10', 'BIYBIU10', 'BODKOU']\n", '< PyMOL>print cmd.count_states()\n', '< 1\n', '< PyMOL>print cmd.select("(all)")\n', '< 389\n']
run_tests: C0030pkl...
run_tests: C0030pkl.log DIFFERS over about 4 lines:
['1,8d0\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>print cmd.select("(all)")\n', '< 198\n', '< PyMOL>save cmp/C0030pkl.pdb\n', '< Save: wrote "cmp/C0030pkl.pdb".\n']
run_tests: C0030pkl.pdb is missing.
run_tests: C0050multi...
run_tests: C0050multi.log DIFFERS over about 4 lines:
['1,8d0\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>load dat/water.pdb\n', '< CmdLoad: "dat/water.pdb" loaded as "water".\n']
run_tests: C0060delete...
run_tests: C0060delete.log DIFFERS over about 19 lines:
['1,37d0\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>delete pept\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>delete pept\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>delete pept\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'pept']\n", '< PyMOL>delete il2\n', '< PyMOL>delete pept\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>delete il2\n', '< PyMOL>delete pept\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>delete il2\n', '< PyMOL>delete pept\n', '< PyMOL>print cmd.get_names()\n', '< []\n']
run_tests: C0070rep...
run_tests: C0070rep.log DIFFERS over about 9 lines:
['1,17d0\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>print cmd.get_names()\n', "< ['tiny']\n", '< PyMOL>show sticks\n', '< PyMOL>refresh\n', '< PyMOL>show spheres\n', '< PyMOL>refresh\n', '< PyMOL>show dots\n', '< PyMOL>refresh\n', '< PyMOL>show surface\n', '< PyMOL>refresh\n', '< RepSurface: 318 surface points.\n', '< RepSurface: 632 triangles.\n', '< PyMOL>show mesh\n', '< PyMOL>refresh\n', '< IsosurfVolume: Surface generated using 1747 lines.\n']
run_tests: C0080create...
run_tests: C0080create.1.pdb is missing.
run_tests: C0080create.2.pdb is missing.
run_tests: C0080create.log DIFFERS over about 61 lines:
['1,121d0\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>create cpy=(pept)\n', '< Selector: found 198 atoms.\n', '< Executive: object "cpy" created.\n', '< PyMOL>create pc1=(resi 1 and pept)\n', '< Selector: found 12 atoms.\n', '< Executive: object "pc1" created.\n', '< PyMOL>create pc2=(resi 2 and pept)\n', '< Selector: found 10 atoms.\n', '< Executive: object "pc2" created.\n', '< PyMOL>create pc3=(resi 3 and pept)\n', '< Selector: found 10 atoms.\n', '< Executive: object "pc3" created.\n', '< PyMOL>create pc4=(resi 4 and pept)\n', '< Selector: found 24 atoms.\n', '< Executive: object "pc4" created.\n', '< PyMOL>create pc5=(resi 5 and pept)\n', '< Selector: found 17 atoms.\n', '< Executive: object "pc5" created.\n', '< PyMOL>create pc6=(resi 6 and pept)\n', '< Selector: found 19 atoms.\n', '< Executive: object "pc6" created.\n', '< PyMOL>create pc7=(resi 7 and pept)\n', '< Selector: found 7 atoms.\n', '< Executive: object "pc7" created.\n', '< PyMOL>create pc8=(resi 8 and pept)\n', '< Selector: found 15 atoms.\n', '< Executive: object "pc8" created.\n', '< PyMOL>create pc9=(resi 9 and pept)\n', '< Selector: found 19 atoms.\n', '< Executive: object "pc9" created.\n', '< PyMOL>create pc10=(resi 10 and pept)\n', '< Selector: found 16 atoms.\n', '< Executive: object "pc10" created.\n', '< PyMOL>create pc11=(resi 11 and pept)\n', '< Selector: found 24 atoms.\n', '< Executive: object "pc11" created.\n', '< PyMOL>create pc12=(resi 12 and pept)\n', '< Selector: found 10 atoms.\n', '< Executive: object "pc12" created.\n', '< PyMOL>create pc13=(resi 13 and pept)\n', '< Selector: found 15 atoms.\n', '< Executive: object "pc13" created.\n', '< PyMOL>create chk = (pc1 | pc2 | pc3 | pc4 | pc5 | pc6 | pc7 | pc8 | pc9 | pc10 | pc11 | pc12 | pc13 )\n', '< Selector: found 198 atoms.\n', '< Executive: object "chk" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'cpy', 'pc1', 'pc2', 'pc3', 'pc4', 'pc5', 'pc6', 'pc7', 'pc8', 'pc9', 'pc10', 'pc11', 'pc12', 'pc13', 'chk']\n", '< PyMOL>delete pc*\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'cpy', 'chk']\n", '< PyMOL>save cmp/C0080create.1.pdb,(cpy and resi 4:6)\n', '< Save: wrote "cmp/C0080create.1.pdb".\n', '< PyMOL>save cmp/C0080create.2.pdb,(chk and resi 4:6)\n', '< Save: wrote "cmp/C0080create.2.pdb".\n', '< PyMOL>dele all\n', '< PyMOL>load dat/ligs3d.sdf\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/ligs3d.sdf" loaded as "ligs3d", through state 10.\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>create cpy,il2\n', '< Selector: found 2084 atoms.\n', '< Executive: object "cpy" created.\n', '< PyMOL>print cmd.count_states("il2")\n', '< 1\n', '< PyMOL>print cmd.count_states("ligs3d")\n', '< 10\n', '< PyMOL>print cmd.count_states("cpy")\n', '< 1\n', '< PyMOL>create tst2,ligs3d, 5, 3\n', '< Selector: found 32 atoms.\n', '< Executive: object "tst2" created.\n', '< PyMOL>print cmd.count_states("tst2")\n', '< 3\n', '< PyMOL>print cmd.count_atoms("tst2 and state 1")\n', '< 0\n', '< PyMOL>print cmd.count_atoms("tst2 and state 2")\n', '< 0\n', '< PyMOL>print cmd.count_atoms("tst2 and state 3")\n', '< 32\n', '< PyMOL>print cmd.count_atoms("ligs3d and state 3")\n', '< 33\n', '< PyMOL>print cmd.count_atoms("ligs3d and state 5")\n', '< 32\n', '< PyMOL>print cmd.count_atoms("tst2 and state 5")\n', '< 0\n', '< PyMOL>dele all\n', '< PyMOL>load dat/ligs3d.sdf\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/ligs3d.sdf" loaded as "ligs3d", through state 10.\n', '< PyMOL>create tmp, ligs3d, 0, 4\n', '< Selector: found 337 atoms.\n', '< Executive: object "tmp" created.\n', '< PyMOL>count_states\n', '< cmd.count_states: 13 states.\n', '< PyMOL>disable\n', '< PyMOL>enable tmp\n', '< PyMOL>count_states\n', '< cmd.count_states: 13 states.\n']
run_tests: C0100select...
run_tests: C0100select.log DIFFERS over about 90 lines:
['1,180d0\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>print cmd.get_names()\n', "< ['tiny', 'il2']\n", '< PyMOL>select tst = (all)\n', '< Selector: selection "tst" defined with 2121 atoms.\n', '< PyMOL>select tst = (none)\n', '< Selector: selection "tst" defined with 0 atoms.\n', '< PyMOL>select tst = (name c)\n', '< Selector: selection "tst" defined with 129 atoms.\n', '< PyMOL>dele tst\n', '< PyMOL>select tst = (segi e)\n', '< Selector: selection "tst" defined with 9 atoms.\n', '< PyMOL>select tst = (all)\n', '< Selector: selection "tst" defined with 2121 atoms.\n', "< PyMOL>select (segi '')\n", '< Selector: selection "sel01" defined with 2112 atoms.\n', '< PyMOL>select (name ca,c,n,o)\n', '< Selector: selection "sel02" defined with 515 atoms.\n', '< PyMOL>select (n;ca,c)\n', '< Selector: selection "sel03" defined with 257 atoms.\n', '< PyMOL>select (resn pro)\n', '< Selector: selection "sel04" defined with 56 atoms.\n', '< PyMOL>select (r;pro)\n', '< Selector: selection "sel05" defined with 56 atoms.\n', '< PyMOL>select (chain c,e)\n', '< Selector: selection "sel06" defined with 36 atoms.\n', '< PyMOL>select (c;c,e)\n', '< Selector: selection "sel07" defined with 36 atoms.\n', '< PyMOL>select (resi 100)\n', '< Selector: selection "sel08" defined with 15 atoms.\n', '< PyMOL>select (i;100)\n', '< Selector: selection "sel09" defined with 15 atoms.\n', '< PyMOL>select (id 50)\n', '< Selector: selection "sel10" defined with 1 atoms.\n', '< PyMOL>select (byres id 50)\n', '< Selector: selection "sel11" defined with 22 atoms.\n', "< PyMOL>select (alt '')\n", '< Selector: selection "sel12" defined with 2121 atoms.\n', '< PyMOL>select (tiny)\n', '< Selector: selection "sel13" defined with 37 atoms.\n', '< PyMOL>select (tiny or il2)\n', '< Selector: selection "sel14" defined with 2121 atoms.\n', '< PyMOL>select (tiny | il2)\n', '< Selector: selection "sel15" defined with 2121 atoms.\n', '< PyMOL>select (vis)\n', '< Selector: selection "sel16" defined with 2121 atoms.\n', '< PyMOL>hide (tiny)\n', '< PyMOL>select (vis)\n', '< Selector: selection "sel17" defined with 2084 atoms.\n', "< PyMOL>print cmd.get_names('all')\n", "< ['tiny', 'il2', 'tst', 'sel01', 'sel02', 'sel03', 'sel04', 'sel05', 'sel06', 'sel07', 'sel08', 'sel09', 'sel10', 'sel11', 'sel12', 'sel13', 'sel14', 'sel15', 'sel16', 'sel17']\n", '< PyMOL>delete sel*\n', "< PyMOL>print cmd.get_names('all')\n", "< ['tiny', 'il2', 'tst']\n", '< PyMOL>select foo = (name c)\n', '< Selector: selection "foo" defined with 129 atoms.\n', '< PyMOL>select fie = (name n,c)\n', '< Selector: selection "fie" defined with 257 atoms.\n', '< PyMOL>select (foo and not fie)\n', '< Selector: selection "sel18" defined with 0 atoms.\n', '< PyMOL>select (fie &! foo)\n', '< Selector: selection "sel19" defined with 128 atoms.\n', '< PyMOL>select foe = (tiny a; 30)\n', '< Selector: selection "foe" defined with 105 atoms.\n', '< PyMOL>select fum = (il2 and not foe)\n', '< Selector: selection "fum" defined with 1979 atoms.\n', '< PyMOL>select (hydro)\n', '< Selector: selection "sel20" defined with 1075 atoms.\n', '< PyMOL>select (b<30 and b>0.1)\n', '< Selector: selection "sel21" defined with 362 atoms.\n', '< PyMOL>select (q=0.0)\n', '< Selector: selection "sel22" defined with 9 atoms.\n', '< PyMOL>select (q=1.0)\n', '< Selector: selection "sel23" defined with 2112 atoms.\n', '< PyMOL>select (b=0.0)\n', '< Selector: selection "sel24" defined with 1080 atoms.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>select tst,pept within 5 of tiny\n', '< Selector: selection "tst" defined with 0 atoms.\n', '< PyMOL>select tst,pept within 50 of tiny\n', '< Selector: selection "tst" defined with 67 atoms.\n', '< PyMOL>select tst, pept w. 1 of pept\n', '< Selector: selection "tst" defined with 107 atoms.\n', '< PyMOL>print cmd.select("(none)")\n', '< 0\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb,mult\n', '< CmdLoad: "dat/pept.pdb" loaded as "mult".\n', '< PyMOL>load dat/il2.pdb,mult\n', '< CmdLoad: "dat/il2.pdb" appended into object "mult", state 2.\n', '< PyMOL>frame 1\n', '< PyMOL>select tst,mult and present\n', '< Selector: selection "tst" defined with 107 atoms.\n', '< PyMOL>frame 2\n', '< PyMOL>select tst,mult and present\n', '< Selector: selection "tst" defined with 2084 atoms.\n', '< PyMOL>select tst,state 1\n', '< Selector: selection "tst" defined with 107 atoms.\n', '< PyMOL>select tst,state 2\n', '< Selector: selection "tst" defined with 2084 atoms.\n', '< PyMOL>hide\n', '< PyMOL>show sph,name c\n', '< PyMOL>select tst,present and vis\n', '< Selector: selection "tst" defined with 126 atoms.\n', '< PyMOL>frame 1\n', '< PyMOL>select tst,present and vis\n', '< Selector: selection "tst" defined with 13 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>indicate name ca\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 13 atoms\n', '< PyMOL>indicate name *c*\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 69 atoms\n', '< PyMOL>indicate (name *c*,*n*)\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 86 atoms\n', '< PyMOL>indicate (name *c*+*n*)\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 86 atoms\n', '< PyMOL>indicate name *G\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 9 atoms\n', '< PyMOL>indicate */*G\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 9 atoms\n', '< PyMOL>indicate rank -3+5+10-23+7+40-\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 87 atoms\n', '< PyMOL>indicate id -3+5+10-23+7+40-\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 87 atoms\n', '< PyMOL>indicate index -3+5+10-23+7+40-\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 87 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "1tii".\n', '< PyMOL>indicate A:C+F/10+90+100-/ca+c+n*\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 435 atoms\n', '< PyMOL>count_atoms 1TII\n', '< count_atoms: 5684 atoms\n', '< PyMOL>count_atoms 1tii\n', '< count_atoms: 5684 atoms\n', '< PyMOL>count_atoms HOH`307/ expand 5\n', '< count_atoms: 12 atoms\n', '< PyMOL>count_atoms a// c//\n', '< count_atoms: 1769 atoms\n', '< PyMOL>count_atoms a// c// d//\n', '< count_atoms: 2509 atoms\n', '< PyMOL>count_atoms (a// c//) d//\n', '< count_atoms: 2509 atoms\n', '< PyMOL>count_atoms a// c//&none\n', '< count_atoms: 1479 atoms\n', '< PyMOL>count_atoms c//&none a//\n', '< count_atoms: 1479 atoms\n', '< PyMOL>count_atoms c//&none (a//&none a//)\n', '< count_atoms: 1479 atoms\n', '< PyMOL>count_atoms (c//&none) a// (a//&none)\n', '< count_atoms: 1479 atoms\n', '< PyMOL>count_atoms (a// (d// c//)) & (e// (b// a//))\n', '< count_atoms: 1479 atoms\n']
run_tests: C0105names...
run_tests: C0105names.log DIFFERS over about 27 lines:
['1,54d0\n', '< PyMOL>load dat/names.pdb\n', '< CmdLoad: "dat/names.pdb" loaded as "names".\n', "< PyMOL>select test,name O4'\n", '< Selector: selection "test" defined with 2 atoms.\n', "< PyMOL>select test,*/O4'\n", '< Selector: selection "test" defined with 2 atoms.\n', "< PyMOL>select test,*/O4'+O3'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,(*/O4',O3')\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name O4'+O3'\n", '< Selector: selection "test" defined with 4 atoms.\n', '< PyMOL>select test,name "O4\'+O3\'"\n', '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name O4'+Na\\+\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,(name Na\\+,O4')\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name Na\\++O4'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,*/Na\\++O4'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,*/O4'+O4\n", '< Selector: selection "test" defined with 3 atoms.\n', '< PyMOL>select test,*/O2\\*+O2\n', '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,*/O2\\*+O2'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name 'O4''\n", '< Selector: selection "test" defined with 2 atoms.\n', '< PyMOL>select test,name "O4\'"+O2\'\n', '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name 'O4''+O2'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name O4'+C2+C4+Na\\++Cl\\-\n", '< Selector: selection "test" defined with 13 atoms.\n', "< PyMOL>select test,*/O4'+C2+C4+Na\\++Cl\\-\n", '< Selector: selection "test" defined with 13 atoms.\n', "< PyMOL>select test,names////O4'\n", '< Selector: selection "test" defined with 2 atoms.\n', "< PyMOL>select test,names and */O4'+'Na\\+'+'C2'+'C4'\n", '< Selector: selection "test" defined with 12 atoms.\n', "< PyMOL>select test,chain ''\n", '< Selector: selection "test" defined with 0 atoms.\n', "< PyMOL>select test,segi ''\n", '< Selector: selection "test" defined with 86 atoms.\n', "< PyMOL>select test,chain R+''\n", '< Selector: selection "test" defined with 82 atoms.\n', "< PyMOL>select test,chain ''+R\n", '< Selector: selection "test" defined with 82 atoms.\n', '< PyMOL>select test,name Na\\+\n', '< Selector: selection "test" defined with 2 atoms.\n', '< PyMOL>select test,name "Na\\+"\n', '< Selector: selection "test" defined with 2 atoms.\n']
run_tests: C0106order...
run_tests: C0106order.log DIFFERS over about 49 lines:
['1,98d0\n', '< PyMOL>order does_not_exist\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>order *\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>order *,location=top\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>order *,location=bottom\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>order *,location=current\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>order pept\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>order *\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>order *,location=top\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>order *,location=bottom\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>order *,location=current\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'il2']\n", '< PyMOL>order *\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'il2']\n", '< PyMOL>order il2,location=current\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'il2']\n", '< PyMOL>order il2,location=top\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'pept']\n", '< PyMOL>order il2,location=bottom\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'il2']\n", '< PyMOL>order il2 pept\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'pept']\n", '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'pept', 'small01']\n", '< PyMOL>order small01 pept\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'small01', 'pept']\n", '< PyMOL>order small01 pept il2\n', '< PyMOL>print cmd.get_names()\n', "< ['small01', 'pept', 'il2']\n", '< PyMOL>order *\n', '< PyMOL>print cmd.get_names()\n', "< ['small01', 'pept', 'il2']\n", '< PyMOL>create aaa,pept\n', '< Selector: found 107 atoms.\n', '< Executive: object "aaa" created.\n', '< PyMOL>order *,sort=1\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'pept', 'small01']\n", '< PyMOL>create zzz,pept\n', '< Selector: found 107 atoms.\n', '< Executive: object "zzz" created.\n', '< PyMOL>order *,sort=1\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'pept', 'small01', 'zzz']\n", '< PyMOL>create pept2, pept\n', '< Selector: found 107 atoms.\n', '< Executive: object "pept2" created.\n', '< PyMOL>create pept1, pept\n', '< Selector: found 107 atoms.\n', '< Executive: object "pept1" created.\n', '< PyMOL>order pept*\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'pept', 'pept2', 'pept1', 'small01', 'zzz']\n", '< PyMOL>order pept*,sort=1\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'pept', 'pept1', 'pept2', 'small01', 'zzz']\n", '< PyMOL>order pept*,location=top\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'pept1', 'pept2', 'aaa', 'il2', 'small01', 'zzz']\n", '< PyMOL>order pept*,location=bottom\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'small01', 'zzz', 'pept', 'pept1', 'pept2']\n", '< PyMOL>order aaa,location=bottom\n', '< PyMOL>order zzz,location=top\n', '< PyMOL>print cmd.get_names()\n', "< ['zzz', 'il2', 'small01', 'pept', 'pept1', 'pept2', 'aaa']\n"]
run_tests: C0140iterate...
run_tests: C0140iterate.log DIFFERS over about 23 lines:
['1,45d0\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>names = []\n', '< PyMOL>iterate (all),names.append(name)\n', '< Iterate: iterated over 37 atoms.\n', '< PyMOL>print names\n', "< ['C', 'O', 'N', 'CA', 'C', 'O', 'CB', 'CG', 'CD', 'HA', '2HB', '3HB', '2HG', '3HG', '2HD', '3HD', 'N', 'CA', 'C', 'O', 'CB', 'OG', 'H', 'HA', '2HB', '3HB', 'HG', 'O', 'O01', 'C02', 'C03', 'C04', 'C05', 'H01', 'H04', 'H05', 'H06']\n", '< PyMOL>bfct = []\n', '< PyMOL>iterate (resn pro),bfct.append(b)\n', '< Iterate: iterated over 14 atoms.\n', '< 50.7800\n', '< 48.1600\n', '< 43.9800\n', '< 44.4900\n', '< 38.5700\n', '< 54.5800\n', '< 46.5900\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', "< PyMOL>iterate (all),resn = 'NON'\n", '< Iterate: iterated over 37 atoms.\n', '< PyMOL>iterate (all),b = b + 10\n', '< Iterate: iterated over 37 atoms.\n', '< PyMOL>bfct = []\n', '< PyMOL>iterate (resn pro),bfct.append(b)\n', '< Iterate: iterated over 14 atoms.\n', '< 50.7800\n', '< 48.1600\n', '< 43.9800\n', '< 44.4900\n', '< 38.5700\n', '< 54.5800\n', '< 46.5900\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n']
run_tests: C0150alter...
run_tests: C0150alter.1.pdb is missing.
run_tests: C0150alter.log DIFFERS over about 11 lines:
['1,22d0\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>alter (all),resn = name\n', '< Alter: modified 37 atoms.\n', '< PyMOL>alter (all),b = b + 10\n', '< Alter: modified 37 atoms.\n', '< PyMOL>alter (all),q = 0.95\n', '< Alter: modified 37 atoms.\n', '< PyMOL>alter (all),name = name[0:2]\n', '< Alter: modified 37 atoms.\n', "< PyMOL>alter (het),type = 'ATOM'\n", '< Alter: modified 10 atoms.\n', "< PyMOL>alter (resi 9),type ='HETATM'\n", '< Alter: modified 11 atoms.\n', "< PyMOL>alter (e;c),elem = 'X'\n", '< Alter: modified 13 atoms.\n', '< PyMOL>alter (resi 8),resi=str(int(resi)+10)\n', '< Alter: modified 14 atoms.\n', "< PyMOL>alter (resi 7),alt='B'\n", '< Alter: modified 2 atoms.\n', '< PyMOL>save cmp/C0150alter.1.pdb\n', '< Save: wrote "cmp/C0150alter.1.pdb".\n']
run_tests: C0160get...
run_tests: C0160get.log DIFFERS over about 42 lines:
['1,84d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" appended into object "pept", state 2.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" appended into object "pept", state 3.\n', '< PyMOL>get line_width\n', '< get: line_width = 1.49000\n', '< PyMOL>get line_width,doesnotexist\n', '< SettingGet-Error: object "doesnotexist" not found.\n', '< PyMOL>get line_width,doesnotexist,5\n', '< SettingGet-Error: object "doesnotexist" not found.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 1.49000 in object pept\n', '< PyMOL>get line_width,pept,0\n', '< get: line_width = 1.49000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 1.49000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 1.49000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 1.49000 in object pept state 3\n', '< PyMOL>get line_width,pept,4\n', '< SettingGet-Error: object "pept" lacks state 4.\n', '< PyMOL>set line_width,2.0,pept\n', '< Setting: line_width set to 2.00000 in object "pept".\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 2.00000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 2.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 2.00000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 2.00000 in object pept state 3\n', '< PyMOL>set line_width,4.0,pept,1\n', '< Setting: line_width set to 4.00000 in object "pept", state 1.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 2.00000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 4.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 2.00000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 2.00000 in object pept state 3\n', '< PyMOL>set line_width,6.0,pept,2\n', '< Setting: line_width set to 6.00000 in object "pept", state 2.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 2.00000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 4.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 6.00000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 2.00000 in object pept state 3\n', '< PyMOL>unset line_width,pept,2\n', '< Setting: line_width unset in object "pept", state 2.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 2.00000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 4.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 2.00000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 2.00000 in object pept state 3\n', '< PyMOL>unset line_width,pept\n', '< Setting: line_width unset in object "pept".\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 1.49000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 4.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 1.49000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 1.49000 in object pept state 3\n', '< PyMOL>unset line_width,pept,1\n', '< Setting: line_width unset in object "pept", state 1.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 1.49000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 1.49000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 1.49000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 1.49000 in object pept state 3\n']
run_tests: C0170scene...
run_tests: C0170scene.log DIFFERS over about 125 lines:
['1,250d0\n', '< PyMOL>scene -10\n', "< Error: unknown scene: '-10'. Choices:\n", '< PyMOL>scene 9999\n', "< Error: unknown scene: '9999'. Choices:\n", '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>scene 1,store\n', '< scene: scene stored as "1".\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>scene 2,store\n', '< scene: scene stored as "2".\n', '< PyMOL>scene 1,recall\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>scene 2\n', '< Scene: view updated.\n', '< scene: "2" recalled.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>dist tst,5/ca,8/ca\n', '< Executive: object "tst" created.\n', '< PyMOL>turn x,5\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.996 0.087 0.000 -0.087 0.996\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>scene 3,store\n', '< scene: scene stored as "3".\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 180 graphics primitives.\n', '< PyMOL>hide dashes,tst\n', '< PyMOL>turn y,5\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 0.996 0.000 -0.087 0.008 0.996 0.087 0.087 -0.087 0.992\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>scene 4,store\n', '< scene: scene stored as "4".\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 172 graphics primitives.\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>disable tst\n', '< PyMOL>turn z,20\n', '< PyMOL>scene 5,store\n', '< scene: scene stored as "5".\n', '< PyMOL>scene 1\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>scene 2\n', '< Scene: view updated.\n', '< scene: "2" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.996 0.087 0.000 -0.087 0.996\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 180 graphics primitives.\n', '< PyMOL>scene 4\n', '< Scene: view updated.\n', '< scene: "4" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 0.996 0.000 -0.087 0.008 0.996 0.087 0.087 -0.087 0.992\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 172 graphics primitives.\n', '< PyMOL>scene 5\n', '< Scene: view updated.\n', '< scene: "5" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 0.940 0.342 0.000 -0.341 0.936 0.087 0.030 -0.082 0.996\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>scene 0\n', "< Error: unknown scene: '0'. Choices:\n", '< 1 2 3 4 5\n', '< PyMOL>scene 6\n', "< Error: unknown scene: '6'. Choices:\n", '< 1 2 3 4 5\n', '< PyMOL>scene 1000\n', "< Error: unknown scene: '1000'. Choices:\n", '< 1 2 3 4 5\n', '< PyMOL>scene 4,clear\n', "< scene: '4' deleted.\n", '< PyMOL>scene 4\n', "< Error: unknown scene: '4'. Choices:\n", '< 1 2 3 5\n', '< PyMOL>scene *\n', '< scene: current order:\n', '< 1 2 3 5\n', '< PyMOL>scene *,clear\n', '< PyMOL>scene *\n', '< scene: current order:\n', '< PyMOL>scene 1\n', "< Error: unknown scene: '1'. Choices:\n", '< PyMOL>hide\n', '< PyMOL>show lines\n', '< PyMOL>color red\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>scene 1, store\n', '< scene: scene stored as "1".\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>hide\n', '< PyMOL>show sticks\n', '< PyMOL>color blue\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>scene 2, store\n', '< scene: scene stored as "2".\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 107 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 1\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 2\n', '< Scene: view updated.\n', '< scene: "2" recalled.\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 107 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 2,rename,new_key=3\n', "< scene: '2' renamed to '3'.\n", '< PyMOL>scene 1\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 107 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 2\n', "< Error: unknown scene: '2'. Choices:\n", '< 1 3\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 107 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>hide\n', '< PyMOL>color green\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>show spheres\n', '< PyMOL>scene auto, update\n', '< scene: scene updated as "3".\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color green\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>scene 1\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color green\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color green\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n']
run_tests: C0180embed...
run_tests: C0180embed.log DIFFERS over about 45 lines:
['1,90d0\n', '< PyMOL>load dat/embed01.p1m\n', '< PyMOL>embed peptide\n', '< Embed: read 108 lines.\n', '< PyMOL>load_embedded peptide\n', '< CmdLoad: PDB-string loaded into object "peptide", state 1.\n', '< PyMOL>count_atoms\n', '< count_atoms: 107 atoms\n', '< PyMOL>hide everything, peptide\n', '< PyMOL>show sticks, peptide\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>set ray_default_renderer,2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 207 graphics primitives.\n', '< PyMOL>load dat/embed02.p1m\n', '< PyMOL>embed sm, mol\n', '< Embed: read 78 lines.\n', '< PyMOL>load_embedded sm\n', '< ExecutiveLoad: content loaded into object "sm", through state 1.\n', '< PyMOL>hide everything, sm\n', '< PyMOL>show sticks, sm\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 269 graphics primitives.\n', '< PyMOL>load dat/embed03.p1m\n', '< PyMOL>embed ligands,sdf\n', '< Embed: read 923 lines.\n', '< PyMOL>load_embedded ligands\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: content loaded into object "ligands", through state 10.\n', '< PyMOL>hide everything, ligands\n', '< PyMOL>show sticks, ligands\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>frame 5\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 343 graphics primitives.\n', '< PyMOL>load dat/embed04.p1m\n', '< PyMOL>embed m2, mol2\n', '< Embed: read 963 lines.\n', '< PyMOL>load_embedded m2\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: content loaded into object "m2", through state 16.\n', '< PyMOL>hide everything, m2\n', '< PyMOL>show sticks, m2\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 356 graphics primitives.\n', '< PyMOL>load dat/embed05.p1m\n', '< PyMOL>embed ligand, mol\n', '< Embed: read 77 lines.\n', '< PyMOL>embed protein\n', '< Embed: read 227 lines.\n', '< PyMOL>load_embedded ligand\n', '< ExecutiveLoad: content loaded into object "ligand", through state 1.\n', '< PyMOL>load_embedded protein\n', '< CmdLoad: PDB-string loaded into object "protein", state 1.\n', '< PyMOL>hide lines, ligand\n', '< PyMOL>show sticks, ligand\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>dist hbond, protein, ligand, mode=2\n', '< Executive: object "hbond" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 868 graphics primitives.\n', '< PyMOL>print cmd.get_state()\n', '< 5\n', '< PyMOL>print cmd.get_names()\n', "< ['peptide', 'sm', 'ligands', 'm2', 'ligand', 'protein', 'hbond']\n"]
run_tests: C0181embed...
run_tests: C0181embed.log DIFFERS over about 10 lines:
['1,20d0\n', '< PyMOL>load dat/embed06.p1m\n', '< PyMOL>embed\n', '< Embed: read 108 lines.\n', '< PyMOL>load_embedded\n', '< CmdLoad: PDB-string loaded into object "embed06", state 1.\n', '< PyMOL>hide\n', '< PyMOL>show surface\n', '< PyMOL>set transparency, 0.5\n', '< Setting: transparency set to 0.50000.\n', '< PyMOL>set surface_color, white\n', '< Setting: surface_color set to white.\n', '< PyMOL>show sticks\n', '< PyMOL>set ray_default_renderer,2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RepSurface: 1319 surface points.\n', '< RepSurface: 2634 triangles.\n', '< RayRenderTest: obtained 2800 graphics primitives.\n', '< PyMOL>print cmd.get_names()\n', "< ['embed06']\n"]
run_tests: C0200feedback...
run_tests: C0200feedback.log DIFFERS over about 127 lines:
['1,253d0\n', '< PyMOL>feedback\n', '< feedback: possible actions: \n', '< set, enable, disable\n', '< feedback: Please specify module names:\n', '< all\n', '< api\n', '< ccmd\n', '< cgo\n', '< cmd\n', '< color\n', '< coordset\n', '< distset\n', '< editor\n', '< executive\n', '< export\n', '< extrude\n', '< feedback\n', '< gadgetset\n', '< isomesh\n', '< isosurface\n', '< main\n', '< map\n', '< match\n', '< matrix\n', '< movie\n', '< mypng\n', '< nag\n', '< object\n', '< objectcallback\n', '< objectcgo\n', '< objectdist\n', '< objectgadget\n', '< objectmap\n', '< objectmesh\n', '< objectmolecule\n', '< objectslice\n', '< objectsurface\n', '< opengl\n', '< ortho\n', '< parser\n', '< python\n', '< raw\n', '< ray\n', '< rep\n', '< repangle\n', '< repcartoon\n', '< repcylbond\n', '< repdihederal\n', '< repdistdash\n', '< repdistlabel\n', '< repdot\n', '< replabel\n', '< repmesh\n', '< repnonbonded\n', '< repnonbondedsphere\n', '< repribbon\n', '< repsphere\n', '< repsurface\n', '< repwirebond\n', '< scene\n', '< sculpt\n', '< selector\n', '< setting\n', '< shaker\n', '< symmetry\n', '< threads\n', '< triangle\n', '< vfont\n', '< feedback: Please specify masks:\n', '< actions\n', '< blather\n', '< debugging\n', '< details\n', '< errors\n', '< everything\n', '< output\n', '< results\n', '< warnings\n', '< PyMOL>feedback ?\n', '< Usage: feedback [ action [, module [, mask ]]]\n', '< PyMOL>feedback enable\n', '< feedback: Please specify module names:\n', '< all\n', '< api\n', '< ccmd\n', '< cgo\n', '< cmd\n', '< color\n', '< coordset\n', '< distset\n', '< editor\n', '< executive\n', '< export\n', '< extrude\n', '< feedback\n', '< gadgetset\n', '< isomesh\n', '< isosurface\n', '< main\n', '< map\n', '< match\n', '< matrix\n', '< movie\n', '< mypng\n', '< nag\n', '< object\n', '< objectcallback\n', '< objectcgo\n', '< objectdist\n', '< objectgadget\n', '< objectmap\n', '< objectmesh\n', '< objectmolecule\n', '< objectslice\n', '< objectsurface\n', '< opengl\n', '< ortho\n', '< parser\n', '< python\n', '< raw\n', '< ray\n', '< rep\n', '< repangle\n', '< repcartoon\n', '< repcylbond\n', '< repdihederal\n', '< repdistdash\n', '< repdistlabel\n', '< repdot\n', '< replabel\n', '< repmesh\n', '< repnonbonded\n', '< repnonbondedsphere\n', '< repribbon\n', '< repsphere\n', '< repsurface\n', '< repwirebond\n', '< scene\n', '< sculpt\n', '< selector\n', '< setting\n', '< shaker\n', '< symmetry\n', '< threads\n', '< triangle\n', '< vfont\n', '< feedback: Please specify masks:\n', '< actions\n', '< blather\n', '< debugging\n', '< details\n', '< errors\n', '< everything\n', '< output\n', '< results\n', '< warnings\n', '< PyMOL>feedback enable, selector\n', '< feedback: Please specify masks:\n', '< actions\n', '< blather\n', '< debugging\n', '< details\n', '< errors\n', '< everything\n', '< output\n', '< results\n', '< warnings\n', '< PyMOL>feedback enable, selector, everything\n', '< PyMOL>feedback enable, repcartoon extrude, everything\n', '< PyMOL>load dat/pept.pdb\n', '< SelectorCreate-Debug: entered...\n', '< SelectorUpdateTableSingleObject-Debug: entered for pept...\n', '< SelectorUpdateTableSingleObject-Debug: leaving...\n', '< Selector: Embedded pept, 107 atoms.\n', '< SelectorCreate: "pept" created with 107 atoms.\n', '< SelectorUpdateTableSingleObject-Debug: entered for pept...\n', '< SelectorUpdateTableSingleObject-Debug: leaving...\n', '< SelectorUpdateTableSingleObject-Debug: entered for pept...\n', '< SelectorUpdateTableSingleObject-Debug: leaving...\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>show cartoon\n', '< SelectorGetTmp-Debug: entered with "all".\n', '< SelectorGetTmp-Debug: leaving with "all".\n', '< PyMOL>refresh\n', '< RepCartoonNew-Debug: entered.\n', '< RepCartoon: found CA in 1; a2 -1\n', '< RepCartoon: found CA in 1; a2 -1\n', '< RepCartoon: found CA in 2; a2 1\n', '< RepCartoon: found CA in 2; a2 1\n', '< RepCartoon: found CA in 3; a2 9\n', '< RepCartoon: found CA in 3; a2 9\n', '< RepCartoon: found CA in 4; a2 15\n', '< RepCartoon: found CA in 4; a2 15\n', '< RepCartoon: found CA in 5; a2 20\n', '< RepCartoon: found CA in 5; a2 20\n', '< RepCartoon: found CA in 6; a2 34\n', '< RepCartoon: found CA in 6; a2 34\n', '< RepCartoon: found CA in 7; a2 44\n', '< RepCartoon: found CA in 7; a2 44\n', '< RepCartoon: found CA in 8; a2 52\n', '< RepCartoon: found CA in 8; a2 52\n', '< RepCartoon: found CA in 9; a2 56\n', '< RepCartoon: found CA in 9; a2 56\n', '< RepCartoon: found CA in 10; a2 65\n', '< RepCartoon: found CA in 10; a2 65\n', '< RepCartoon: found CA in 11; a2 73\n', '< RepCartoon: found CA in 11; a2 73\n', '< RepCartoon: found CA in 12; a2 80\n', '< RepCartoon: found CA in 12; a2 80\n', '< RepCartoon: found CA in 13; a2 94\n', '< RepCartoon: found CA in 13; a2 94\n', '< RepCartoon-Debug: path outlined, interpolating...\n', '< RepCartoon: seg 0 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 1 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 2 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 3 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 4 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 5 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 6 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 7 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 8 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 9 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 10 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 11 *s 1 , *(s+1) 1\n', '< RepCartoon-Debug: generating coordinate systems...\n', '< RepCartoon-Debug: creating 3D scaffold...\n', '< ExtrudeComputeTangents-DEBUG: entered.\n', '< ExtrudeComputeTangents-DEBUG: exiting...\n', '< ExtrudeRectangle-DEBUG: entered...\n', '< ExtrudeRectangle-DEBUG: exiting...\n', '< ExtrudeBuildNormals2f-DEBUG: entered.\n', '< ExtrudeBuildNormals2f-DEBUG: entering...\n', '< ExtrudeCGOSurfaceStrand-DEBUG: entered.\n', '< ExtrudeCGOSurfaceStrand-DEBUG: exiting...\n', '< ExtrudeComputeTangents-DEBUG: entered.\n', '< ExtrudeComputeTangents-DEBUG: exiting...\n', '< ExtrudeCircle-DEBUG: entered.\n', '< ExtrudeCircle-DEBUG: exiting...\n', '< ExtrudeBuildNormals1f-DEBUG: entered.\n', '< ExtrudeBuildNormals1f-DEBUG: exiting...\n', '< ExtrudeCGOSurfaceTube-DEBUG: entered.\n', '< ExtrudeCGOSurfaceTube-DEBUG: exiting...\n', '< ExtrudeComputeTangents-DEBUG: entered.\n', '< ExtrudeComputeTangents-DEBUG: exiting...\n', '< ExtrudeRectangle-DEBUG: entered...\n', '< ExtrudeRectangle-DEBUG: exiting...\n', '< ExtrudeBuildNormals2f-DEBUG: entered.\n', '< ExtrudeBuildNormals2f-DEBUG: entering...\n', '< ExtrudeCGOSurfaceStrand-DEBUG: entered.\n', '< ExtrudeCGOSurfaceStrand-DEBUG: exiting...\n', '< PyMOL>feedback disable, repcartoon extrude, everything\n', '< PyMOL>rebuild\n', '< PyMOL>refresh\n']
run_tests: C0201extend...
run_tests: C0201extend.log DIFFERS over about 11 lines:
['1,22d0\n', '< PyMOL>def foo(moo=2): print moo\n', "< PyMOL>cmd.extend('foo',foo)\n", '< PyMOL>foo\n', '< 2\n', '< PyMOL>foo 3\n', '< 3\n', '< PyMOL>foo moo=5\n', '< 5\n', '< PyMOL>foo ?\n', '< Usage: foo [ moo ]\n', '< PyMOL>def fie(moo=3):\\\n', '< PyMOL>"help for fie" \\\n', '< PyMOL>print moo\n', '< PyMOL>print fie.__doc__\n', '< help for fie\n', '< PyMOL>help fie\n', "< Error: unknown topic: 'fie'.\n", "< PyMOL>cmd.extend('fie',fie)\n", '< PyMOL>help fie\n', '< \n', '< help for fie \n', '< \n']
run_tests: C0202help_python...
run_tests: C0202help_python.log DIFFERS over about 50 lines:
['1,99d0\n', '< PyMOL>help def\n', '< \n', '< DESCRIPTION\n', '< \n', '< You have asked for help on a Python keyword which is available\n', '< from within the PyMOL command language. Please consult the\n', '< official Python documentation at http://www.python.org for\n', '< detailed information on Python keywords.\n', '< \n', '< You may include Python blocks in your PyMOL command scripts, but do\n', '< note that multi-line blocks of Python in PyMOL command files will\n', '< require explicit continuation syntax in order to execute properly\n', '< (see below).\n', '< \n', '< Generally, if you want to write Python block which span multiple\n', '< lines, you will want to use ".py" file, and then use "extend" in\n', '< order to expose your new code to the PyMOL command language. This\n', '< will give you better error checking and more predictable results.\n', '< \n', '< EXAMPLES\n', '< \n', '< a=1\n', '< while a<10: \\\n', '< print a \\\n', '< a=a+1\n', '< \n', '< SEE ALSO\n', '< \n', '< extend, run, @ \n', '< \n', "< PyMOL>cmd.python_help.__doc__='python help'\n", '< PyMOL>help for\n', '< \n', '< python help \n', '< \n', '< PyMOL>help pass\n', '< \n', '< python help \n', '< \n', '< PyMOL>help raise\n', '< \n', '< python help \n', '< \n', '< PyMOL>help return\n', '< \n', '< python help \n', '< \n', '< PyMOL>help try\n', '< \n', '< python help \n', '< \n', '< PyMOL>help except\n', '< \n', '< python help \n', '< \n', '< PyMOL>help finally\n', '< \n', '< python help \n', '< \n', '< PyMOL>help while\n', '< \n', '< python help \n', '< \n', '< PyMOL>help assert\n', '< \n', '< python help \n', '< \n', '< PyMOL>help class\n', '< \n', '< python help \n', '< \n', '< PyMOL>help continue\n', '< \n', '< python help \n', '< \n', '< PyMOL>help del\n', '< \n', '< python help \n', '< \n', '< PyMOL>help elif\n', '< \n', '< python help \n', '< \n', '< PyMOL>help else\n', '< \n', '< python help \n', '< \n', '< PyMOL>help global\n', '< \n', '< python help \n', '< \n', '< PyMOL>help if\n', '< \n', '< python help \n', '< \n', '< PyMOL>help import\n', '< \n', '< python help \n', '< \n']
run_tests: C0300session...
run_tests: C0300session.log DIFFERS over about 13 lines:
['1,26d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>select cas,name ca\n', '< Selector: selection "cas" defined with 13 atoms.\n', '< PyMOL>set line_width,5\n', '< Setting: line_width set to 5.00000.\n', '< PyMOL>show spheres,name n\n', '< PyMOL>save tmp/session.pse\n', '< Save: wrote "tmp/session.pse".\n', '< PyMOL>reinitialize\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>get line_width\n', '< get: line_width = 1.49000\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 0 atoms\n', '< PyMOL>load tmp/session.pse\n', '< Executive: Loading version 1.20 session...\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>get line_width\n', '< get: line_width = 5.00000\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_atoms cas\n', '< count_atoms: 13 atoms\n']
run_tests: C0500misc...
run_tests: C0500misc.log DIFFERS over about 129 lines:
['1,258d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>cls\n', '< \n', '< PyMOL>print cmd.count_states()\n', '< 1\n', '< PyMOL>print cmd.count_states("pept")\n', '< 1\n', '< PyMOL>cmd.do("print \'it be done\'")\n', "< PyMOL>print 'it be done'\n", '< it be done\n', '< PyMOL>viewport 200,150\n', '< PyMOL>stereo on\n', '< PyMOL>turn x,90\n', '< PyMOL>origin\n', '< PyMOL>origin (i;11)\n', '< PyMOL>origin pept\n', '< PyMOL>zoom (i;11)\n', '< PyMOL>zoom pept\n', '< PyMOL>zoom\n', '< PyMOL>frame 1\n', '< PyMOL>frame 2\n', '< PyMOL>move x,2\n', '< PyMOL>clip near,2\n', '< PyMOL>clip far,2\n', '< PyMOL>refresh\n', '< PyMOL>reset\n', '< PyMOL>meter_reset\n', '< PyMOL>mclear\n', '< PyMOL>mset 1 x10\n', '< PyMOL>mdo 1:turn x,5\n', '< PyMOL>mdo 2:turn y,10\n', '< PyMOL>rock\n', '< PyMOL>rock\n', '< PyMOL>forward\n', '< PyMOL>backward\n', '< PyMOL>rewind\n', '< PyMOL>ending\n', '< PyMOL>middle\n', '< PyMOL>mplay\n', '< PyMOL>mstop\n', '< PyMOL>color red\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>color blue,(name n)\n', '< Executive: Colored 13 atoms.\n', '< PyMOL>flag 3=(resn his)\n', '< Flag: flag 3 is set in 10 of 107 atoms.\n', '< PyMOL>set_color dude = [ 1.0,0.6,0.3]\n', '< Color: "dude" defined as [ 1.000, 0.600, 0.300 ].\n', '< PyMOL>color dude,(name o)\n', '< Executive: Colored 13 atoms.\n', '< PyMOL>show sticks,(all)\n', '< PyMOL>hide\n', '< PyMOL>show lines\n', '< PyMOL>mmatrix store\n', '< PyMOL>turn x,45\n', '< PyMOL>mmatrix recall\n', '< PyMOL>disable\n', '< PyMOL>enable\n', '< PyMOL>mmatrix clear\n', '< PyMOL>refresh\n', '< PyMOL>rebuild\n', '< PyMOL>refresh\n', '< PyMOL>set line_smooth=1\n', '< Setting: line_smooth set to on.\n', '< PyMOL>label (all),chain\n', '< Label: labelled 107 atoms.\n', "< PyMOL>label (all),''\n", '< Label: labelled 107 atoms.\n', '< PyMOL>stored.cnt = 0\n', '< PyMOL>iterate (all),stored.cnt=stored.cnt+1\n', '< Iterate: iterated over 107 atoms.\n', '< PyMOL>print stored.cnt\n', '< 107\n', '< PyMOL>stored.x = 0\n', '< PyMOL>iterate_state 1,(all),stored.x=stored.x+x\n', '< IterateState: iterated over 107 atom coordinate states.\n', '< PyMOL>print "%8.4f"%stored.x\n', '< 130.9720\n', "< PyMOL>alter (all),segi='PEPT'\n", '< Alter: modified 107 atoms.\n', '< PyMOL>alter_state 1,(all),x = x + 1.0\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>print "%8.4f"%cmd.get_dihedral("(i;11&n;n)","(i;11&n;ca)","(i;11&n;cb)","(i;11&n;cg)")\n', '< -160.7909\n', '< PyMOL>edit (i;11&n;n), (i;11&n;c), pkbond=0\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>dist\n', '< Executive: object "dist01" created.\n', '< PyMOL>dist (pk1),(pk2)\n', '< Executive: object "dist02" created.\n', '< PyMOL>dist tst\n', '< Executive: object "tst" created.\n', '< PyMOL>dist tst2 = (pk1),(pk2)\n', '< Executive: object "tst2" created.\n', '< PyMOL>bond\n', '< Bond: 1 bonds added to model "pept".\n', '< PyMOL>unbond\n', '< Unbond: 1 bonds removed from model "pept".\n', '< PyMOL>bond (pk1),(pk2),2\n', '< Bond: 1 bonds added to model "pept".\n', '< PyMOL>unbond (pk1),(pk2)\n', '< Unbond: 1 bonds removed from model "pept".\n', '< PyMOL>copy cpy=pept\n', '< Executive: object "cpy" created.\n', '< Executive: object cpy created.\n', '< PyMOL>select cpy_sel = (cpy)\n', '< Selector: selection "cpy_sel" defined with 107 atoms.\n', '< PyMOL>alter_state 1,(cpy),x=x+math.cos(y+z)\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>rms cpy,pept\n', '< Executive: RMS = 0.695 (107 to 107 atoms)\n', '< PyMOL>rms (cpy and name ca),pept\n', '< Executive: RMS = 0.639 (13 to 13 atoms)\n', '< PyMOL>rms (cpy and name ca),(pept &n;ca)\n', '< Executive: RMS = 0.639 (13 to 13 atoms)\n', '< PyMOL>rms_cur cpy,pept\n', '< Executive: RMS = 0.700 (107 to 107 atoms)\n', '< PyMOL>rms_cur (cpy and name ca),pept\n', '< Executive: RMS = 0.722 (13 to 13 atoms)\n', '< PyMOL>rms_cur (cpy and name ca),(pept &n;ca)\n', '< Executive: RMS = 0.722 (13 to 13 atoms)\n', '< PyMOL>fit cpy,pept\n', '< Executive: RMS = 0.695 (107 to 107 atoms)\n', '< PyMOL>fit (cpy),(pept)\n', '< Executive: RMS = 0.695 (107 to 107 atoms)\n', '< PyMOL>fit (cpy and name ca),(pept &n;ca)\n', '< Executive: RMS = 0.639 (13 to 13 atoms)\n', '< PyMOL>pair_fit (cpy&i;11&n;ca),(pept&i;11&n;ca),\\\n', '< PyMOL>(cpy&i;5&n;ca),(pept&i;5&n;ca),\\\n', '< PyMOL>(cpy&i;1&n;ca),(pept&i;1&n;ca),\\\n', '< PyMOL>(cpy&i;8&n;ca),(pept&i;8&n;ca)\n', '< ExecutiveRMS: RMS = 0.478 (4 to 4 atoms)\n', '< PyMOL>update (cpy),(pept)\n', '< Update: coordinates updated for 107 atoms.\n', '< PyMOL>remove (cpy and name c)\n', '< Remove: eliminated 13 atoms in model "cpy".\n', '< PyMOL>edit (cpy and i;11 & n;ca)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>remove_picked\n', '< Remove: eliminated 1 atoms in model "cpy".\n', '< PyMOL>edit (cpy and i;5 & n;ca),(cpy and i;5 and n;cb)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', "< PyMOL>alter (cpy),name=''\n", '< Alter: modified 93 atoms.\n', '< PyMOL>rename cpy\n', '< Rename: renamed 93 atoms.\n', '< PyMOL>rename cpy,1\n', '< Rename: renamed 93 atoms.\n', '< PyMOL>cycle_valence\n', '< PyMOL>cycle_valence\n', '< Remove: eliminated 1 atoms in model "cpy".\n', '< Remove: eliminated 1 atoms in model "cpy".\n', '< PyMOL>cycle_valence\n', '< PyMOL>remove_picked\n', '< PyMOL>edit (cpy and i;11 &n;n)\n', '< Editor-Error: Invalid input selection(s).\n', '< PyMOL>cmd.attach("H",1,1)\n', '< PyMOL>create tmp = (cpy&i;5)\n', '< Selector: found 13 atoms.\n', '< Executive: object "tmp" created.\n', '< PyMOL>fuse (cpy&i;11&n;cb),(tmp&n;cb)\n', '< PyMOL>edit (cpy and i;10 & n;n)\n', '< Editor-Error: Invalid input selection(s).\n', '< PyMOL>h_fill\n', '< PyMOL>h_fill\n', '< PyMOL>h_add (cpy)\n', '< PyMOL>edit (cpy and i;8 &n;o)\n', '< Editor-Error: Invalid input selection(s).\n', '< PyMOL>cmd.replace("S",3,1)\n', '< Error: you must first pick an atom to replace.\n', '< PyMOL>delete tmp\n', '< PyMOL>delete cpy\n', '< PyMOL>delete cpy_sel\n', '< PyMOL>edit (i;11&n;ca)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>unpick\n', '< PyMOL>protect (pept and n;ca)\n', '< Protect: 13 atoms protected from movement.\n', '< PyMOL>protect pept\n', '< Protect: 107 atoms protected from movement.\n', '< PyMOL>protect\n', '< Protect: 107 atoms protected from movement.\n', '< PyMOL>deprotect (pept and n;ca)\n', '< Protect: 13 atoms deprotected.\n', '< PyMOL>deprotect\n', '< Protect: 107 atoms deprotected.\n', '< PyMOL>mask (pept and n;ca)\n', '< Mask: 13 atoms masked (cannot be picked or selected).\n', '< PyMOL>mask pept\n', '< Mask: 107 atoms masked (cannot be picked or selected).\n', '< PyMOL>mask\n', '< Mask: 107 atoms masked (cannot be picked or selected).\n', '< PyMOL>unmask (pept and n;ca)\n', '< Mask: 13 atoms unmasked.\n', '< PyMOL>unmask\n', '< Mask: 107 atoms unmasked.\n', '< PyMOL>edit (i;11&n;ca),(i;11&n;n),(i;11&n;c)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< Selector: selection "pk3" defined with 1 atoms.\n', '< PyMOL>invert\n', '< Editor: Inverted atom.\n', '< PyMOL>invert\n', '< Editor: Inverted atom.\n', '< PyMOL>edit (i;11&n;ca),(i;11&n;cb)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>torsion 10\n', '< PyMOL>torsion -10\n', '< PyMOL>torsion 180\n', '< PyMOL>torsion 180\n', '< PyMOL>print cmd.get_model().__class__\n', '< chempy.models.Indexed\n', '< PyMOL>print "%8.3f"%cmd.get_area()\n', '< 1381.186\n', '< PyMOL>print "%8.3f"%cmd.get_area("(name ca)")\n', '< 112.133\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'dist01', 'dist02', 'tst', 'tst2']\n", "< PyMOL>print cmd.get_type('pept')\n", '< object:molecule\n', '< PyMOL>print cmd.identify("(i;7)")\n', '< [52, 53, 54, 55]\n', '< PyMOL>print "%8.4f %8.4f %8.4f %8.4f %8.4f %8.4f"%(ext[0][0],ext[0][1],ext[0][2],ext[1][0],ext[1][1],ext[1][2])\n', '< -4.1880 -20.3310 13.1570 9.9190 0.8630 27.0580\n', '< PyMOL>sort\n', '< PyMOL>sort pept\n', '< PyMOL>spheroid\n', "< Warning: 'spheroid' is experimental, incomplete, and unstable.\n", '< ObjectMolecule: computing spheroid from states 1 to 1.\n', '< PyMOL>spheroid pept\n', "< Warning: 'spheroid' is experimental, incomplete, and unstable.\n", '< ObjectMolecule: computing spheroid from states 1 to 1.\n', '< PyMOL>cmd.config_mouse(quiet=0)\n', '< config_mouse: three_button\n', '< PyMOL>rewind\n', '< PyMOL>dele all\n', '< PyMOL>load dat/ligs3d.sdf\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/ligs3d.sdf" loaded as "ligs3d", through state 10.\n', '< PyMOL>split_states ligs3d\n', '< PyMOL>print cmd.get_names()\n', "< ['ligs3d', 'MFCD02681585', 'MFCD01567969', 'MFCD00023789', 'MFCD02579443', 'MFCD02579410', 'MFCD02579135', 'MFCD02681468', 'MFCD00141070', 'MFCD02983625', 'MFCD00115818']\n", '< PyMOL>rewind\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 564 graphics primitives.\n']
run_tests: C0550pseudo...
run_tests: C0550pseudo.log DIFFERS over about 36 lines:
['1,72d0\n', '< PyMOL>pseudoatom test\n', '< ObjMol: created test/PSDO/P/PSD`1/PS1\n', '< PyMOL>move x,10\n', '< PyMOL>pseudoatom test\n', '< ObjMol: created test/PSDO/P/PSD`1/PS2\n', '< PyMOL>count_atoms\n', '< count_atoms: 2 atoms\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 6 graphics primitives.\n', '< PyMOL>iterate all,print name+ " %0.2f"%vdw\n', '< PS1 1.00\n', '< PS2 1.00\n', '< Iterate: iterated over 2 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>pseudoatom test, pept and resi 1\n', '< ObjMol: created test/PSDO/P/PSD`1/PS1\n', '< PyMOL>pseudoatom test, pept and resi 2\n', '< ObjMol: created test/PSDO/P/PSD`1/PS2\n', '< PyMOL>pseudoatom test, pept and resi 10\n', '< ObjMol: created test/PSDO/P/PSD`1/PS3\n', '< PyMOL>iterate name PS*, print name+ " %0.2f"%vdw\n', '< PS1 1.81\n', '< PS2 1.79\n', '< PS3 1.81\n', '< Iterate: iterated over 3 atoms.\n', '< PyMOL>hide\n', '< PyMOL>as spheres, test\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 3 graphics primitives.\n', '< PyMOL>bond name PS2, name PS3\n', '< Bond: 1 bonds added to model "test".\n', '< PyMOL>show sticks, test\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 4 graphics primitives.\n', '< PyMOL>pseudoatom test, vdw=5.0\n', '< ObjMol: created test/PSDO/P/PSD`1/PS4\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 7 graphics primitives.\n', '< PyMOL>pseudoatom test, color=blue\n', '< ObjMol: created test/PSDO/P/PSD`1/PS5\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 10 graphics primitives.\n', '< PyMOL>pseudoatom test, label=Hello world\n', '< ObjMol: created test/PSDO/P/PSD`1/PS6\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 32 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>pseudoatom pept, pept and resi 1\n', '< ObjMol: created pept/PSDO/P/PSD`1/PS1\n', '< PyMOL>pseudoatom pept, pept and resi 2\n', '< ObjMol: created pept/PSDO/P/PSD`1/PS2\n', '< PyMOL>pseudoatom pept, pept and resi 10\n', '< ObjMol: created pept/PSDO/P/PSD`1/PS3\n', '< PyMOL>count_atoms pept\n', '< count_atoms: 110 atoms\n', '< PyMOL>bond name PS2, name PS3\n', '< Bond: 1 bonds added to model "pept".\n', '< PyMOL>hide nonbonded\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 167 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', "< PyMOL>pseudoatom test, all, b=1.5, q=1.6, resn=abc, resi=10, name=ilk, elem=s, vdw=5, segi=asdf, chain=''\n", '< ObjMol: created test/asdf//abc`10/ilk\n', '< PyMOL>iterate name ilk,print "%8.3f %8.3f %8.3f"%(b,q,vdw)\n', '< 1.500 1.600 5.000\n', '< Iterate: iterated over 1 atoms.\n']
run_tests: C0600util...
run_tests: C0600util.log DIFFERS over about 27 lines:
['1,54d0\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>util.ss\n', '< util.ss: WARNING: This is not a "correct" secondary structure\n', '< util.ss: assignment algorithm! Please use only as a last resort.\n', '< util.ss: initiating secondary structure assignment on 163 residues.\n', '< util.ss: extracting sequence and relationships...\n', '< util.ss: analyzing phi/psi angles (slow)...\n', '< util.ss: finding hydrogen bonds...\n', '< util.ss: verifying beta sheets...\n', '< util.ss: assignment complete.\n', '< PyMOL>util.cbac\n', '< Executive: Colored 1948 atoms.\n', '< Executive: Colored 922 atoms.\n', '< PyMOL>util.cbay\n', '< Executive: Colored 1948 atoms.\n', '< Executive: Colored 922 atoms.\n', '< PyMOL>util.cbaw\n', '< Executive: Colored 1948 atoms.\n', '< Executive: Colored 922 atoms.\n', '< PyMOL>util.cbas\n', '< Executive: Colored 1948 atoms.\n', '< Executive: Colored 922 atoms.\n', '< PyMOL>util.cbc\n', '< util.cbc: color 26,(chain A)\n', '< Executive: Colored 279 atoms.\n', '< util.cbc: color 5,(chain B)\n', '< Executive: Colored 310 atoms.\n', '< util.cbc: color 154,(chain E)\n', '< Executive: Colored 107 atoms.\n', "< util.cbc: color 6,(chain '')\n", '< Executive: Colored 2174 atoms.\n', '< PyMOL>hide\n', '< PyMOL>show car\n', '< PyMOL>zoom\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 19492 graphics primitives.\n', '< PyMOL>util.rainbow("pept")\n']
run_tests: C0700odd...
run_tests: C0700odd.log DIFFERS over about 204 lines:
['1,408d0\n', '< PyMOL>unset pdb_hetatm_guess_valences\n', '< Setting: pdb_hetatm_guess_valences set to off.\n', '< PyMOL>reinitialize store_defaults\n', '< PyMOL>load dat/odd01.pdb\n', '< CmdLoad: "dat/odd01.pdb" loaded as "odd01".\n', '< PyMOL>iterate all, print name\n', '< CZ\n', '< NH1\n', '< NH2\n', '< HE\n', '< HH11\n', '< HH12\n', '< HH21\n', '< HH22\n', '< CA\n', '< CA\n', '< OA22\n', '< OA23\n', '< ABCD\n', '< LMN\n', '< XYZ\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>save cmp/C0700odd.1.pdb\n', '< Save: wrote "cmp/C0700odd.1.pdb".\n', '< PyMOL>set retain_order\n', '< Setting: retain_order set to 1.\n', '< PyMOL>iterate all, print name\n', '< HE\n', '< CZ\n', '< NH1\n', '< HH11\n', '< HH12\n', '< NH2\n', '< HH21\n', '< HH22\n', '< CA\n', '< CA\n', '< OA22\n', '< OA23\n', '< ABCD\n', '< XYZ\n', '< LMN\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>save cmp/C0700odd.2.pdb\n', '< Save: wrote "cmp/C0700odd.2.pdb".\n', '< PyMOL>set pdb_no_end_record\n', '< Setting: pdb_no_end_record set to on.\n', '< PyMOL>save cmp/C0700odd.3.pdb\n', '< Save: wrote "cmp/C0700odd.3.pdb".\n', '< PyMOL>set pdb_retain_ids\n', '< Setting: pdb_retain_ids set to on.\n', '< PyMOL>save cmp/C0700odd.4.pdb\n', '< Save: wrote "cmp/C0700odd.4.pdb".\n', '< PyMOL>reinit\n', '< PyMOL>set retain_order\n', '< Setting: retain_order set to 1.\n', '< PyMOL>load dat/odd01.pdb\n', '< CmdLoad: "dat/odd01.pdb" loaded as "odd01".\n', '< PyMOL>iterate all,print name\n', '< HE\n', '< CZ\n', '< NH1\n', '< HH11\n', '< HH12\n', '< NH2\n', '< HH21\n', '< HH22\n', '< CA\n', '< CA\n', '< OA22\n', '< OA23\n', '< ABCD\n', '< XYZ\n', '< LMN\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>set pdb_reformat_names_mode, 1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>save cmp/C0700odd.5.pdb\n', '< Save: wrote "cmp/C0700odd.5.pdb".\n', '< PyMOL>dele all\n', '< PyMOL>load cmp/C0700odd.3.pdb\n', '< CmdLoad: "cmp/C0700odd.3.pdb" loaded as "C0700odd.3".\n', '< PyMOL>set pdb_reformat_names_mode, 0\n', '< Setting: pdb_reformat_names_mode set to 0.\n', '< PyMOL>save cmp/C0700odd.6.pdb\n', '< Save: wrote "cmp/C0700odd.6.pdb".\n', '< PyMOL>iterate all,print name\n', '< HE\n', '< CZ\n', '< NH1\n', '< 1HH1\n', '< 2HH1\n', '< NH2\n', '< 1HH2\n', '< 2HH2\n', '< CA\n', '< CA\n', '< 2OA2\n', '< 3OA2\n', '< ABCD\n', '< XYZ\n', '< LMN\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>reinit\n', '< PyMOL>set pdb_reformat_names_mode, 1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>load cmp/C0700odd.3.pdb\n', '< CmdLoad: "cmp/C0700odd.3.pdb" loaded as "C0700odd.3".\n', '< PyMOL>iterate all,print name\n', '< CZ\n', '< NH1\n', '< NH2\n', '< HE\n', '< 1HH1\n', '< 2HH1\n', '< 1HH2\n', '< 2HH2\n', '< CA\n', '< CA\n', '< 2OA2\n', '< 3OA2\n', '< ABCD\n', '< LMN\n', '< XYZ\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>save cmp/C0700odd.7.pdb\n', '< Save: wrote "cmp/C0700odd.7.pdb".\n', '< PyMOL>set pdb_reformat_names_mode,2\n', '< Setting: pdb_reformat_names_mode set to 2.\n', '< PyMOL>save cmp/C0700odd.8.pdb\n', '< Save: wrote "cmp/C0700odd.8.pdb".\n', '< PyMOL>dele all\n', '< PyMOL>load cmp/C0700odd.5.pdb\n', '< CmdLoad: "cmp/C0700odd.5.pdb" loaded as "C0700odd.5".\n', '< PyMOL>iterate all,print name\n', '< CZ\n', '< NH1\n', '< NH2\n', '< HE\n', '< HH11\n', '< HH12\n', '< HH21\n', '< HH22\n', '< CA\n', '< CA\n', '< OA22\n', '< OA23\n', '< ABCD\n', '< LMN\n', '< XYZ\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>set pdb_reformat_names_mode,0\n', '< Setting: pdb_reformat_names_mode set to 0.\n', '< PyMOL>save cmp/C0700odd.9.pdb\n', '< Save: wrote "cmp/C0700odd.9.pdb".\n', '< PyMOL>set pdb_reformat_names_mode,1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>save cmp/C0700odd.A.pdb\n', '< Save: wrote "cmp/C0700odd.A.pdb".\n', '< PyMOL>set pdb_literal_names, 1\n', '< Setting: pdb_literal_names set to on.\n', '< PyMOL>save cmp/C0700odd.B.pdb\n', '< Save: wrote "cmp/C0700odd.B.pdb".\n', '< PyMOL>dele all\n', '< PyMOL>load cmp/C0700odd.3.pdb\n', '< CmdLoad: "cmp/C0700odd.3.pdb" loaded as "C0700odd.3".\n', '< PyMOL>iterate all,print name\n', '< CZ \n', '< HE \n', '< NH1\n', '< NH2\n', '< HH11\n', '< HH12\n', '< HH21\n', '< HH22\n', '< CA \n', '< CA \n', '< OA22\n', '< OA23\n', '< LMN\n', '< XYZ\n', '< ABCD\n', '< O1B\n', '< PE \n', '< AC5 \n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>load cmp/C0700odd.5.pdb\n', '< CmdLoad: "cmp/C0700odd.5.pdb" loaded as "C0700odd.5".\n', '< PyMOL>iterate all,print name\n', '< CZ \n', '< HE \n', '< NH1\n', '< NH2\n', '< 1HH1\n', '< 2HH1\n', '< 1HH2\n', '< 2HH2\n', '< CA \n', '< CA \n', '< 2OA2\n', '< 3OA2\n', '< LMN\n', '< XYZ\n', '< ABCD\n', '< O1B\n', '< PE \n', '< AC5 \n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>reinit\n', '< PyMOL>load dat/small02.pdb\n', '< CmdLoad: "dat/small02.pdb" loaded as "small02".\n', '< PyMOL>save cmp/C0700odd.C.pdb\n', '< Save: wrote "cmp/C0700odd.C.pdb".\n', '< PyMOL>reinit\n', '< PyMOL>set pdb_reformat_names_mode, 1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>load dat/small02.pdb\n', '< CmdLoad: "dat/small02.pdb" loaded as "small02".\n', '< PyMOL>iterate all, print name\n', '< CL16\n', '< C1\n', '< C4\n', '< C6\n', '< C9\n', '< N12\n', '< C13\n', '< C17\n', '< C19\n', '< C20\n', '< C22\n', '< C25\n', '< C28\n', '< C29\n', '< C30\n', '< N32\n', '< C33\n', '< C35\n', '< C39\n', '< C40\n', '< C41\n', '< C42\n', '< C43\n', '< C46\n', '< C49\n', '< C51\n', '< N54\n', '< C55\n', '< N56\n', '< O57\n', '< C58\n', '< C61\n', '< O64\n', '< C65\n', '< BR37\n', '< BR38\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>save cmp/C0700odd.D.pdb\n', '< Save: wrote "cmp/C0700odd.D.pdb".\n', '< PyMOL>set pdb_reformat_names_mode, 2\n', '< Setting: pdb_reformat_names_mode set to 2.\n', '< PyMOL>load dat/small02.pdb\n', '< CmdLoad: "dat/small02.pdb" appended into object "small02", state 2.\n', '< PyMOL>iterate all, print name\n', '< CL16\n', '< C1\n', '< C4\n', '< C6\n', '< C9\n', '< N12\n', '< C13\n', '< C17\n', '< C19\n', '< C20\n', '< C22\n', '< C25\n', '< C28\n', '< C29\n', '< C30\n', '< N32\n', '< C33\n', '< C35\n', '< C39\n', '< C40\n', '< C41\n', '< C42\n', '< C43\n', '< C46\n', '< C49\n', '< C51\n', '< N54\n', '< C55\n', '< N56\n', '< O57\n', '< C58\n', '< C61\n', '< O64\n', '< C65\n', '< BR37\n', '< BR38\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>save cmp/C0700odd.E.pdb\n', '< Save: wrote "cmp/C0700odd.E.pdb".\n', '< PyMOL>reinit\n', '< PyMOL>set pdb_literal_names\n', '< Setting: pdb_literal_names set to on.\n', '< PyMOL>set retain_order\n', '< Setting: retain_order set to 1.\n', '< PyMOL>set pdb_retain_ids\n', '< Setting: pdb_retain_ids set to on.\n', '< PyMOL>set pdb_no_end_record\n', '< Setting: pdb_no_end_record set to on.\n', '< PyMOL>unset pdb_use_ter_records\n', '< Setting: pdb_use_ter_records set to 0.\n', '< PyMOL>load dat/odd01.pdb\n', '< CmdLoad: "dat/odd01.pdb" loaded as "odd01".\n', '< PyMOL>save cmp/C0700odd.F.pdb\n', '< Save: wrote "cmp/C0700odd.F.pdb".\n', '< PyMOL>reinit\n', '< PyMOL>load dat/helix_amber.pdb\n', '< CmdLoad: "dat/helix_amber.pdb" loaded as "helix_amber".\n', '< PyMOL>iterate resi 2, print name, elem\n', '< N N\n', '< CA C\n', '< C C\n', '< O O\n', '< CB C\n', '< SG S\n', '< H H\n', '< HA H\n', '< HB2 H\n', '< HB3 H\n', '< N N\n', '< CA C\n', '< C C\n', '< O O\n', '< CB C\n', '< H H\n', '< HA H\n', '< HB1 H\n', '< HB2 H\n', '< HB3 H\n', '< Iterate: iterated over 20 atoms.\n', '< PyMOL>reinit\n', '< PyMOL>load dat/odd02.pdb\n', '< CmdLoad: "dat/odd02.pdb" loaded as "odd02".\n', '< PyMOL>iterate all, print name, elem\n', '< C C\n', '< O O\n', '< CG C\n', '< CD C\n', '< NE N\n', '< CZ C\n', '< NH1 N\n', '< NH2 N\n', '< HG1 H\n', '< HG2 H\n', '< HD1 H\n', '< HD2 H\n', '< HE H\n', '< HH11 H\n', '< HH12 H\n', '< HH21 H\n', '< Hh22 Hh\n', '< N N\n', '< CA C\n', '< C C\n', '< O O\n', '< CB C\n', '< CG1 C\n', '< CG2 C\n', '< HN H\n', '< HA H\n', '< HB H\n', '< HG11 H\n', '< HG12 H\n', '< HG21 H\n', '< HG22 H\n', '< HG23 H\n', '< Hg13 Hg\n', '< N N\n', '< CA C\n', '< HN H\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>save cmp/C0700.odd.G.pdb\n', '< Save: wrote "cmp/C0700.odd.G.pdb".\n', '< PyMOL>set pdb_reformat_names_mode,1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>save cmp/C0700.odd.H.pdb\n', '< Save: wrote "cmp/C0700.odd.H.pdb".\n']
run_tests: C0700odd.1.pdb is missing.
run_tests: C0700odd.2.pdb is missing.
run_tests: C0700odd.3.pdb is missing.
run_tests: C0700odd.4.pdb is missing.
run_tests: C0700odd.5.pdb is missing.
run_tests: C0700odd.6.pdb is missing.
run_tests: C0700odd.7.pdb is missing.
run_tests: C0700odd.8.pdb is missing.
run_tests: C0700odd.9.pdb is missing.
run_tests: C0700odd.A.pdb is missing.
run_tests: C0700odd.B.pdb is missing.
run_tests: C0700odd.C.pdb is missing.
run_tests: C0700odd.D.pdb is missing.
run_tests: C0700odd.E.pdb is missing.
run_tests: C0700odd.F.pdb is missing.
run_tests: C0740multipdb...
run_tests: C0740multipdb.log DIFFERS over about 45 lines:
['1,89d0\n', '< PyMOL>ATOM 1 N GLY A 252 39.368 46.327 27.875 1.00 46.28 N \\\n', '< PyMOL>ATOM 2 CA GLY A 252 39.565 46.477 29.344 1.00 46.89 C \\\n', '< PyMOL>ATOM 3 C GLY A 252 40.602 45.521 29.907 1.00 48.55 C \\\n', '< PyMOL>ATOM 4 O GLY A 252 40.907 44.497 29.293 1.00 46.16 O \\\n', '< PyMOL>ATOM 5 N SER A 253 41.144 45.862 31.078 1.00 45.72 N \\\n', '< PyMOL>ATOM 6 CA SER A 253 42.152 45.043 31.757 1.00 46.42 C \\\n', '< PyMOL>ATOM 7 C SER A 253 41.824 44.945 33.254 1.00 47.72 C \\\n', '< PyMOL>ATOM 8 O SER A 253 41.053 45.756 33.778 1.00 46.62 O \\\n', '< PyMOL>ATOM 9 CB SER A 253 43.543 45.667 31.587 1.00 45.55 C \\\n', '< PyMOL>HEADER STEP\\\n', '< PyMOL>ATOM 1 N SER E 258 55.863 54.272 24.437 1.00 37.51 N \\\n', '< PyMOL>ATOM 2 CA SER E 258 56.590 54.677 23.240 1.00 36.33 C \\\n', '< PyMOL>ATOM 3 C SER E 258 58.022 54.180 23.260 1.00 35.14 C \\\n', '< PyMOL>ATOM 4 O SER E 258 58.647 54.090 24.306 1.00 34.89 O \\\n', '< PyMOL>ATOM 5 CB SER E 258 56.566 56.199 23.083 1.00 35.95 C \\\n', '< PyMOL>ATOM 6 OG SER E 258 57.340 56.607 21.975 1.00 36.25 O \\\n', '< PyMOL>ATOM 7 N ARG E 259 58.546 53.842 22.088 1.00 34.24 N """\n', '< PyMOL>cmd.read_pdbstr(pdbstr,"test")\n', '< PyMOL>print cmd.get_names()\n', "< ['PTPBR7', 'STEP']\n", '< PyMOL>count_atoms\n', '< count_atoms: 16 atoms\n', '< PyMOL>reinit\n', '< PyMOL>cmd.read_pdbstr("""\\\n', '< PyMOL>HEADER OXIDOREDUCTASE 13-JUL-94 3MDD 3MDD 2\\\n', '< PyMOL>ATOM 1 N GLY A 11 22.422 32.842 -15.744 1.00 24.74 3MDD 172\\\n', '< PyMOL>ATOM 2 CA GLY A 11 21.837 32.022 -14.672 1.00 24.52 3MDD 173\\\n', '< PyMOL>ATOM 3 C GLY A 11 21.575 30.609 -15.194 1.00 24.62 3MDD 174\\\n', '< PyMOL>ATOM 4 O GLY A 11 22.036 30.238 -16.285 1.00 24.99 3MDD 175\\\n', '< PyMOL>ATOM 5 N PHE A 12 20.843 29.864 -14.390 1.00 24.29 3MDD 176\\\n', '< PyMOL>ATOM 6 CA PHE A 12 20.481 28.469 -14.679 1.00 24.00 3MDD 177\\\n', '< PyMOL>ATOM 7 C PHE A 12 19.514 28.397 -15.861 1.00 23.38 3MDD 178\\\n', '< PyMOL>ATOM 6017 NZ LYS B 395 -4.299 -6.687 15.377 1.00 35.83 3MDD6188\\\n', '< PyMOL>ATOM 6018 OXT LYS B 395 -0.899 -11.439 20.683 1.00 35.32 3MDD6189\\\n', '< PyMOL>END 3MDD6517\\\n', '< PyMOL>HEADER ELECTRON TRANSPORT 02-MAR-92 1MDA 1MDA 2\\\n', '< PyMOL>ATOM 1 N GLU H 1 15.906 81.036 72.025 1.00 50.00 1MDA 307\\\n', '< PyMOL>ATOM 2 CA GLU H 1 17.350 81.236 71.880 1.00 50.00 1MDA 308\\\n', '< PyMOL>ATOM 3 C GLU H 1 17.854 81.695 70.506 1.00 50.00 1MDA 309\\\n', '< PyMOL>ATOM 4 O GLU H 1 17.668 80.983 69.518 1.00 50.00 1MDA 310\\\n', '< PyMOL>ATOM 5 CB GLU H 1 18.222 80.229 72.680 1.00 50.00 1MDA 311\\\n', '< PyMOL>ATOM 6 CG GLU H 1 17.540 78.863 72.954 1.00 50.00 1MDA 312\\\n', '< PyMOL>ATOM 7 CD GLU H 1 17.831 77.718 72.017 1.00 43.59 1MDA 313\\\n', '< PyMOL>ATOM 8 OE1 GLU H 1 18.953 77.453 71.614 1.00 47.42 1MDA 314\\\n', '< PyMOL>ATOM 9 OE2 GLU H 1 16.759 77.049 71.674 1.00 37.68 1MDA 315\\\n', '< PyMOL>ATOM 8568 CG GLU B 105 37.556 38.617 32.271 1.00 15.99 1MDA8874\\\n', '< PyMOL>ATOM 8569 CD GLU B 105 36.485 37.572 32.282 1.00 36.23 1MDA8875\\\n', '< PyMOL>ATOM 8570 OE1 GLU B 105 36.488 36.782 31.231 1.00 50.00 1MDA8876\\\n', '< PyMOL>ATOM 8571 OE2 GLU B 105 35.647 37.508 33.152 1.00 50.00 1MDA8877\\\n', '< PyMOL>ATOM 8572 OXT GLU B 105 41.453 38.354 30.968 1.00 50.00 1MDA8878\\\n', '< PyMOL>END 1MDA8924\\\n', '< PyMOL>""","test")\n', '< PyMOL>print cmd.get_names()\n', "< ['3MDD', '1MDA']\n", '< PyMOL>count_atoms\n', '< count_atoms: 23 atoms\n', '< PyMOL>reinit\n', '< PyMOL>cmd.read_pdbstr("""\\\n', '< PyMOL>ATOM 1 N GLY A 11 22.422 32.842 -15.744 1.00 24.74 3MDD 172\\\n', '< PyMOL>ATOM 2 CA GLY A 11 21.837 32.022 -14.672 1.00 24.52 3MDD 173\\\n', '< PyMOL>ATOM 3 C GLY A 11 21.575 30.609 -15.194 1.00 24.62 3MDD 174\\\n', '< PyMOL>ATOM 4 O GLY A 11 22.036 30.238 -16.285 1.00 24.99 3MDD 175\\\n', '< PyMOL>ATOM 5 N PHE A 12 20.843 29.864 -14.390 1.00 24.29 3MDD 176\\\n', '< PyMOL>ATOM 6 CA PHE A 12 20.481 28.469 -14.679 1.00 24.00 3MDD 177\\\n', '< PyMOL>ATOM 7 C PHE A 12 19.514 28.397 -15.861 1.00 23.38 3MDD 178\\\n', '< PyMOL>ATOM 6017 NZ LYS B 395 -4.299 -6.687 15.377 1.00 35.83 3MDD6188\\\n', '< PyMOL>ATOM 6018 OXT LYS B 395 -0.899 -11.439 20.683 1.00 35.32 3MDD6189\\\n', '< PyMOL>END 3MDD6517\\\n', '< PyMOL>ATOM 1 N GLU H 1 15.906 81.036 72.025 1.00 50.00 1MDA 307\\\n', '< PyMOL>ATOM 2 CA GLU H 1 17.350 81.236 71.880 1.00 50.00 1MDA 308\\\n', '< PyMOL>ATOM 3 C GLU H 1 17.854 81.695 70.506 1.00 50.00 1MDA 309\\\n', '< PyMOL>ATOM 4 O GLU H 1 17.668 80.983 69.518 1.00 50.00 1MDA 310\\\n', '< PyMOL>ATOM 5 CB GLU H 1 18.222 80.229 72.680 1.00 50.00 1MDA 311\\\n', '< PyMOL>ATOM 6 CG GLU H 1 17.540 78.863 72.954 1.00 50.00 1MDA 312\\\n', '< PyMOL>ATOM 7 CD GLU H 1 17.831 77.718 72.017 1.00 43.59 1MDA 313\\\n', '< PyMOL>ATOM 8 OE1 GLU H 1 18.953 77.453 71.614 1.00 47.42 1MDA 314\\\n', '< PyMOL>ATOM 9 OE2 GLU H 1 16.759 77.049 71.674 1.00 37.68 1MDA 315\\\n', '< PyMOL>ATOM 8568 CG GLU B 105 37.556 38.617 32.271 1.00 15.99 1MDA8874\\\n', '< PyMOL>ATOM 8569 CD GLU B 105 36.485 37.572 32.282 1.00 36.23 1MDA8875\\\n', '< PyMOL>ATOM 8570 OE1 GLU B 105 36.488 36.782 31.231 1.00 50.00 1MDA8876\\\n', '< PyMOL>ATOM 8571 OE2 GLU B 105 35.647 37.508 33.152 1.00 50.00 1MDA8877\\\n', '< PyMOL>ATOM 8572 OXT GLU B 105 41.453 38.354 30.968 1.00 50.00 1MDA8878\\\n', '< PyMOL>END 1MDA8924\\\n', '< PyMOL>""","test")\n', '< PyMOL>print cmd.get_names()\n', "< ['test_0001', 'test_0002']\n", '< PyMOL>count_atoms\n', '< count_atoms: 23 atoms\n', '< PyMOL>reinit\n']
run_tests: C0800matrices...
run_tests: C0800matrices.log DIFFERS over about 141 lines:
['1,282d0\n', '< PyMOL>load dat/pept.pdb, mol1\n', '< CmdLoad: "dat/pept.pdb" loaded as "mol1".\n', '< PyMOL>load dat/pept.pdb, mol2\n', '< CmdLoad: "dat/pept.pdb" loaded as "mol2".\n', '< PyMOL>load dat/pept.pdb, mol3\n', '< CmdLoad: "dat/pept.pdb" loaded as "mol3".\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 0.00 0.00 0.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>translate [2,3,4], object=mol2, object_mode=1\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 0.00 5.38 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix= cmd.get_object_matrix("mol2")\n', '< PyMOL>cmd.transform_object("mol3",matrix, homogenous=1)\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 5.38 0.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dele mol3\n', '< PyMOL>load dat/pept.pdb,mol3\n', '< CmdLoad: "dat/pept.pdb" loaded as "mol3".\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 0.00 5.38 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix_transfer mol1, mol3\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 0.00 5.38 ]\n', '< PyMOL>matrix_transfer mol2, mol3\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 5.38 0.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dele all\n', '< PyMOL>load ../data/tut/1hpv.pdb\n', '< HEADER HYDROLASE (ACID PROTEINASE) 18-NOV-94 1HPV 1HPV 2\n', '< COMPND HIV-1 PROTEASE (E.C.3.4.23.-) COMPLEXED WITH VX-478 1HPV 3\n', '< COMPND 2 (3(S)-N-(3-TETRAHYDROFURANYLOXYCARBONYL) AMINO-1- 1HPV 4\n', '< COMPND 3 (N,N-ISOBUTYL,4-AMINOBENZENESULFONYL) AMINO-2-(S)-HYDROXY- 1HPV 5\n', '< COMPND 4 4-PHENYLBUTANE) 1HPV 6\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "../data/tut/1hpv.pdb" loaded as "1hpv".\n', '< PyMOL>create ligand, organic\n', '< Selector: found 35 atoms.\n', '< Executive: object "ligand" created.\n', '< PyMOL>create protein, polymer\n', '< Selector: found 1516 atoms.\n', '< Executive: object "protein" created.\n', '< PyMOL>delete 1hpv\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>translate [2,3,4], object=protein, object_mode=1\n', '< PyMOL>rotate x, 20, object=protein, object_mode=1\n', '< PyMOL>rotate y, 40, object=protein, object_mode=1\n', '< PyMOL>rotate z, 90, object=protein, object_mode=1\n', '< PyMOL>translate [4,5,6], object=protein, object_mode=1\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 22.69 18.69 18.07 ]\n', '< PyMOL>matrix_transfer protein, ligand\n', '< PyMOL>dump_mat(cmd.get_object_matrix("protein"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("ligand"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>load ../data/tut/1hpv.pdb, copy\n', '< HEADER HYDROLASE (ACID PROTEINASE) 18-NOV-94 1HPV 1HPV 2\n', '< COMPND HIV-1 PROTEASE (E.C.3.4.23.-) COMPLEXED WITH VX-478 1HPV 3\n', '< COMPND 2 (3(S)-N-(3-TETRAHYDROFURANYLOXYCARBONYL) AMINO-1- 1HPV 4\n', '< COMPND 3 (N,N-ISOBUTYL,4-AMINOBENZENESULFONYL) AMINO-2-(S)-HYDROXY- 1HPV 5\n', '< COMPND 4 4-PHENYLBUTANE) 1HPV 6\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "../data/tut/1hpv.pdb" loaded as "copy".\n', '< PyMOL>create copy_ligand, copy and organic\n', '< Selector: found 35 atoms.\n', '< Executive: object "copy_ligand" created.\n', '< PyMOL>create copy_protein, copy and polymer\n', '< Selector: found 1516 atoms.\n', '< Executive: object "copy_protein" created.\n', '< PyMOL>create copy_protein2, copy and polymer\n', '< Selector: found 1516 atoms.\n', '< Executive: object "copy_protein2" created.\n', '< PyMOL>delete copy\n', '< PyMOL>matrix_transfer protein, copy_protein2\n', '< PyMOL>fit copy_protein, protein\n', '< Executive: RMS = 0.000 (1516 to 1516 atoms)\n', '< PyMOL>dump_mat(cmd.get_object_matrix("protein"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("copy_protein"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("copy_protein2"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>load ../data/tut/1hpv.pdb, target\n', '< HEADER HYDROLASE (ACID PROTEINASE) 18-NOV-94 1HPV 1HPV 2\n', '< COMPND HIV-1 PROTEASE (E.C.3.4.23.-) COMPLEXED WITH VX-478 1HPV 3\n', '< COMPND 2 (3(S)-N-(3-TETRAHYDROFURANYLOXYCARBONYL) AMINO-1- 1HPV 4\n', '< COMPND 3 (N,N-ISOBUTYL,4-AMINOBENZENESULFONYL) AMINO-2-(S)-HYDROXY- 1HPV 5\n', '< COMPND 4 4-PHENYLBUTANE) 1HPV 6\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "../data/tut/1hpv.pdb" loaded as "target".\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/target/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/target/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /target/1HPV/B/VAL`82/CB")))\n', '< [ 14.32 17.77 18.33 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("ligand"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix_transfer target, ligand\n', '< PyMOL>dump_mat(cmd.get_object_matrix("ligand"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/target/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/target/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /target/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("protein"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>fit protein, target\n', '< Executive: RMS = 0.000 (1516 to 1516 atoms)\n', '< PyMOL>dump_mat(cmd.get_object_matrix("protein"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("ligand"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>matrix_transfer protein, ligand\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>dump_lst((cmd.get_distance("/target/1HPV/B/ILE`84/CB","/copy_protein2/1HPV/B/ILE`84/CB"),))\n', '< [ 19.55 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("copy_protein2"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix_reset copy_protein2\n', '< PyMOL>dump_mat(cmd.get_object_matrix("copy_protein2"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("/target/1HPV/B/ILE`84/CB","/copy_protein2/1HPV/B/ILE`84/CB"),))\n', '< [ 0.00 ]\n']
run_tests: C1000viewing...
run_tests: C1000viewing.log DIFFERS over about 264 lines:
['1,527d0\n', '< PyMOL>bg white\n', '< PyMOL>bg_color black\n', '< PyMOL>bg_color 0\n', '< PyMOL>bg_color 1\n', '< PyMOL>bg_color blue\n', '< PyMOL>bg_color -28374283\n', '< Color-Error: Bad color name.\n', '< PyMOL>bg_color 239283498\n', '< Color-Error: Bad color name.\n', '< PyMOL>bg_color asdfasdf\n', '< Color-Error: Bad color name.\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>clip\n', '< Parsing-Error: missing required argument: mode\n', '< PyMOL>clip near\n', '< Parsing-Error: missing required argument: distance\n', '< PyMOL>clip near,-5\n', '< PyMOL>clip far,10\n', '< PyMOL>clip near,2\n', '< PyMOL>clip far,-3\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 43.000 93.000 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "1tii".\n', '< PyMOL>hide\n', '< PyMOL>show cartoon\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 67216 graphics primitives.\n', '< PyMOL>cartoon rect\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 39552 graphics primitives.\n', '< PyMOL>cartoon loop\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 59232 graphics primitives.\n', '< PyMOL>cartoon tube\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 88720 graphics primitives.\n', '< PyMOL>cartoon oval\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 98720 graphics primitives.\n', '< PyMOL>cartoon arrow\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 39552 graphics primitives.\n', '< PyMOL>cartoon dumbbell\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 138176 graphics primitives.\n', '< PyMOL>cartoon automatic\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 67216 graphics primitives.\n', '< PyMOL>cartoon loop,ss h\n', '< PyMOL>cartoon tube,ss s\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 66876 graphics primitives.\n', '< PyMOL>cartoon skip,resi 1-100\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 10678 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>color\n', '< Parsing-Error: missing required argument: color\n', '< PyMOL>color -123454\n', '< Color-Error: Unknown color.\n', '< PyMOL>color 1023912\n', '< Color-Error: Unknown color.\n', '< PyMOL>color blue\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>color red\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>color 99\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>color blue,pept\n', '< Executive: Colored 107 atoms and 1 object.\n', '< PyMOL>color green,cgo\n', '< Executive: Colored 1 object.\n', '< PyMOL>color red,(all)\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>cgo_tuple = (SPHERE, 0.0, 0.0, 0.0, 1.0)\n', "< PyMOL>cmd.load_cgo(cgo_tuple,'cgo')\n", '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 1 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>disable\n', '< PyMOL>enable pept\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable 3al1\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1266 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1432 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable all\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1432 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable 3al1\n', '< PyMOL>enable pept\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1432 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>hide\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>show (name ca)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>show (name c)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 13 graphics primitives.\n', '< PyMOL>show (all)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>hide (name ca)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 115 graphics primitives.\n', '< PyMOL>hide\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>show sticks\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>show spheres,(name ca)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 179 graphics primitives.\n', '< PyMOL>show surface,(not name n)\n', '< PyMOL>hide (name o)\n', '< PyMOL>ray\n', '< RepSurface: 1319 surface points.\n', '< RepSurface: 2634 triangles.\n', '< RayRenderTest: obtained 2412 graphics primitives.\n', '< PyMOL>hide surf\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 153 graphics primitives.\n', '< PyMOL>hide sph\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 140 graphics primitives.\n', '< PyMOL>hide sticks\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>label (all),resi\n', '< Label: labelled 107 atoms.\n', '< PyMOL>label (name ca),"ca"\n', '< Label: labelled 13 atoms.\n', '< PyMOL>label (name n),"%s-%s-%s"%(chain,resi,resn)\n', '< Label: labelled 13 atoms.\n', "< PyMOL>label (all),''\n", '< Label: labelled 107 atoms.\n', '< PyMOL>label (all)\n', '< Label: labelled 107 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>move\n', '< Parsing-Error: missing required argument: axis\n', '< PyMOL>move x\n', '< Parsing-Error: missing required argument: distance\n', '< PyMOL>move y\n', '< Parsing-Error: missing required argument: distance\n', '< PyMOL>move z\n', '< Parsing-Error: missing required argument: distance\n', '< PyMOL>move x,10\n', '< PyMOL>move y,5\n', '< PyMOL>move z,2\n', '< PyMOL>move z,-1\n', '< PyMOL>move x,-10\n', '< PyMOL>move y,2\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 7.000 -49.000 0.000 0.000 0.000 39.000 99.000 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>orient\n', '< PyMOL>orient (none)\n', '< PyMOL>orient (name ca)\n', '< PyMOL>orient (resi 10)\n', '< PyMOL>orient (name ca and i. 10)\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>origin\n', '< PyMOL>origin (none)\n', '< PyMOL>origin (name ca)\n', '< PyMOL>origin (resi 10)\n', '< PyMOL>origin (name ca and i. 10)\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>show dots\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 6837 graphics primitives.\n', '< PyMOL>alter (all),vdw=5.0\n', '< Alter: modified 107 atoms.\n', '< PyMOL>refresh\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 6837 graphics primitives.\n', '< PyMOL>rebuild\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1960 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>color shoot\n', '< Color-Error: Unknown color.\n', '< PyMOL>set_color shoot,[1.0,0.9,1.0]\n', '< Color: "shoot" defined as [ 1.000, 0.900, 1.000 ].\n', '< PyMOL>color shoot\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>refresh\n', '< PyMOL>set_color shoot,[1.0,0.0,1.0]\n', '< Color: "shoot" defined as [ 1.000, 0.000, 1.000 ].\n', '< PyMOL>recolor\n', '< PyMOL>refresh\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>cmd._dump_floats(v1)\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>turn\n', '< Parsing-Error: missing required argument: axis\n', '< PyMOL>turn x\n', '< Parsing-Error: missing required argument: angle\n', '< PyMOL>turn y\n', '< Parsing-Error: missing required argument: angle\n', '< PyMOL>turn z\n', '< Parsing-Error: missing required argument: angle\n', '< PyMOL>turn x,10\n', '< PyMOL>turn y,5\n', '< PyMOL>turn z,2\n', '< PyMOL>turn z,-1\n', '< PyMOL>turn x,-10\n', '< PyMOL>turn y,2\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 0.992 0.002 -0.124 -0.002 1.000 -0.001 0.124 0.001 0.992\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>view\n', '< Parsing-Error: missing required argument: key\n', '< PyMOL>view 1,store\n', '< view: view stored as "1".\n', '< PyMOL>view 2,store\n', '< view: view stored as "2".\n', '< PyMOL>move x,10\n', '< PyMOL>view 2,st\n', '< view: view stored as "2".\n', '< PyMOL>reset\n', '< PyMOL>move y,-10\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 -10.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view 1,recall\n', '< view: "1" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view 2,rec\n', '< view: "2" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>turn x,10\n', '< PyMOL>view test,store\n', '< view: view stored as "test".\n', '< PyMOL>turn x,20\n', '< PyMOL>view rest,store\n', '< view: view stored as "rest".\n', '< PyMOL>view test\n', '< view: "test" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view rest\n', '< view: "rest" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.866 0.500 0.000 -0.500 0.866\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view rest,clear\n', "< view: 'rest' deleted.\n", '< PyMOL>view rest\n', "< Error: unknown view: 'rest'. Choices:\n", '< 1 2 test\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.866 0.500 0.000 -0.500 0.866\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view test\n', '< view: "test" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>viewport\n', '< PyMOL>viewport 300\n', '< PyMOL>viewport 100,100\n', '< PyMOL>viewport 300,300\n', '< PyMOL>viewport 640,480\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>zoom\n', '< PyMOL>zoom resi 10\n', '< PyMOL>zoom resi 4,5,6\n', "< ExecutiveWindowZoom-Warning: selection doesn't specify any coordinates.\n", '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -14.178 2.395 -9.290 18.016 11.178 17.178 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb,m1\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "m1".\n', '< PyMOL>load dat/il2.pdb,m1\n', '< CmdLoad: "dat/il2.pdb" appended into object "m1", state 2.\n', '< PyMOL>load dat/pept.pdb,m1\n', '< CmdLoad: "dat/pept.pdb" appended into object "m1", state 3.\n', '< PyMOL>zoom m1\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -269.487 39.950 5.709 13.189 212.466 326.509 -20.000\n', '< PyMOL>zoom m1,state=0\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -269.487 39.950 5.709 13.189 212.466 326.509 -20.000\n', '< PyMOL>zoom m1,state=1\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -227.278 51.665 11.519 10.196 179.188 275.368 -20.000\n', '< PyMOL>zoom m1,state=2\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -149.541 9.985 -9.318 20.976 117.899 181.182 -20.000\n', '< PyMOL>zoom m1,state=3\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>zoom m1,state=4\n', "< ExecutiveWindowZoom-Warning: selection doesn't specify any coordinates.\n", '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>origin m1\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 38.726 17.022 -67.659 39.950 5.709 13.189 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=0\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 38.726 17.022 -67.659 39.950 5.709 13.189 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=1\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 50.441 23.264 -69.598 51.665 11.519 10.196 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=2\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 8.761 0.872 -62.600 9.985 -9.318 20.976 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=3\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=4\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>orient m1\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.924 0.347 0.160 0.338 0.550 0.763 0.177 0.760 0.626\n', '< 0.000 0.000 269.487 39.950 5.709 13.189 212.466 326.509 20.000\n', '< PyMOL>orient m1,state=0\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.924 0.347 0.160 0.338 0.550 0.763 0.177 0.760 0.626\n', '< 0.000 0.000 269.487 39.950 5.709 13.189 212.466 326.509 20.000\n', '< PyMOL>orient m1,state=1\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.899 0.239 0.366 0.288 0.306 0.907 0.329 0.921 0.206\n', '< 0.000 0.000 227.278 51.665 11.519 10.196 179.188 275.368 20.000\n', '< PyMOL>orient m1,state=2\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.288 0.019 0.958 0.301 0.951 0.072 0.909 0.309 0.279\n', '< 0.000 0.000 149.541 9.985 9.318 20.976 117.899 181.182 20.000\n', '< PyMOL>orient m1,state=3\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.537 0.312 0.784 0.841 0.118 0.529 0.072 0.943 0.325\n', '< 0.000 0.000 63.191 1.224 10.279 20.545 49.820 76.561 20.000\n', '< PyMOL>orient m1,state=4\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.537 0.312 0.784 0.841 0.118 0.529 0.072 0.943 0.325\n', '< 0.000 0.000 63.191 1.224 10.279 20.545 49.820 76.561 20.000\n', '< PyMOL>zoom m1,state=-5000\n', '< PyMOL>zoom (none),state=5\n', "< ExecutiveWindowZoom-Warning: selection doesn't specify any coordinates.\n", '< PyMOL>zoom (all),state=-1\n', '< PyMOL>zoom (all),state=0\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.537 0.312 0.784 0.841 0.118 0.529 0.072 0.943 0.325\n', '< 0.000 0.000 269.487 39.950 5.709 13.189 212.466 326.509 20.000\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "1tii".\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1tii")[0])\n', '< 11.590 -22.877 -28.270\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1tii")[1])\n', '< 84.681 40.101 47.233\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1TII")[0])\n', '< 11.590 -22.877 -28.270\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1TII")[1])\n', '< 84.681 40.101 47.233\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1Tii")[0])\n', '< 11.590 -22.877 -28.270\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1Tii")[1])\n', '< 84.681 40.101 47.233\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1tii////cA")[0])\n', '< 12.578 -21.622 -23.339\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1tii////ca")[1])\n', '< 81.195 38.760 45.050\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1TII////cA")[0])\n', '< 12.578 -21.622 -23.339\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1TII////ca")[1])\n', '< 81.195 38.760 45.050\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1Tii////cA")[0])\n', '< 12.578 -21.622 -23.339\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1Tii////ca")[1])\n', '< 81.195 38.760 45.050\n', '< PyMOL>dist TSt,/1tii//A/TYR`3/CD1, /1tii//F/ARG`12/NE\n', '< Executive: object "TSt" created.\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("tst")[0])\n', '< 35.306 24.391 -8.737\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("tst")[1])\n', '< 77.385 25.286 6.130\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("TST")[0])\n', '< 35.306 24.391 -8.737\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("TST")[1])\n', '< 77.385 25.286 6.130\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("tSt")[0])\n', '< 35.306 24.391 -8.737\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("tSt")[1])\n', '< 77.385 25.286 6.130\n']
run_tests: C1010helping...
run_tests: C1010helping.log DIFFERS over about 27 lines:
['1,53d0\n', '< PyMOL>help\n', '< \n', '< COMMANDS\n', '< \n', '< INPUT/OUTPUT load save delete quit\n', '< VIEW turn move clip rock\n', '< show hide enable disable\n', '< reset refresh rebuild \n', '< zoom origin orient \n', '< view get_view set_view\n', '< MOVIES mplay mstop mset mdo\n', '< mpng mmatrix frame\n', '< rewind middle ending\n', '< forward backward\n', '< IMAGING png mpng\n', '< RAY TRACING ray \n', '< MAPS isomesh isodot\n', '< DISPLAY cls viewport splash \n', '< SELECTIONS select mask \n', '< SETTINGS set button\n', '< ATOMS alter alter_state \n', '< EDITING create replace remove h_fill remove_picked\n', '< edit bond unbond h_add fuse \n', '< undo redo protect cycle_valence attach\n', '< FITTING fit rms rms_cur pair_fit \n', '< intra_fit intra_rms intra_rms_cur \n', '< COLORS color set_color\n', '< HELP help commands\n', '< DISTANCES dist \n', '< STEREO stereo\n', '< SYMMETRY symexp\n', '< SCRIPTS @ run\n', '< LANGUAGE alias extend\n', '< \n', '< Try "help <command-name>". Also see the following extra topics:\n', '< \n', '< "movies", "keyboard", "mouse", "selections",\n', '< "examples", "launching", "editing", and "api". \n', '< \n', '< PyMOL>help dummy\n', '< \n', '< DESCRIPTION\n', '< \n', '< This is a dummy function which returns None. \n', '< \n', "< PyMOL>cmd.show_help('dummy')\n", '< PyMOL>help dummy\n', '< \n', '< DESCRIPTION\n', '< \n', '< This is a dummy function which returns None. \n', '< \n', '< (Hit ESC to hide)\n']
run_tests: C1020querying...
run_tests: C1020querying.log DIFFERS over about 123 lines:
['1,245d0\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>count_atoms\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms name ca\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_states\n', '< cmd.count_states: 1 states.\n', '< PyMOL>create pept,(all),1,2\n', '< Selector: found 107 atoms.\n', '< PyMOL>create pept,(all),1,3\n', '< Selector: found 107 atoms.\n', '< PyMOL>create pept,(none),1,2\n', '< Selector: found 0 atoms.\n', '< PyMOL>create cpy,(all),1,1\n', '< Selector: found 107 atoms.\n', '< Executive: object "cpy" created.\n', '< PyMOL>count_states\n', '< cmd.count_states: 3 states.\n', '< PyMOL>count_states pept\n', '< cmd.count_states: 3 states.\n', '< PyMOL>count_states cpy\n', '< cmd.count_states: 1 states.\n', '< PyMOL>count_frames\n', '< cmd.count_frames: 3 frames\n', '< PyMOL>mset 1 x10\n', '< PyMOL>count_frames\n', '< cmd.count_frames: 10 frames\n', '< PyMOL>cmd.count_frames()\n', '< PyMOL>cmd.count_states()\n', '< PyMOL>cmd.count_atoms()\n', '< PyMOL>dist\n', "< cmd-Error: The 'pk1' selection is undefined.\n", "< cmd-Error: The 'pk2' selection is undefined.\n", '< PyMOL>distance\n', "< cmd-Error: The 'pk1' selection is undefined.\n", "< cmd-Error: The 'pk2' selection is undefined.\n", '< PyMOL>select lb,resi 5 and name ca\n', '< Selector: selection "lb" defined with 2 atoms.\n', '< PyMOL>dist\n', "< cmd-Error: The 'pk1' selection is undefined.\n", "< cmd-Error: The 'pk2' selection is undefined.\n", '< PyMOL>select rb,resi 8 and name ca\n', '< Selector: selection "rb" defined with 2 atoms.\n', '< PyMOL>dist\n', "< cmd-Error: The 'pk1' selection is undefined.\n", "< cmd-Error: The 'pk2' selection is undefined.\n", '< PyMOL>dist (lb),resi 10 and name ca\n', '< Executive: object "dist01" created.\n', '< PyMOL>distance resi 6 and name n,resi 9\n', '< Executive: object "dist02" created.\n', '< PyMOL>distance resi 7 and name ca,all,3.0,zoom=1\n', '< Executive: object "dist03" created.\n', '< PyMOL>print "%6.3f"%cmd.distance("resi 1 and name ca","resi 13 and name ca")\n', '< 5.762\n', '< PyMOL>print "%6.3f"%cmd.distance("resi 1 and name ca","resi 14 and name ca")\n', '< -1.000\n', '< PyMOL>print cmd.find_pairs("name o","name n",mode=1,cutoff=3.4)\n', "< [(('cpy', 103), ('pept', 1)), (('pept', 103), ('pept', 1)), (('cpy', 83), ('pept', 15)), (('pept', 83), ('pept', 15)), (('cpy', 59), ('pept', 34)), (('pept', 59), ('pept', 34)), (('cpy', 47), ('pept', 56)), (('cpy', 37), ('pept', 56)), (('pept', 47), ('pept', 56)), (('pept', 37), ('pept', 56)), (('cpy', 18), ('pept', 73)), (('pept', 18), ('pept', 73)), (('cpy', 4), ('pept', 100)), (('pept', 4), ('pept', 100)), (('cpy', 103), ('cpy', 1)), (('pept', 103), ('cpy', 1)), (('cpy', 83), ('cpy', 15)), (('pept', 83), ('cpy', 15)), (('cpy', 59), ('cpy', 34)), (('pept', 59), ('cpy', 34)), (('cpy', 47), ('cpy', 56)), (('cpy', 37), ('cpy', 56)), (('pept', 47), ('cpy', 56)), (('pept', 37), ('cpy', 56)), (('cpy', 18), ('cpy', 73)), (('pept', 18), ('cpy', 73)), (('cpy', 4), ('cpy', 100)), (('pept', 4), ('cpy', 100))]\n", '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_area (none)\n', '< cmd.get_area: 0.000 Angstroms^2.\n', '< PyMOL>get_area\n', '< cmd.get_area: 1381.186 Angstroms^2.\n', '< PyMOL>get_area state=2\n', '< Area-Error: Invalid state.\n', '< PyMOL>get_area name ca\n', '< cmd.get_area: 112.133 Angstroms^2.\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>get_area\n', '< Area-Error: Selection must be within a single object.\n', '< PyMOL>dele all\n', '< PyMOL>print lst\n', "< [('white', 0), ('black', 1), ('blue', 2), ('green', 3), ('red', 4), ('cyan', 5), ('yellow', 6), ('dash', 7), ('magenta', 8), ('salmon', 9)]\n", '< PyMOL>print cmd.get_color_tuple("red")\n', '< (1.0, 0.0, 0.0)\n', '< PyMOL>print cmd.get_color_tuple("blue")\n', '< (0.0, 0.0, 1.0)\n', '< PyMOL>print cmd.get_color_tuple("green")\n', '< (0.0, 1.0, 0.0)\n', '< PyMOL>print cmd.get_color_tuple("white")\n', '< (1.0, 1.0, 1.0)\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_dihedral 1/n,1/ca,1/c,1/o\n', '< cmd.get_dihedral: -8.586 degrees.\n', '< -5.188 -20.331 13.157 8.919 0.863 27.058\n', '< -5.063 -17.973 17.858 7.053 -2.295 25.698\n', '< PyMOL>print len(cmd.get_model().atom)\n', '< 107\n', '< PyMOL>print len(cmd.get_model("resi 1").bond)\n', '< 7\n', '< PyMOL>dele all\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>edit 4/ca\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>print cmd.get_names("all")\n', "< ['pept', 'pk1', '_pkbase1', '_pkfrag1', '_pkbase2', '_pkfrag2', 'pkmol']\n", '< PyMOL>print cmd.get_names("selections")\n', "< ['pk1', '_pkbase1', '_pkfrag1', '_pkbase2', '_pkfrag2', 'pkmol']\n", '< PyMOL>print cmd.get_names("objects")\n', "< ['pept']\n", '< PyMOL>print cmd.get_names_of_type("object:molecule")\n', "< ['pept']\n", '< PyMOL>print cmd.get_names_of_type("object:map")\n', '< []\n', '< PyMOL>kee = pp.keys()[0]\n', '< PyMOL>print kee\n', "< ('pept', 10)\n", '< PyMOL>cmd._dump_floats(pp[kee])\n', '< -124.163 170.604\n', '< PyMOL>reset\n', '< PyMOL>get_position\n', '< cmd.get_position: [ 1.224, -10.279, 20.545]\n', '< PyMOL>zoom resi 10\n', '< PyMOL>get_position\n', '< cmd.get_position: [ 2.395, -9.290, 18.016]\n', '< PyMOL>get_type\n', '< Parsing-Error: missing required argument: name\n', '< PyMOL>get_type nonexistent\n', '< cmd-Error: unrecognized name.\n', '< PyMOL>get_type pept\n', '< object:molecule\n', '< PyMOL>id_atom none\n', '< cmd-Error: atom none not found by id_atom.\n', '< PyMOL>id_atom all\n', '< cmd-Error: multiple atoms all found by id_atom.\n', '< PyMOL>id_atom 5/ca\n', '< cmd.id_atom: (id 35)\n', '< PyMOL>identify name ca\n', '< cmd.identify: (id 2)\n', '< cmd.identify: (id 10)\n', '< cmd.identify: (id 16)\n', '< cmd.identify: (id 21)\n', '< cmd.identify: (id 35)\n', '< cmd.identify: (id 45)\n', '< cmd.identify: (id 53)\n', '< cmd.identify: (id 57)\n', '< cmd.identify: (id 66)\n', '< cmd.identify: (id 74)\n', '< cmd.identify: (id 81)\n', '< cmd.identify: (id 95)\n', '< cmd.identify: (id 101)\n', '< PyMOL>index name ca\n', '< cmd.index: (pept`2)\n', '< cmd.index: (pept`10)\n', '< cmd.index: (pept`16)\n', '< cmd.index: (pept`21)\n', '< cmd.index: (pept`35)\n', '< cmd.index: (pept`45)\n', '< cmd.index: (pept`53)\n', '< cmd.index: (pept`57)\n', '< cmd.index: (pept`66)\n', '< cmd.index: (pept`74)\n', '< cmd.index: (pept`81)\n', '< cmd.index: (pept`95)\n', '< cmd.index: (pept`101)\n', '< PyMOL>overlap pept,pept\n', '< cmd.overlap: 549.083 Angstroms.\n', '< PyMOL>alter (all),vdw=0.0\n', '< Alter: modified 107 atoms.\n', '< PyMOL>overlap pept,pept\n', '< cmd.overlap: 0.000 Angstroms.\n', '< PyMOL>alter (all),vdw=0.5\n', '< Alter: modified 107 atoms.\n', '< PyMOL>overlap pept,pept\n', '< cmd.overlap: 53.500 Angstroms.\n', '< PyMOL>phi_psi all\n', '< CYS-2: ( -124.2, 170.6 )\n', '< ALA-3: ( -128.4, 140.0 )\n', '< TRP-4: ( -128.5, 135.2 )\n', '< HIS-5: ( -114.1, 109.1 )\n', '< LEU-6: ( 53.9, 41.8 )\n', '< GLY-7: ( 90.4, -28.0 )\n', '< GLU-8: ( -75.5, 138.7 )\n', '< LEU-9: ( -73.5, 125.3 )\n', '< VAL-10: ( -91.9, -61.0 )\n', '< TRP-11: ( -168.2, 159.0 )\n', '< CYS-12: ( -138.9, 133.5 )\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_symmetry\n', '< get_symmetry: No symmetry defined.\n', '< PyMOL>get_symmetry pept\n', '< get_symmetry: No symmetry defined.\n', '< PyMOL>get_symmetry none\n', '< Error: selection must refer to exactly one object.\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>get_symmetry\n', '< Error: selection must refer to exactly one object.\n', '< PyMOL>get_symmetry 3al1\n', '< get_symmetry: A = 20.544 B = 20.859 C = 26.055\n', '< get_symmetry: Alpha = 101.160 Beta = 97.030 Gamma = 118.060\n', '< get_symmetry: SpaceGroup = P -1\n', '< PyMOL>get_symmetry pept\n', '< get_symmetry: No symmetry defined.\n', '< PyMOL>hide\n', '< PyMOL>show cell,pept\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>apply(cmd.set_symmetry,["pept"]+cmd.get_symmetry("3al1"))\n', '< Symmetry: Found 2 symmetry operators.\n', '< PyMOL>get_symmetry pept\n', '< get_symmetry: A = 20.544 B = 20.859 C = 26.055\n', '< get_symmetry: Alpha = 101.160 Beta = 97.030 Gamma = 118.060\n', '< get_symmetry: SpaceGroup = P -1\n', '< PyMOL>get_symmetry 3al1\n', '< get_symmetry: A = 20.544 B = 20.859 C = 26.055\n', '< get_symmetry: Alpha = 101.160 Beta = 97.030 Gamma = 118.060\n', '< get_symmetry: SpaceGroup = P -1\n', '< PyMOL>show cell,pept\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 12 graphics primitives.\n']
run_tests: C1030selecting...
run_tests: C1030selecting.log DIFFERS over about 62 lines:
['1,123d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>select (resi trp)\n', '< Selector: selection "sel01" defined with 0 atoms.\n', '< PyMOL>indicate (name ca)\n', '< PyMOL>deselect\n', '< PyMOL>select 1/o\n', '< Selector: selection "sel02" defined with 1 atoms.\n', '< PyMOL>select 1/o+ca+n\n', '< Selector: selection "sel03" defined with 3 atoms.\n', '< PyMOL>select /pept\n', '< Selector: selection "sel04" defined with 107 atoms.\n', '< PyMOL>select bb = (name ca or name c or name n)\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (name ca,c,n)\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = */ca+c+n\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (*/ca,c,n)\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (not (not (name ca or name c or name n)))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (not (not (n. c|n. ca|n. n)))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (not (not (not (not (not (not (not (not (not (not (not (not (not (not (*/ca,c,n)))))))))))))))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (all and all and all and (not (not all)) and (not none) and all and not (not (n;ca,c,n)))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb,(name ca or (n;c | (n. n) | (*/n)))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb, \\\n', '< PyMOL>name ca \\\n', '< PyMOL>or name c \\\n', '< PyMOL>or name n\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = bb\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = not not bb\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select cc = not bb\n', '< Selector: selection "cc" defined with 68 atoms.\n', '< PyMOL>select bb = not cc\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>enable\n', '< PyMOL>enable bb\n', '< PyMOL>enable cc\n', '< PyMOL>disable cc\n', '< PyMOL>hide lines,cc\n', '< PyMOL>hide lines,bb\n', '< PyMOL>show (bb)\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 63 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "1tii".\n', '< PyMOL>count_atoms 1+2+3+4+5+6+7+8+9+10+11+12+13+14+15+16+17+18+19+20+21+22+23+24+25+26+27+28+29+30+31+32+33+34+35+36+37+38+39+40+41+42+43+44+45+46+47+48+49+50+51+52+53+54+55+56+57+58+59+60+61+62+63+64+65+66+67+68+69+70+71+72+73+74+75+76+77+78+79+80+81+82+83+84+85+86+87+88+89+90+91+92+93+94+95+96+97+98+99+100+101+102+103+104+105+106+107+108+109+110+111+112+113+114+115+116+117+118+119+120+121+122+123+124+125+126+127+128+129+130+131+132+133+134+135+136+137+138+139+140+141+142+143+144+145+146+147+148+149+150+151+152+153+154+155+156+157+158+159+160+161+162+163+164+165+166+167+168+169+170+171+172+173+174+175+176+177+178+179+180+181+182+183+184+185+186+187+195+196+197+198+199+200+201+202+203+204+205+206+207+208+209+210+211+212+213+214+215+216+217+218+219+220+221+222+223+224+225+226+227+228+229+230/\n', '< count_atoms: 5655 atoms\n', '< PyMOL>print cmd.count_atoms("resi 1+2+3+4+5+6+7+8+9+10+11+12+13+14+15+16+17+18+19+20+21+22+23+24+25+26+27+28+29+30+31+32+33+34+35+36+37+38+39+40+41+42+43+44+45+46+47+48+49+50+51+52+53+54+55+56+57+58+59+60+61+62+63+64+65+66+67+68+69+70+71+72+73+74+75+76+77+78+79+80+81+82+83+84+85+86+87+88+89+90+91+92+93+94+95+96+97+98+99+100+101+102+103+104+105+106+107+108+109+110+111+112+113+114+115+116+117+118+119+120+121+122+123+124+125+126+127+128+129+130+131+132+133+134+135+136+137+138+139+140+141+142+143+144+145+146+147+148+149+150+151+152+153+154+155+156+157+158+159+160+161+162+163+164+165+166+167+168+169+170+171+172+173+174+175+176+177+178+179+180+181+182+183+184+185+186+187+195+196+197+198+199+200+201+202+203+204+205+206+207+208+209+210+211+212+213+214+215+216+217+218+219+220+221+222+223+224+225+226+227+228+229+230")\n', '< 5655\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/tiny.pdb, model\n', '< Executive-Warning: name "model" collides with a selection language keyword.\n', '< CmdLoad: "dat/tiny.pdb" loaded as "model".\n', '< PyMOL>load dat/small01.mol, test+me\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "test+me", through state 1.\n', '< PyMOL>load dat/small02.pdb, mymodel\n', '< CmdLoad: "dat/small02.pdb" loaded as "mymodel".\n', '< PyMOL>load dat/small03.mol2, model2\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/small03.mol2" loaded as "model2", through state 16.\n', '< PyMOL>count_atoms model\n', '< Selector-Error: Misplaced ).\n', '< Selector-Error: Malformed selection.\n', '< ( model )<--\n', '< count_atoms: -1 atoms\n', '< PyMOL>count_atoms model model\n', '< count_atoms: 37 atoms\n', '< PyMOL>count_atoms /model\n', '< count_atoms: 37 atoms\n', '< PyMOL>count_atoms pept\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms model model pept\n', '< count_atoms: 144 atoms\n', '< PyMOL>count_atoms /model+pept\n', '< count_atoms: 144 atoms\n', '< PyMOL>count_atoms /pept+model\n', '< count_atoms: 144 atoms\n', '< PyMOL>count_atoms /test+\\me\n', '< count_atoms: 36 atoms\n', '< PyMOL>count_atoms /pept+model+test\\+me\n', '< count_atoms: 180 atoms\n', '< PyMOL>count_atoms test+me\n', '< count_atoms: 36 atoms\n', '< PyMOL>count_atoms test+me model model\n', '< count_atoms: 73 atoms\n', '< PyMOL>count_atoms mymodel\n', '< count_atoms: 36 atoms\n', '< PyMOL>count_atoms model2\n', '< count_atoms: 389 atoms\n']
run_tests: C1035wildcards...
run_tests: C1035wildcards.log DIFFERS over about 53 lines:
['1,106d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>count_atoms name C*\n', '< count_atoms: 69 atoms\n', '< PyMOL>count_atoms */C*\n', '< count_atoms: 69 atoms\n', '< PyMOL>count_atoms A*/\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_atoms A*/O*\n', '< count_atoms: 4 atoms\n', "< PyMOL>alter all,segi='FOUR'\n", '< Alter: modified 107 atoms.\n', "< PyMOL>alter 1-5/,segi='FIRE'\n", '< Alter: modified 43 atoms.\n', "< PyMOL>alter 6-7/,segi='SORE'\n", '< Alter: modified 12 atoms.\n', '< PyMOL>count_atoms F*///\n', '< count_atoms: 95 atoms\n', '< PyMOL>count_atoms F*R*///\n', '< count_atoms: 95 atoms\n', '< PyMOL>count_atoms F*R///\n', '< count_atoms: 52 atoms\n', '< PyMOL>count_atoms *R*///\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms *IRE///\n', '< count_atoms: 43 atoms\n', '< PyMOL>count_atoms *RE///\n', '< count_atoms: 55 atoms\n', '< PyMOL>count_atoms *E///\n', '< count_atoms: 55 atoms\n', '< PyMOL>count_atoms *O*///\n', '< count_atoms: 64 atoms\n', '< PyMOL>count_atoms chain E\n', '< count_atoms: 107 atoms\n', "< PyMOL>alter 1-3/,chain='A'\n", '< Alter: modified 19 atoms.\n', "< PyMOL>alter 6-9/,chain='B'\n", '< Alter: modified 29 atoms.\n', "< PyMOL>alter 10-11/,chain='G'\n", '< Alter: modified 21 atoms.\n', '< PyMOL>count_atoms chain A\n', '< count_atoms: 19 atoms\n', '< PyMOL>count_atoms chain A:B\n', '< count_atoms: 48 atoms\n', '< PyMOL>count_atoms chain B:F\n', '< count_atoms: 67 atoms\n', '< PyMOL>count_atoms chain A:Z\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms chain A+E\n', '< count_atoms: 57 atoms\n', '< PyMOL>count_atoms chain A+F\n', '< count_atoms: 19 atoms\n', '< PyMOL>count_atoms */*/*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms */*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms */*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms */*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms *\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*/*/*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*/*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atom /*/*RE\n', '< count_atoms: 55 atoms\n', '< PyMOL>count_atom /*////ca\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_atom *////ca\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_atom /////ca\n', '< count_atoms: 13 atoms\n', '< PyMOL>create pap,pept and not elem o\n', '< Selector: found 88 atoms.\n', '< Executive: object "pap" created.\n', '< PyMOL>create abt,pept and not elem n\n', '< Selector: found 90 atoms.\n', '< Executive: object "abt" created.\n', '< PyMOL>count_atoms p*\n', '< count_atoms: 195 atoms\n', '< PyMOL>count_atoms *t\n', '< count_atoms: 197 atoms\n', '< PyMOL>count_atoms *pt\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms p*p\n', '< count_atoms: 88 atoms\n', '< PyMOL>count_atoms p*p*\n', '< count_atoms: 195 atoms\n', '< PyMOL>count_atoms a*\n', '< count_atoms: 90 atoms\n', '< PyMOL>count_atoms /p*/*RE\n', '< count_atoms: 101 atoms\n', '< PyMOL>count_atoms /*t/*O*\n', '< count_atoms: 119 atoms\n', '< PyMOL>count_atoms /*pt//A:E\n', '< count_atoms: 86 atoms\n', '< PyMOL>count_atoms /p*/*RE/E/h*/c*\n', '< count_atoms: 12 atoms\n']
run_tests: C1040editing...
run_tests: C1040editing.log DIFFERS over about 260 lines:
['1,519d0\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>alter (elem n,o),vdw=4.0\n', '< Alter: modified 36 atoms.\n', '< PyMOL>show dots\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 2032 graphics primitives.\n', '< PyMOL>alter_state 1,(all),x=x+y\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>hide\n', '< PyMOL>show lines\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" appended into object "pept", state 2.\n', '< PyMOL>alter_state -1,(all),x=x+y\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>alter_state 0,(all), x=x+y\n', '< AlterState: modified 214 atom coordinate states.\n', '< PyMOL>alter_state 1,(all), x=x+y\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>alter_state 2,(all), x=x+y\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>alter_state 3,(all), x=x+y\n', '< AlterState: modified 0 atom coordinate states.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 20 atoms in model "small01".\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>remove id 17\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 35 atoms\n', '< PyMOL>edit id 3\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>attach X,4,2\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>edit elem X\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>remove_picked\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< PyMOL>unpick\n', '< PyMOL>print cmd.get_names()\n', "< ['small01']\n", '< PyMOL>count_atoms\n', '< count_atoms: 35 atoms\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>unbond id 1,id 2\n', '< Unbond: 1 bonds removed from model "small01".\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 38 atoms\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 22 atoms in model "small01".\n', '< PyMOL>bond id 1,id 2\n', '< Bond: 1 bonds added to model "small01".\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>edit id 6,id 10\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>cycle_valence\n', '< Remove: eliminated 2 atoms in model "small01".\n', '< Remove: eliminated 2 atoms in model "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 34 atoms\n', '< PyMOL>cycle_valence\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 32 atoms\n', '< PyMOL>remove_picked\n', '< PyMOL>bond id 6,id 10,2\n', '< Bond: 1 bonds added to model "small01".\n', '< PyMOL>h_add\n', '< PyMOL>set valence=0.05\n', '< Setting: valence set to on.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 59 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>protect resi 1-6\n', '< Protect: 51 atoms protected from movement.\n', '< PyMOL>edit 2/sg,12/sg\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>torsion 90\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -10.445, -22.170, 11.965]\n', '< cmd.extent: max: [ 6.787, 0.863, 27.058]\n', '< PyMOL>undo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>redo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -10.445, -22.170, 11.965]\n', '< cmd.extent: max: [ 6.787, 0.863, 27.058]\n', '< PyMOL>undo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>deprotect\n', '< Protect: 107 atoms deprotected.\n', '< PyMOL>edit 2/sg,12/sg\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>torsion 90\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -15.562, -22.170, 11.965]\n', '< cmd.extent: max: [ 5.893, -8.073, 25.808]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>flag ignore,(!*/ca,c,n,o,cb)\n', '< Flag: flag 25 is set in 43 of 107 atoms.\n', '< PyMOL>flag exfoliate,(*/cb)\n', '< Flag: flag 24 is set in 12 of 107 atoms.\n', '< PyMOL>show surf\n', '< PyMOL>ray\n', '< RepSurface: 921 surface points.\n', '< RepSurface: 1838 triangles.\n', '< RayRenderTest: obtained 1529 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol,m1\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "m1", through state 1.\n', '< PyMOL>load dat/small01.mol,m2\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "m2", through state 1.\n', '< PyMOL>fuse m1 and id 31,m2 and id 31\n', '< PyMOL>dele m1\n', '< PyMOL>zoom\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 144 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol,m1\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "m1", through state 1.\n', '< PyMOL>load dat/small01.mol,m2\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "m2", through state 1.\n', '< PyMOL>remove id 30\n', '< Remove: eliminated 1 atoms in model "m1".\n', '< Remove: eliminated 1 atoms in model "m2".\n', '< PyMOL>fuse m1 and id 12,m2 and id 12\n', '< PyMOL>dele m1\n', '< PyMOL>zoom\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 144 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>edit id 2,id 6, id 5\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< Selector: selection "pk3" defined with 1 atoms.\n', '< PyMOL>invert\n', '< Editor: Inverted atom.\n', '< PyMOL>print "%8.3f"%cmd.dist("id 28","id 17")\n', '< 1.957\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>iterate (name n),print resi\n', '< 1\n', '< 2\n', '< 3\n', '< 4\n', '< 5\n', '< 6\n', '< 7\n', '< 8\n', '< 9\n', '< 10\n', '< 11\n', '< 12\n', '< 13\n', '< Iterate: iterated over 13 atoms.\n', '< PyMOL>iterate_state 1,(name o),print "%8.3f %8.3f %8.3f"%(x,y,z)\n', '< 4.456 -15.889 23.517\n', '< 3.025 -12.039 25.188\n', '< 1.332 -9.867 21.362\n', '< 0.752 -5.592 23.297\n', '< -2.092 -3.870 19.914\n', '< -5.181 -3.100 20.933\n', '< -5.188 -7.669 21.049\n', '< -1.643 -7.529 19.691\n', '< -0.699 -9.660 16.692\n', '< 2.708 -11.019 16.296\n', '< 3.449 -13.097 20.534\n', '< 5.278 -17.322 18.998\n', '< 5.962 -19.432 22.570\n', '< IterateState: iterated over 13 atom coordinate states.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>stored.sum = 0\n', '< PyMOL>iterate_state 1,(il2),stored.sum=stored.sum+x\n', '< IterateState: iterated over 2084 atom coordinate states.\n', '< PyMOL>print "%8.3f"%stored.sum\n', '< 20809.421\n', '< PyMOL>push_undo (il2)\n', '< PyMOL>alter_state 1,(il2),x=0.0\n', '< AlterState: modified 2084 atom coordinate states.\n', '< PyMOL>rebuild\n', '< PyMOL>stored.sum = 0\n', '< PyMOL>iterate_state 1,(il2),stored.sum=stored.sum+x\n', '< IterateState: iterated over 2084 atom coordinate states.\n', '< PyMOL>print "%8.3f"%stored.sum\n', '< 0.000\n', '< PyMOL>edit il2`1\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>undo\n', '< PyMOL>stored.sum = 0\n', '< PyMOL>iterate_state 1,(il2),stored.sum=stored.sum+x\n', '< IterateState: iterated over 2084 atom coordinate states.\n', '< PyMOL>print "%8.3f"%stored.sum\n', '< 20809.421\n', '< PyMOL>rebuild\n', '< PyMOL>show dots\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 111433 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>iterate (all),print name\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< O\n', '< O\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>rename small01\n', '< Rename: renamed 33 atoms.\n', '< PyMOL>iterate (all),print name\n', '< C01\n', '< C02\n', '< C03\n', '< C04\n', '< C05\n', '< C06\n', '< C07\n', '< C08\n', '< C09\n', '< C10\n', '< C11\n', '< C12\n', '< C13\n', '< C\n', '< O14\n', '< O\n', '< H15\n', '< H16\n', '< H17\n', '< H18\n', '< H19\n', '< H20\n', '< H21\n', '< H22\n', '< H23\n', '< H24\n', '< H25\n', '< H26\n', '< H27\n', '< H28\n', '< H29\n', '< H30\n', '< H31\n', '< H32\n', '< H33\n', '< H\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>edit id 3\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>replace N,3,3\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>origin pept,object=pept\n', '< PyMOL>rotate x,-45,object=pept\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -18.391, 12.126]\n', '< cmd.extent: max: [ 8.919, -1.236, 29.153]\n', '< PyMOL>reset\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -18.391, 12.126]\n', '< cmd.extent: max: [ 8.919, -1.236, 29.153]\n', '< PyMOL>rotate x,45,pept\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_dihedral 1/n,1/ca,1/c,1/o\n', '< cmd.get_dihedral: -8.586 degrees.\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>set_dihedral 1/n,1/ca,1/c,1/o,180\n', '< SetDihedral: adjusted to 180.000\n', '< PyMOL>get_dihedral 1/n,1/ca,1/c,1/o\n', '< cmd.get_dihedral: 180.000 degrees.\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -1.282, -17.809, 6.314]\n', '< cmd.extent: max: [ 10.270, -4.939, 29.070]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>remove not id 3\n', '< Remove: eliminated 35 atoms in model "small01".\n', '< PyMOL>zoom\n', '< PyMOL>count_atoms\n', '< count_atoms: 1 atoms\n', '< PyMOL>set_geometry (id 3),4,4\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 5 atoms\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 4 atoms in model "small01".\n', '< PyMOL>set_geometry (id 3),3,3\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 4 atoms\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 3 atoms in model "small01".\n', '< PyMOL>set_geometry (id 3),2,2\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 3 atoms\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 2 atoms in model "small01".\n', '< PyMOL>set_geometry (id 3),4,2\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 3 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>alter (all),resi = (999-int(resi)-ID/4)\n', '< Alter: modified 107 atoms.\n', '< PyMOL>sort\n', '< PyMOL>show sph,(byres id 10)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 210 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>cmd.edit("(pept`95)",pkresi=1)\n', '< PyMOL>cmd.push_undo("pept",1)\n', '< PyMOL>cmd.edit("(pept`10)",pkresi=1)\n', '< PyMOL>cmd.push_undo("pept",1)\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.124, -31.391, 12.760]\n', '< cmd.extent: max: [ 8.919, -12.759, 27.469]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>cmd.edit("(small01`3)",pkresi=1)\n', '< PyMOL>cmd.edit_mode()\n', '< PyMOL>cmd.push_undo("small01",1)\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -15.344, -2.159, -3.683]\n', '< cmd.extent: max: [ -3.585, 2.683, 3.171]\n', '< PyMOL>undo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -8.369, -2.595, -4.337]\n', '< cmd.extent: max: [ 2.256, 2.247, 2.517]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -8.369, -2.595, -4.337]\n', '< cmd.extent: max: [ 2.256, 2.247, 2.517]\n', "< PyMOL>cmd.set('valence','0.0500')\n", '< PyMOL>cmd.edit_mode()\n', '< PyMOL>cmd.push_undo("small01",1)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.120608196, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202755, -0.160811022, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.120608196, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202755, -0.160811022, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.120608196, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", -0.020101367, 0.000000000, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, 0.000000000, 0.000000000,1,1,0)\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -8.369, -3.896, -4.337]\n', '< cmd.extent: max: [ 2.256, 2.247, 2.517]\n', '< PyMOL>undo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -8.369, -2.595, -4.337]\n', '< cmd.extent: max: [ 2.256, 2.247, 2.517]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>load dat/pept.pdb,sav\n', '< CmdLoad: "dat/pept.pdb" loaded as "sav".\n', '< PyMOL>alter_state 1,(pept),x=1;y=2;z=3;\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>rebuild\n', '< PyMOL>get_extent pept\n', '< cmd.extent: min: [ 1.000, 2.000, 3.000]\n', '< cmd.extent: max: [ 1.000, 2.000, 3.000]\n', '< PyMOL>update pept,sav\n', '< Update: coordinates updated for 107 atoms.\n', '< PyMOL>get_extent pept\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n']
run_tests: C1050fitting...
run_tests: C1050fitting.log DIFFERS over about 77 lines:
['1,153d0\n', '< the 1st random number should be 0.052\n', '< otherwise the rest of the test is meaningless...\n', '< \n', '< Selector: found 107 atoms.\n', '< Executive: object "trg" created.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< 0.080\n', '< 1 0.073 0.080 0.198\n', '< 2 0.058 0.080 0.220\n', '< 3 0.053 0.080 0.320\n', '< 4 0.088 0.080 0.105\n', '< 5 0.052 0.080 0.138\n', '< 6 0.081 0.080 0.147\n', '< 7 0.035 0.080 1.396\n', '< 8 0.059 0.080 0.108\n', '< 9 0.098 0.080 0.113\n', '< 10 0.072 0.080 0.121\n', '< 11 0.056 0.080 0.119\n', '< 12 0.075 0.080 0.203\n', '< 13 0.078 0.080 0.341\n', '< 0.080\n', '< 1 0.073 0.080 0.198\n', '< 2 0.058 0.080 0.220\n', '< 3 0.053 0.080 0.320\n', '< 4 0.088 0.080 0.105\n', '< 5 0.052 0.080 0.138\n', '< 6 0.081 0.080 0.147\n', '< 7 0.035 0.080 1.396\n', '< 8 0.059 0.080 0.108\n', '< 9 0.098 0.080 0.113\n', '< 10 0.072 0.080 0.121\n', '< 11 0.056 0.080 0.119\n', '< 12 0.075 0.080 0.203\n', '< 13 0.078 0.080 0.341\n', '< 0.080\n', '< -1.000 0.274 0.302 0.275 0.256 0.305 0.351 0.266 0.260\n', '< 0.329\n', '< -1.000 0.372 0.356 0.340 0.338 0.346 0.346 0.355 0.354\n', '< 0.358\n', '< -1.000 1.672 1.481 0.691 1.952 2.292 1.546 1.670 1.143\n', '< 1.372\n', '< 0.274 -1.000 0.305 0.308 0.227 0.329 0.320 0.309 0.269\n', '< 0.266\n', '< 0.372 -1.000 0.355 0.364 0.357 0.341 0.346 0.358 0.358\n', '< 0.357\n', '< 1.672 -1.000 0.740 1.325 0.924 0.842 1.237 0.692 0.872\n', '< 0.853\n', '< 0.302 0.305 -1.000 0.223 0.254 0.289 0.376 0.329 0.303\n', '< 0.355\n', '< 0.356 0.355 -1.000 0.363 0.338 0.343 0.331 0.362 0.343\n', '< 0.348\n', '< 1.481 0.740 -1.000 1.077 0.487 1.003 0.555 0.982 0.837\n', '< 0.963\n', '< 0.275 0.308 0.223 -1.000 0.211 0.325 0.358 0.303 0.271\n', '< 0.359\n', '< 0.340 0.364 0.363 -1.000 0.344 0.355 0.366 0.361 0.353\n', '< 0.356\n', '< 0.691 1.325 1.077 -1.000 1.309 1.795 0.834 1.378 0.874\n', '< 1.113\n', '< 0.256 0.227 0.254 0.211 -1.000 0.259 0.234 0.263 0.240\n', '< 0.300\n', '< 0.338 0.357 0.338 0.344 -1.000 0.346 0.334 0.344 0.338\n', '< 0.341\n', '< 1.952 0.924 0.487 1.309 -1.000 0.802 0.783 1.259 1.299\n', '< 1.292\n', '< 0.305 0.329 0.289 0.325 0.259 -1.000 0.280 0.359 0.292\n', '< 0.304\n', '< 0.346 0.341 0.343 0.355 0.346 -1.000 0.334 0.356 0.340\n', '< 0.346\n', '< 2.292 0.842 1.003 1.795 0.802 -1.000 1.352 1.063 1.420\n', '< 1.249\n', '< 0.351 0.320 0.376 0.358 0.234 0.280 -1.000 0.365 0.321\n', '< 0.301\n', '< 0.346 0.346 0.331 0.366 0.334 0.334 -1.000 0.352 0.357\n', '< 0.350\n', '< 1.546 1.237 0.555 0.834 0.783 1.352 -1.000 1.471 1.244\n', '< 1.364\n', '< 0.266 0.309 0.329 0.303 0.263 0.359 0.365 -1.000 0.262\n', '< 0.342\n', '< 0.355 0.358 0.362 0.361 0.344 0.356 0.352 -1.000 0.351\n', '< 0.350\n', '< 1.670 0.692 0.982 1.378 1.259 1.063 1.471 -1.000 0.748\n', '< 0.473\n', '< 0.260 0.269 0.303 0.271 0.240 0.292 0.321 0.262 -1.000\n', '< 0.354\n', '< 0.354 0.358 0.343 0.353 0.338 0.340 0.357 0.351 -1.000\n', '< 0.354\n', '< 1.143 0.872 0.837 0.874 1.299 1.420 1.244 0.748 -1.000\n', '< 0.526\n', '< 0.329 0.266 0.355 0.359 0.300 0.304 0.301 0.342 0.354\n', '< -1.000\n', '< 0.358 0.357 0.348 0.356 0.341 0.346 0.350 0.350 0.354\n', '< -1.000\n', '< 1.372 0.853 0.963 1.113 1.292 1.249 1.364 0.473 0.526\n', '< -1.000\n', '< PyMOL>intra_fit (trg),10\n', '< cmd.intra_fit: 0.358 in state 1 vs state 10\n', '< cmd.intra_fit: 0.357 in state 2 vs state 10\n', '< cmd.intra_fit: 0.348 in state 3 vs state 10\n', '< cmd.intra_fit: 0.356 in state 4 vs state 10\n', '< cmd.intra_fit: 0.341 in state 5 vs state 10\n', '< cmd.intra_fit: 0.346 in state 6 vs state 10\n', '< cmd.intra_fit: 0.350 in state 7 vs state 10\n', '< cmd.intra_fit: 0.350 in state 8 vs state 10\n', '< cmd.intra_fit: 0.354 in state 9 vs state 10\n', '< PyMOL>intra_fit (trg and resi 1),10\n', '< cmd.intra_fit: 0.329 in state 1 vs state 10\n', '< cmd.intra_fit: 0.266 in state 2 vs state 10\n', '< cmd.intra_fit: 0.355 in state 3 vs state 10\n', '< cmd.intra_fit: 0.359 in state 4 vs state 10\n', '< cmd.intra_fit: 0.300 in state 5 vs state 10\n', '< cmd.intra_fit: 0.304 in state 6 vs state 10\n', '< cmd.intra_fit: 0.301 in state 7 vs state 10\n', '< cmd.intra_fit: 0.342 in state 8 vs state 10\n', '< cmd.intra_fit: 0.354 in state 9 vs state 10\n', '< PyMOL>intra_rms (trg),10\n', '< cmd.intra_rms: 0.358 in state 1 vs state 10\n', '< cmd.intra_rms: 0.357 in state 2 vs state 10\n', '< cmd.intra_rms: 0.348 in state 3 vs state 10\n', '< cmd.intra_rms: 0.356 in state 4 vs state 10\n', '< cmd.intra_rms: 0.341 in state 5 vs state 10\n', '< cmd.intra_rms: 0.346 in state 6 vs state 10\n', '< cmd.intra_rms: 0.350 in state 7 vs state 10\n', '< cmd.intra_rms: 0.350 in state 8 vs state 10\n', '< cmd.intra_rms: 0.354 in state 9 vs state 10\n', '< PyMOL>intra_rms_cur (trg),10\n', '< cmd.intra_rms_cur: 1.372 in state 1 vs state 10\n', '< cmd.intra_rms_cur: 0.853 in state 2 vs state 10\n', '< cmd.intra_rms_cur: 0.963 in state 3 vs state 10\n', '< cmd.intra_rms_cur: 1.113 in state 4 vs state 10\n', '< cmd.intra_rms_cur: 1.292 in state 5 vs state 10\n', '< cmd.intra_rms_cur: 1.249 in state 6 vs state 10\n', '< cmd.intra_rms_cur: 1.364 in state 7 vs state 10\n', '< cmd.intra_rms_cur: 0.473 in state 8 vs state 10\n', '< cmd.intra_rms_cur: 0.526 in state 9 vs state 10\n']
run_tests: C1060controlling...
run_tests: C1060controlling.log DIFFERS over about 7 lines:
['1,13d0\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n']
run_tests: C1070exporting...
run_tests: C1070exporting.log DIFFERS over about 29 lines:
['1,58d0\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>save tmp/small01.mol\n', '< chempy: writing "tmp/small01.mol".\n', '< Save: wrote "tmp/small01.mol".\n', '< PyMOL>save tmp/small01.pkl\n', '< Save: wrote "tmp/small01.pkl".\n', '< PyMOL>save tmp/small02.pkl,format=pkla\n', '< Save: wrote "tmp/small02.pkl".\n', '< PyMOL>save tmp/small01.mmod\n', '< chempy: writing "tmp/small01.mmod".\n', '< Save: wrote "tmp/small01.mmod".\n', '< PyMOL>save tmp/small01.mmd\n', '< chempy: writing "tmp/small01.mmd".\n', '< Save: wrote "tmp/small01.mmd".\n', '< PyMOL>save tmp/small01.pdb\n', '< Save: wrote "tmp/small01.pdb".\n', '< PyMOL>multisave tmp/small01.pmo,small01\n', "< Multisave: wrote 1 object(s) to 'tmp/small01.pmo'.\n", '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.pmo\n', '< CmdLoad: "tmp/small01.pmo" loaded as "small01".\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.pdb\n', '< CmdLoad: "tmp/small01.pdb" loaded as "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.mmd\n', '< CmdLoad: "tmp/small01.mmd" loaded as "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.mmod\n', '< CmdLoad: "tmp/small01.mmod" loaded as "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.pkl\n', '< Executive: object "small01" created.\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small02.pkl\n', '< Executive: object "small02" created.\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.mol\n', '< ExecutiveLoad: "tmp/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>feedback disable,ray,details\n', '< PyMOL>ray\n', '< PyMOL>png tmp/tmp.png\n', '< ScenePNG: wrote 640x480 pixel image to file "tmp/tmp.png".\n', '< PyMOL>load_png tmp/tmp.png\n', "< Scene: loaded image from 'tmp/tmp.png'.\n"]
run_tests: C1080isomore...
run_tests: C1080isomore.log DIFFERS over about 142 lines:
['1,283d0\n', '< PyMOL>load dat/pept.pdb,obj\n', '< CmdLoad: "dat/pept.pdb" loaded as "obj".\n', '< PyMOL>load dat/il2.pdb,obj\n', '< CmdLoad: "dat/il2.pdb" appended into object "obj", state 2.\n', '< PyMOL>load dat/3al1.pdb,obj,state=4\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" appended into object "obj", state 4.\n', '< PyMOL>map_new tst1,gaussian,1.0,state=-3\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 2870 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.049654 & stdev = 0.212673.\n', '< Executive: object "tst1" created.\n', '< PyMOL>map_new tst2,gaussian,1.0,state=2\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 2084 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.074412 & stdev = 0.213934.\n', '< Executive: object "tst2" created.\n', '< PyMOL>map_new tst2,gaussian,1.0,state=4\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 679 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.076772 & stdev = 0.351954.\n', '< PyMOL>map_new tst3,gaussian,1.0,state=-4\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.003829 & stdev = 0.054910.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 2084 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.036107 & stdev = 0.153608.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 0 atom positions.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 679 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.009718 & stdev = 0.133319.\n', '< Executive: object "tst3" created.\n', '< PyMOL>map_new tst4,gaussian,1.0,state=3\n', '< Executive: object "tst4" created.\n', '< PyMOL>map_new tst5,gaussian,1.0,state=4\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 679 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.076772 & stdev = 0.351954.\n', '< Executive: object "tst5" created.\n', '< PyMOL>map_new tst6,gaussian,1.0\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079928 & stdev = 0.237612.\n', '< Executive: object "tst6" created.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 2084 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.074412 & stdev = 0.213934.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 679 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.076772 & stdev = 0.351954.\n', '< PyMOL>frame 4\n', '< PyMOL>isomesh m8,tst2,state=-1\n', '< Executive: object "m8" created.\n', '< Isomesh: created "m8", setting level to 1.000\n', '< PyMOL>frame 3\n', '< PyMOL>isomesh m9,tst1,state=-1,source_state=1\n', '< Executive: object "m9" created.\n', '< Isomesh: created "m9", setting level to 1.000\n', '< PyMOL>isomesh m7,tst1,state=4,source_state=1\n', '< Executive: object "m7" created.\n', '< Isomesh: created "m7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m8".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< ObjectMesh: updating "m9".\n', '< IsosurfVolume: Surface generated using 37701 lines.\n', '< ObjectMesh: updating "m7".\n', '< IsosurfVolume: Surface generated using 37701 lines.\n', '< PyMOL>isomesh m7,tst6,state=3,source_state=1\n', '< Isomesh: created "m7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m7".\n', '< IsosurfVolume: Surface generated using 2975 lines.\n', '< PyMOL>isomesh m7,tst5,state=2,source_state=4\n', '< Isomesh: created "m7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m7".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< PyMOL>isomesh m7,tst2,state=1,source_state=2\n', '< Isomesh: created "m7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m7".\n', '< IsosurfVolume: Surface generated using 29064 lines.\n', '< PyMOL>isomesh m1,tst1\n', '< Executive: object "m1" created.\n', '< Isomesh: created "m1", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m1".\n', '< IsosurfVolume: Surface generated using 37701 lines.\n', '< PyMOL>isomesh m2,tst2\n', '< Executive: object "m2" created.\n', '< Isomesh: created "m2", setting level to 1.000\n', '< Isomesh: created "m2", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m2".\n', '< IsosurfVolume: Surface generated using 29064 lines.\n', '< ObjectMesh: updating "m2".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< PyMOL>isomesh m3,tst3\n', '< Executive: object "m3" created.\n', '< Isomesh: created "m3", setting level to 1.000\n', '< Isomesh: created "m3", setting level to 1.000\n', '< Isomesh: created "m3", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m3".\n', '< IsosurfVolume: Surface generated using 3487 lines.\n', '< ObjectMesh: updating "m3".\n', '< IsosurfVolume: Surface generated using 29781 lines.\n', '< ObjectMesh: updating "m3".\n', '< IsosurfVolume: Surface generated using 9095 lines.\n', '< PyMOL>isomesh m4,tst4\n', '< PyMOL>refresh\n', '< PyMOL>isomesh m5a,tst5,source_state=1\n', '< Isomesh-Warning: state 1 not present in map "tst5".\n', '< PyMOL>refresh\n', '< PyMOL>isomesh m5b,tst5\n', '< Executive: object "m5b" created.\n', '< Isomesh: created "m5b", setting level to 1.000\n', '< PyMOL>isomesh m6,tst6\n', '< Executive: object "m6" created.\n', '< Isomesh: created "m6", setting level to 1.000\n', '< Isomesh: created "m6", setting level to 1.000\n', '< Isomesh: created "m6", setting level to 1.000\n', '< PyMOL>isosurface s1,tst1\n', '< Executive: object "s1" created.\n', '< Isosurface: created "s1", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m5b".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< ObjectMesh: updating "m6".\n', '< IsosurfVolume: Surface generated using 2975 lines.\n', '< ObjectMesh: updating "m6".\n', '< IsosurfVolume: Surface generated using 29064 lines.\n', '< ObjectMesh: updating "m6".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< ObjectSurface: updating "s1".\n', '< TetsurfVolume: Surface generated using 106172 triangles.\n', '< PyMOL>isosurface s2,tst2\n', '< Executive: object "s2" created.\n', '< Isosurface: created "s2", setting level to 1.000\n', '< Isosurface: created "s2", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s2".\n', '< TetsurfVolume: Surface generated using 82044 triangles.\n', '< ObjectSurface: updating "s2".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< PyMOL>isosurface s3,tst3\n', '< Executive: object "s3" created.\n', '< Isosurface: created "s3", setting level to 1.000\n', '< Isosurface: created "s3", setting level to 1.000\n', '< Isosurface: created "s3", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s3".\n', '< TetsurfVolume: Surface generated using 10220 triangles.\n', '< ObjectSurface: updating "s3".\n', '< TetsurfVolume: Surface generated using 84672 triangles.\n', '< ObjectSurface: updating "s3".\n', '< TetsurfVolume: Surface generated using 25480 triangles.\n', '< PyMOL>isosurface s4,tst4\n', '< PyMOL>refresh\n', '< PyMOL>isosurface s4,tst5\n', '< Executive: object "s4" created.\n', '< Isosurface: created "s4", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s4".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< PyMOL>isosurface s5a,tst5,source_state=1\n', '< Isosurface-Warning: state 1 not present in map "tst5".\n', '< PyMOL>refresh\n', '< PyMOL>isosurface s5b,tst5\n', '< Executive: object "s5b" created.\n', '< Isosurface: created "s5b", setting level to 1.000\n', '< PyMOL>isosurface s6,tst6\n', '< Executive: object "s6" created.\n', '< Isosurface: created "s6", setting level to 1.000\n', '< Isosurface: created "s6", setting level to 1.000\n', '< Isosurface: created "s6", setting level to 1.000\n', '< PyMOL>isosurface s7,tst1,state=4,source_state=1\n', '< Executive: object "s7" created.\n', '< Isosurface: created "s7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s5b".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< ObjectSurface: updating "s6".\n', '< TetsurfVolume: Surface generated using 8492 triangles.\n', '< ObjectSurface: updating "s6".\n', '< TetsurfVolume: Surface generated using 82044 triangles.\n', '< ObjectSurface: updating "s6".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< ObjectSurface: updating "s7".\n', '< TetsurfVolume: Surface generated using 106172 triangles.\n', '< PyMOL>isosurface s7,tst6,state=3,source_state=1\n', '< Isosurface: created "s7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s7".\n', '< TetsurfVolume: Surface generated using 8492 triangles.\n', '< PyMOL>isosurface s7,tst5,state=2,source_state=4\n', '< Isosurface: created "s7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s7".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< PyMOL>isosurface s7,tst2,state=1,source_state=2\n', '< Isosurface: created "s7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s7".\n', '< TetsurfVolume: Surface generated using 82044 triangles.\n', '< PyMOL>frame 4\n', '< PyMOL>isosurface s8,tst2,state=-1\n', '< Executive: object "s8" created.\n', '< Isosurface: created "s8", setting level to 1.000\n', '< PyMOL>frame 3\n', '< PyMOL>isosurface s9,tst1,state=-1,source_state=1\n', '< Executive: object "s9" created.\n', '< Isosurface: created "s9", setting level to 1.000\n', '< PyMOL>reinit\n', '< PyMOL>load dat/pept.pdb,obj\n', '< CmdLoad: "dat/pept.pdb" loaded as "obj".\n', '< PyMOL>alter all, b=10\n', '< Alter: modified 107 atoms.\n', '< PyMOL>map_new m1, gaussian, 1.0, obj\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m1" created.\n', '< PyMOL>map_new m2, gaussian, 1.0, obj, clamp=[-5, 5]\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m2" created.\n', '< PyMOL>map_new m3, gaussian, 1.0, obj, clamp=[-3, 3]\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m3" created.\n', '< PyMOL>map_new m4, gaussian, 1.0, obj, clamp=[-2, 2]\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m4" created.\n', '< PyMOL>map_new m5, gaussian, 1.0, obj, clamp=[-0.9, 0.9]\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m5" created.\n', '< PyMOL>isosurface s1, m1\n', '< Executive: object "s1" created.\n', '< Isosurface: created "s1", setting level to 1.000\n', '< PyMOL>isosurface s2, m2\n', '< Executive: object "s2" created.\n', '< Isosurface: created "s2", setting level to 1.000\n', '< PyMOL>isosurface s3, m3\n', '< Executive: object "s3" created.\n', '< Isosurface: created "s3", setting level to 1.000\n', '< PyMOL>isosurface s4, m4\n', '< Executive: object "s4" created.\n', '< Isosurface: created "s4", setting level to 1.000\n', '< PyMOL>isosurface s5, m5\n', '< Executive: object "s5" created.\n', '< Isosurface: created "s5", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s1".\n', '< TetsurfVolume: Surface generated using 7120 triangles.\n', '< ObjectSurface: updating "s2".\n', '< TetsurfVolume: Surface generated using 7120 triangles.\n', '< ObjectSurface: updating "s3".\n', '< TetsurfVolume: Surface generated using 7120 triangles.\n', '< ObjectSurface: updating "s4".\n', '< TetsurfVolume: Surface generated using 7120 triangles.\n', '< ObjectSurface: updating "s5".\n', '< TetsurfVolume: Surface generated using 0 triangles.\n', '< RayRenderTest: obtained 28646 graphics primitives.\n', '< PyMOL>print "END-LOG"\n']
run_tests: C1090coulomb...
run_tests: C1090coulomb.log DIFFERS over about 23 lines:
['1,45d0\n', '< PyMOL>set auto_zoom,0\n', '< Setting: auto_zoom set to 0.\n', '< PyMOL>fragment phe\n', '< Executive: object "phe" created.\n', '< PyMOL>map_new t1,coulomb,0.5,phe,5\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 20 points (20 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< Executive: object "t1" created.\n', '< PyMOL>fragment phe,phe\n', '< CmdLoad: ChemPy-model appended into object "phe", state 2.\n', '< PyMOL>map_new t2,coulomb,0.5,phe,5\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 20 points (20 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< Executive: object "t2" created.\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 20 points (20 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< PyMOL>map_new t3,coulomb,0.5,phe,5,state=-3\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 40 points (40 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< Executive: object "t3" created.\n', '< PyMOL>isomesh m1,t1,5\n', '< Executive: object "m1" created.\n', '< Isomesh: created "m1", setting level to 5.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m1".\n', '< IsosurfVolume: Surface generated using 3351 lines.\n', '< PyMOL>isomesh m2,t2,5\n', '< Executive: object "m2" created.\n', '< Isomesh: created "m2", setting level to 5.000\n', '< Isomesh: created "m2", setting level to 5.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m2".\n', '< IsosurfVolume: Surface generated using 3351 lines.\n', '< ObjectMesh: updating "m2".\n', '< IsosurfVolume: Surface generated using 3351 lines.\n', '< PyMOL>isomesh m3,t3,5\n', '< Executive: object "m3" created.\n', '< Isomesh: created "m3", setting level to 5.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m3".\n', '< IsosurfVolume: Surface generated using 3351 lines.\n']
run_tests: C1095slice...
run_tests: C1095slice.log DIFFERS over about 33 lines:
['1,65d0\n', '< PyMOL>set auto_zoom,0\n', '< Setting: auto_zoom set to 0.\n', '< PyMOL>fragment phe\n', '< Executive: object "phe" created.\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 31 graphics primitives.\n', '< PyMOL>map_new pot,coulomb,0.5,phe,5\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 20 points (20 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< Executive: object "pot" created.\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 31 graphics primitives.\n', '< PyMOL>ramp_new ramp, pot\n', '< Executive: object "ramp" created.\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 116 graphics primitives.\n', '< PyMOL>slice_new slice, pot\n', '< Executive: object "slice" created.\n', '< SliceMap: created "slice".\n', '< PyMOL>color ramp,slice\n', '< Executive: Colored 1 object.\n', '< PyMOL>set ray_default_renderer,2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>refresh\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 5780 graphics primitives.\n', '< PyMOL>set slice_track_camera, on\n', '< Setting: slice_track_camera set to on.\n', '< PyMOL>turn x,45\n', '< PyMOL>turn z,45\n', '< PyMOL>refresh\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 7337 graphics primitives.\n', '< PyMOL>set slice_track_camera,off\n', '< Setting: slice_track_camera set to off.\n', '< PyMOL>refresh\n', '< PyMOL>reset\n', '< PyMOL>turn y,45\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 7337 graphics primitives.\n', '< PyMOL>set slice_height_map\n', '< Setting: slice_height_map set to on.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 7337 graphics primitives.\n', '< PyMOL>set slice_grid, 1\n', '< Setting: slice_grid set to 1.00000.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 716 graphics primitives.\n', '< PyMOL>set slice_grid, 0.2\n', '< Setting: slice_grid set to 0.20000.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 16622 graphics primitives.\n', '< PyMOL>ramp_new ramp, pot, color=sludge\n', '< Executive: object "ramp" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 16656 graphics primitives.\n', '< PyMOL>ramp_new ramp, pot, color=rainbow\n', '< Executive: object "ramp" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 16656 graphics primitives.\n', '< PyMOL>ramp_new ramp, pot, color=rainbow, selection=none\n', '< Executive: object "ramp" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 16642 graphics primitives.\n']
run_tests: C1100do...
run_tests: C1100do.log DIFFERS over about 40 lines:
['1,79d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>show sticks,pept\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>show dots,il2\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 111078 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>show sph,3al1\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1945 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>fragment arg\n', '< Executive: object "arg" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 42 graphics primitives.\n', '< PyMOL>for a in range(1,10):\\\n', '< PyMOL> print a\\\n', '< PyMOL> print a+10\n', '< 1\n', '< 11\n', '< 2\n', '< 12\n', '< 3\n', '< 13\n', '< 4\n', '< 14\n', '< 5\n', '< 15\n', '< 6\n', '< 16\n', '< 7\n', '< 17\n', '< 8\n', '< 18\n', '< 9\n', '< 19\n', '< PyMOL>for a in range(11,21):\\\n', '< PyMOL> print a\\\n', '< PyMOL> print a+10\n', '< 11\n', '< 21\n', '< 12\n', '< 22\n', '< 13\n', '< 23\n', '< 14\n', '< 24\n', '< 15\n', '< 25\n', '< 16\n', '< 26\n', '< 17\n', '< 27\n', '< 18\n', '< 28\n', '< 19\n', '< 29\n', '< 20\n', '< 30\n', '< PyMOL> \n']
run_tests: C1110matrix_mode...
run_tests: C1110matrix_mode.log DIFFERS over about 127 lines:
['1,253d0\n', '< PyMOL>reinit\n', '< PyMOL>set matrix_mode, 0\n', '< Setting: matrix_mode set to 0.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>remove not resi 5\n', '< Remove: eliminated 97 atoms in model "pept".\n', '< PyMOL>iterate_state 1,all,print "%8.3f %8.3f %8.3f"%(x,y,z)\n', '< -0.135 -5.634 21.235\n', '< -0.006 -4.205 21.043\n', '< -1.408 -3.636 20.918\n', '< -2.092 -3.870 19.914\n', '< 0.791 -3.871 19.783\n', '< 0.939 -2.396 19.549\n', '< 0.582 -1.619 18.499\n', '< 1.470 -1.542 20.495\n', '< 1.431 -0.303 20.038\n', '< 0.896 -0.322 18.831\n', '< IterateState: iterated over 10 atom coordinate states.\n', '< PyMOL>rotate x, 53, object=pept\n', '< PyMOL>rotate y, 27, object=pept\n', '< PyMOL>rotate z, 6, object=pept\n', '< PyMOL>translate [1,2,3], object=pept\n', '< PyMOL>save tmp/C1110a.pdb\n', '< Save: wrote "tmp/C1110a.pdb".\n', '< PyMOL>for a in open("tmp/C1110a.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110b.pdb, ref=pept\n', '< Save: wrote "tmp/C1110b.pdb".\n', '< PyMOL>for a in open("tmp/C1110b.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>load dat/pept.pdb, tmp\n', '< CmdLoad: "dat/pept.pdb" loaded as "tmp".\n', '< PyMOL>remove tmp and not resi 5\n', '< Remove: eliminated 97 atoms in model "tmp".\n', '< PyMOL>matrix_transfer pept, tmp\n', '< PyMOL>save tmp/C1110c.pdb, tmp,\n', '< Save: wrote "tmp/C1110c.pdb".\n', '< PyMOL>for a in open("tmp/C1110c.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110d.pdb, tmp, ref=tmp\n', '< Save: wrote "tmp/C1110d.pdb".\n', '< PyMOL>for a in open("tmp/C1110d.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>reinit\n', '< PyMOL>set matrix_mode, 1\n', '< Setting: matrix_mode set to 1.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>remove not resi 5\n', '< Remove: eliminated 97 atoms in model "pept".\n', '< PyMOL>iterate_state 1,all,print "%8.3f %8.3f %8.3f"%(x,y,z)\n', '< -0.135 -5.634 21.235\n', '< -0.006 -4.205 21.043\n', '< -1.408 -3.636 20.918\n', '< -2.092 -3.870 19.914\n', '< 0.791 -3.871 19.783\n', '< 0.939 -2.396 19.549\n', '< 0.582 -1.619 18.499\n', '< 1.470 -1.542 20.495\n', '< 1.431 -0.303 20.038\n', '< 0.896 -0.322 18.831\n', '< IterateState: iterated over 10 atom coordinate states.\n', '< PyMOL>rotate x, 53, object=pept\n', '< PyMOL>rotate y, 27, object=pept\n', '< PyMOL>rotate z, 6, object=pept\n', '< PyMOL>translate [1,2,3], object=pept\n', '< PyMOL>save tmp/C1110a.pdb\n', '< Save: wrote "tmp/C1110a.pdb".\n', '< PyMOL>for a in open("tmp/C1110a.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110b.pdb, ref=pept\n', '< Save: wrote "tmp/C1110b.pdb".\n', '< PyMOL>for a in open("tmp/C1110b.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>load dat/pept.pdb, tmp\n', '< CmdLoad: "dat/pept.pdb" loaded as "tmp".\n', '< PyMOL>remove tmp and not resi 5\n', '< Remove: eliminated 97 atoms in model "tmp".\n', '< PyMOL>matrix_transfer pept, tmp\n', '< PyMOL>save tmp/C1110c.pdb, tmp,\n', '< Save: wrote "tmp/C1110c.pdb".\n', '< PyMOL>for a in open("tmp/C1110c.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110d.pdb, tmp, ref=tmp\n', '< Save: wrote "tmp/C1110d.pdb".\n', '< PyMOL>for a in open("tmp/C1110d.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>reinit\n', '< PyMOL>set matrix_mode, 2\n', '< Setting: matrix_mode set to 2.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>remove not resi 5\n', '< Remove: eliminated 97 atoms in model "pept".\n', '< PyMOL>iterate_state 1,all,print "%8.3f %8.3f %8.3f"%(x,y,z)\n', '< -0.135 -5.634 21.235\n', '< -0.006 -4.205 21.043\n', '< -1.408 -3.636 20.918\n', '< -2.092 -3.870 19.914\n', '< 0.791 -3.871 19.783\n', '< 0.939 -2.396 19.549\n', '< 0.582 -1.619 18.499\n', '< 1.470 -1.542 20.495\n', '< 1.431 -0.303 20.038\n', '< 0.896 -0.322 18.831\n', '< IterateState: iterated over 10 atom coordinate states.\n', '< PyMOL>rotate x, 53, object=pept, object_mode=1\n', '< PyMOL>rotate y, 27, object=pept, object_mode=1\n', '< PyMOL>rotate z, 6, object=pept, object_mode=1\n', '< PyMOL>translate [1,2,3], object=pept, object_mode=1\n', '< PyMOL>save tmp/C1110a.pdb\n', '< Save: wrote "tmp/C1110a.pdb".\n', '< PyMOL>for a in open("tmp/C1110a.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110b.pdb, ref=pept\n', '< Save: wrote "tmp/C1110b.pdb".\n', '< PyMOL>for a in open("tmp/C1110b.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>load dat/pept.pdb, tmp\n', '< CmdLoad: "dat/pept.pdb" loaded as "tmp".\n', '< PyMOL>remove tmp and not resi 5\n', '< Remove: eliminated 97 atoms in model "tmp".\n', '< PyMOL>matrix_transfer pept, tmp\n', '< PyMOL>save tmp/C1110c.pdb, tmp,\n', '< Save: wrote "tmp/C1110c.pdb".\n', '< PyMOL>for a in open("tmp/C1110c.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110d.pdb, tmp, ref=tmp\n', '< Save: wrote "tmp/C1110d.pdb".\n', '< PyMOL>for a in open("tmp/C1110d.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>print "END-LOG"\n']
run_tests: C1200matrix_maps...
run_tests: C1200matrix_maps.log DIFFERS over about 60 lines:
['1,119d0\n', '< PyMOL>load dat/pept.pdb,prot\n', '< CmdLoad: "dat/pept.pdb" loaded as "prot".\n', '< PyMOL>map_new map1,gaussian,1.0,state=-3\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079928 & stdev = 0.237612.\n', '< Executive: object "map1" created.\n', '< PyMOL>translate [10,20,30], object=prot, object_mode=1\n', '< PyMOL>rotate x,30,prot,object=prot,object_mode=1\n', '< PyMOL>rotate y,30,prot,object=prot,object_mode=1\n', '< PyMOL>rotate z,30,prot,object=prot,object_mode=1\n', '< PyMOL>zoom prot\n', '< PyMOL>dump44(cmd.get_object_matrix("map1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix_transfer prot, map1\n', '< PyMOL>dump44(cmd.get_object_matrix("map1"))\n', '< [ 0.75 -0.22 0.62 7.79 \n', '< 0.43 0.88 -0.22 17.71 \n', '< -0.50 0.43 0.75 36.18 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>isomesh m1, map1, 1.0, 5/, carve=2.1\n', '< Executive: object "m1" created.\n', '< Isomesh: created "m1", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m1".\n', '< RayRenderTest: obtained 464 graphics primitives.\n', '< PyMOL>isosurf s1, map1, 1.0, 5/, carve=2.1\n', '< Executive: object "s1" created.\n', '< Isosurface: created "s1", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s1".\n', '< RayRenderTest: obtained 1284 graphics primitives.\n', '< PyMOL>translate [5,-10,2], object=prot, object_mode=1\n', '< PyMOL>rotate x,60,prot,object=prot,object_mode=1\n', '< PyMOL>rotate z,20,prot,object=prot,object_mode=1\n', '< PyMOL>rotate y,30,prot,object=prot,object_mode=1\n', '< PyMOL>matrix_transfer prot, map1\n', '< PyMOL>isomesh m1, map1, 1.0, 5/, carve=3\n', '< Isomesh: created "m1", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m1".\n', '< RayRenderTest: obtained 1404 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isosurf s1, map1, 1.0, 5/, carve=3\n', '< Isosurface: created "s1", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isomesh m2, map1, 1.0, 5/, 3\n', '< Executive: object "m2" created.\n', '< Isomesh: created "m2", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m2".\n', '< RayRenderTest: obtained 1468 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isosurf s2, map1, 1.0, 5/, 3\n', '< Executive: object "s2" created.\n', '< Isosurface: created "s2", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s2".\n', '< RayRenderTest: obtained 4096 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isomesh m3, map1\n', '< Executive: object "m3" created.\n', '< Isomesh: created "m3", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m3".\n', '< RayRenderTest: obtained 2908 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isosurf s3, map1\n', '< Executive: object "s3" created.\n', '< Isosurface: created "s3", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s3".\n', '< RayRenderTest: obtained 8492 graphics primitives.\n', '< PyMOL>enable\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s1".\n', '< RayRenderTest: obtained 18753 graphics primitives.\n', '< PyMOL>save tmp/C1200.pse\n', '< Save: wrote "tmp/C1200.pse".\n', '< PyMOL>reinit\n', '< PyMOL>load tmp/C1200.pse\n', '< Executive: Loading version 1.20 session...\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m1".\n', '< ObjectSurface: updating "s1".\n', '< ObjectMesh: updating "m2".\n', '< ObjectSurface: updating "s2".\n', '< ObjectMesh: updating "m3".\n', '< ObjectSurface: updating "s3".\n', '< RayRenderTest: obtained 18753 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isomesh m4, map1, 2.0, 2/, 4\n', '< Executive: object "m4" created.\n', '< Isomesh: created "m4", setting level to 2.000\n', '< PyMOL>isosurf s4, map1, 2.0, 2/, 4\n', '< Executive: object "s4" created.\n', '< Isosurface: created "s4", setting level to 2.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m4".\n', '< ObjectSurface: updating "s4".\n', '< RayRenderTest: obtained 6533 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable m1\n', '< PyMOL>isolevel m1, 3\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m1".\n', '< RayRenderTest: obtained 288 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable s1\n', '< PyMOL>isolevel s1, 5\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s1".\n', '< RayRenderTest: obtained 168 graphics primitives.\n', '< PyMOL>print "END-LOG"\n']
run_tests: C1300extras...
run_tests: C1300extras.log DIFFERS over about 38 lines:
['1,76d0\n', '< PyMOL>delete all\n', '< PyMOL>fragment methane\n', '< Executive: object "methane" created.\n', '< PyMOL>remove hydro and not first hydro\n', '< Remove: eliminated 3 atoms in model "methane".\n', "< PyMOL>alter all,segi='METH'\n", '< Alter: modified 2 atoms.\n', "< PyMOL>alter hydro, alt='A'\n", '< Alter: modified 1 atoms.\n', "< PyMOL>alter hydro, text_type='Htype'\n", '< Alter: modified 1 atoms.\n', "< PyMOL>alter all, ss='L'\n", '< Alter: modified 2 atoms.\n', '< PyMOL>alter all, b=rank\n', '< Alter: modified 2 atoms.\n', '< PyMOL>alter all, q=index\n', '< Alter: modified 2 atoms.\n', '< PyMOL>alter all, elec_radius = vdw+1.0\n', '< Alter: modified 2 atoms.\n', '< PyMOL>cmd.label2("all","\'some text\'")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'some text'\n", "< H01 -> 'some text'\n", '< PyMOL>cmd.label2("all","\'some text \'+\'more text\'")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'some text more text'\n", "< H01 -> 'some text more text'\n", '< PyMOL>cmd.label2("all"," \'some text \' + \'more text\' ")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'some text more text'\n", "< H01 -> 'some text more text'\n", '< PyMOL>cmd.label2("all","model")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'methane'\n", "< H01 -> 'methane'\n", '< PyMOL>cmd.label2("all","resv")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '9'\n", "< H01 -> '9'\n", '< PyMOL>cmd.label2("all","model+\' index:\'+index+ \' type:\' +type")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'methane index:1 type:ATOM'\n", "< H01 -> 'methane index:2 type:ATOM'\n", '< PyMOL>cmd.label2("all","segi+\' \'+chain+\' \'+resi+\'`\'+resn+\' \'+str(resv)+name+\'`\'+alt")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'METH E 9`LEU 9C01`'\n", "< H01 -> 'METH E 9`LEU 9H01`A'\n", '< PyMOL>cmd.label2("all","str(index)+\' \'+str(rank)+\' \'+str(ID)")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '1 0 0'\n", "< H01 -> '2 1 1'\n", '< PyMOL>cmd.label2("all","flags")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '8000000'\n", "< H01 -> '8000000'\n", '< PyMOL>cmd.label2("all","str(numeric_type)+text_type")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '0'\n", "< H01 -> '0Htype'\n", '< PyMOL>cmd.label2("all","str(formal_charge) + \' \' + str(partial_charge)")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '0 0.000'\n", "< H01 -> '0 0.000'\n", '< PyMOL>cmd.label2("all","ss + str(cartoon) + str(color)")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'L026'\n", "< H01 -> 'L029'\n", '< PyMOL>cmd.label2("all",\'str(valence) + " " + str(geom)\')\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '4 4'\n", "< H01 -> '1 1'\n", '< PyMOL>cmd.label2("all",\'str(elec_radius)+" "+str(vdw)+" "+b+" "+q+" "+elem\')\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '2.80 1.80 0.00 1.00 C'\n", "< H01 -> '2.10 1.10 1.00 2.00 H'\n", '< PyMOL>print "END-LOG"\n']
run_tests: C2000returns...
run_tests: C2000returns.log DIFFERS over about 121 lines:
['1,242d0\n', '< cmd.load("dat/pept.pdb")\n', '< None\n', '< cmd.load("dat/nonexistent.pdb")\n', "< ExecutiveProcessPDBFile-Error: Unable to open file 'dat/nonexistent.pdb'.\n", '< -1\n', "< ExecutiveProcessPDBFile-Error: Unable to open file 'dat/nonexistent.pdb'.\n", '< CmdException raised.\n', '< cmd.load("dat/small01.mol")\n', '< None\n', '< cmd.load("dat/nonexistent.mol")\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.mol'.\n", '< -1\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.mol'.\n", '< CmdException raised.\n', '< cmd.load("dat/ligs3d.sdf")\n', '< None\n', '< cmd.load("dat/nonexistent.sdf")\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.sdf'.\n", '< -1\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.sdf'.\n", '< CmdException raised.\n', '< cmd.load("dat/small03.mol2")\n', '< None\n', '< cmd.load("dat/nonexistent.mol2")\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.mol2'.\n", '< -1\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.mol2'.\n", '< CmdException raised.\n', '< cmd.load("dat/pept.r3d")\n', '< None\n', '< cmd.load("dat/nonexistent.r3d")\n', "< Load-Error: Unable to open file 'dat/nonexistent.r3d'.\n", '< -1\n', "< Load-Error: Unable to open file 'dat/nonexistent.r3d'.\n", '< CmdException raised.\n', '< cmd.load("dat/pept.pkl")\n', '< None\n', '< cmd.load("dat/nonexistent.pkl")\n', "< Load-Error: Unable to load file 'dat/nonexistent.pkl'.\n", '< -1\n', "< Load-Error: Unable to load file 'dat/nonexistent.pkl'.\n", '< CmdException raised.\n', '< cmd.get_names()\n', "< ['small01', 'ligs3d', 'small03', 'pept']\n", '< cmd.delete("all")\n', '< None\n', '< cmd.get_names()\n', '< []\n', '< cmd.get_model("nonexistent")\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< CmdException raised.\n', '< cmd.space("cmyk")\n', "< Color: loaded table '/Users/delwarl/pymol/data/pymol/cmyk.png'.\n", '< None\n', '< cmd.space("unknown")\n', "< Error: unknown color space 'unknown'.\n", '< -1\n', "< Error: unknown color space 'unknown'.\n", '< CmdException raised.\n', '< cmd.space("rgb")\n', '< Color: purged table; restoring RGB colors.\n', '< None\n', '< cmd.space()\n', '< None\n', '< chempy.models.Indexed\n', '< 107\n', '< chempy.models.Indexed\n', '< 0\n', '< cmd.get_model("nonexistent")\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< CmdException raised.\n', '< cmd.create("test","none",quiet=0)\n', '< Selector: found 0 atoms.\n', '< Executive: object "test" created.\n', '< None\n', '< cmd.create("test2","nonexistent")\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< CmdException raised.\n', '< cmd.create("test3","?allowed",quiet=0)\n', '< Selector: found 0 atoms.\n', '< Executive: object "test3" created.\n', '< None\n', '< cmd.fragment("arg")\n', '< None\n', '< cmd.fragment("nonexistent")\n', "< Error: unable to load fragment 'nonexistent'.\n", '< -1\n', "< Error: unable to load fragment 'nonexistent'.\n", '< CmdException raised.\n', '< cmd.distance("none","none","none")\n', '< -1.0\n', '< cmd.distance("none","invalid1","none")\n', '< Selector-Error: Invalid selection name "invalid1".\n', '< ( invalid1 )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid1".\n', '< ( invalid1 )<--\n', '< CmdException raised.\n', '< cmd.distance("none","none","invalid2")\n', '< Selector-Error: Invalid selection name "invalid2".\n', '< ( invalid2 )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid2".\n', '< ( invalid2 )<--\n', '< CmdException raised.\n', '< cmd.distance("none","invalid1","invalid2")\n', '< Selector-Error: Invalid selection name "invalid1".\n', '< ( invalid1 )<--\n', '< Selector-Error: Invalid selection name "invalid2".\n', '< ( invalid2 )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid1".\n', '< ( invalid1 )<--\n', '< Selector-Error: Invalid selection name "invalid2".\n', '< ( invalid2 )<--\n', '< CmdException raised.\n', '< cmd.index("none")\n', '< []\n', '< cmd.index("first pept")\n', "< [('pept', 1)]\n", '< cmd.index("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.identify("none")\n', '< []\n', '< cmd.identify("first pept")\n', '< [1]\n', '< cmd.identify("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.identify("none",mode=1)\n', '< []\n', '< cmd.identify("first pept",mode=1)\n', "< [('pept', 1)]\n", '< cmd.identify("invalid",mode=1)\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.count_atoms("none")\n', '< 0\n', '< cmd.count_atoms()\n', '< 107\n', '< cmd.count_atoms("pept")\n', '< 107\n', '< cmd.count_atoms("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.count_frames()\n', '< 1\n', '< cmd.count_states()\n', '< 1\n', '< cmd.count_states("all")\n', '< 1\n', '< cmd.count_states("none")\n', '< 0\n', '< cmd.count_states("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< CmdException raised.\n', '< cmd.get_area()\n', '< 1381.18615723\n', '< cmd.get_area("resi 1")\n', '< 107.905807495\n', '< cmd.get_area("none")\n', '< 0.0\n', '< cmd.get_area("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1.0\n', '< cmd.get_chains()\n', "< ['E']\n", '< cmd.get_chains("pept")\n', "< ['E']\n", '< cmd.get_chains("resi 1")\n', "< ['E']\n", '< cmd.get_chains("none")\n', '< []\n', '< cmd.get_chains("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.zoom()\n', '< None\n', '< cmd.zoom("pept")\n', '< None\n', '< cmd.zoom("none")\n', "< ExecutiveWindowZoom-Warning: selection doesn't specify any coordinates.\n", '< None\n', '< cmd.zoom("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< QuietException raised.\n', '< cmd.center()\n', '< None\n', '< cmd.center("pept")\n', '< None\n', '< cmd.center("none")\n', "< ExecutiveCenter-Warning: selection doesn't specify any coordinates.\n", '< None\n', '< cmd.center("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< QuietException raised.\n']
make[1]: Leaving directory `/«PKGBUILDDIR»'
fakeroot debian/rules binary-arch
dh binary-arch --with python2 --parallel
dh_testroot -a -O--parallel
dh_prep -a -O--parallel
dh_installdirs -a -O--parallel
dh_auto_install -a -O--parallel
running install
running build
running build_py
running build_ext
building 'pymol._cmd' extension
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_VMD_PLUGINS -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -D_PYMOL_INLINE -D_PYMOL_NUMPY -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/src -Igenerated/include -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/include -I/usr/include/freetype2 -I/usr/include/python2.7 -c generated/src/ShaderText.c -o build/temp.linux-armv7l-2.7/generated/src/ShaderText.o -ffast-math -funroll-loops -O3 -fcommon
c++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g build/temp.linux-armv7l-2.7/ov/src/OVHeap.o build/temp.linux-armv7l-2.7/ov/src/OVOneToAny.o build/temp.linux-armv7l-2.7/ov/src/OVOneToOne.o build/temp.linux-armv7l-2.7/ov/src/ov_utility.o build/temp.linux-armv7l-2.7/ov/src/OVRandom.o build/temp.linux-armv7l-2.7/ov/src/OVContext.o build/temp.linux-armv7l-2.7/ov/src/OVHeapArray.o build/temp.linux-armv7l-2.7/ov/src/OVLexicon.o build/temp.linux-armv7l-2.7/layer0/Vector.o build/temp.linux-armv7l-2.7/layer0/Isosurf.o build/temp.linux-armv7l-2.7/layer0/Deferred.o build/temp.linux-armv7l-2.7/layer0/Err.o build/temp.linux-armv7l-2.7/layer0/Parse.o build/temp.linux-armv7l-2.7/layer0/Map.o build/temp.linux-armv7l-2.7/layer0/Raw.o build/temp.linux-armv7l-2.7/layer0/MemoryCache.o build/temp.linux-armv7l-2.7/layer0/Block.o build/temp.linux-armv7l-2.7/layer0/ShaderMgr.o build/temp.linux-armv7l-2.7/layer0/Matrix.o build/temp.linux-armv7l-2.7/layer0/Util.o build/temp.linux-armv7l-2.7/layer0/Texture.o build/temp.linux-armv7l-2.7/layer0/Pixmap.o build/temp.linux-armv7l-2.7/layer0/Word.o build/temp.linux-armv7l-2.7/layer0/MemoryDebug.o build/temp.linux-armv7l-2.7/layer0/Debug.o build/temp.linux-armv7l-2.7/layer0/Queue.o build/temp.linux-armv7l-2.7/layer0/Crystal.o build/temp.linux-armv7l-2.7/layer0/Tracker.o build/temp.linux-armv7l-2.7/layer0/Feedback.o build/temp.linux-armv7l-2.7/layer0/Match.o build/temp.linux-armv7l-2.7/layer0/Tetsurf.o build/temp.linux-armv7l-2.7/layer0/Field.o build/temp.linux-armv7l-2.7/layer0/Triangle.o build/temp.linux-armv7l-2.7/layer0/os_gl.o build/temp.linux-armv7l-2.7/layer0/Sphere.o build/temp.linux-armv7l-2.7/layer0/MyPNG.o build/temp.linux-armv7l-2.7/layer1/P.o build/temp.linux-armv7l-2.7/layer1/Control.o build/temp.linux-armv7l-2.7/layer1/Basis.o build/temp.linux-armv7l-2.7/layer1/TypeFace.o build/temp.linux-armv7l-2.7/layer1/Font.o build/temp.linux-armv7l-2.7/layer1/CGO.o build/temp.linux-armv7l-2.7/layer1/Pop.o build/temp.linux-armv7l-2.7/layer1/Ray.o build/temp.linux-armv7l-2.7/layer1/Rep.o build/temp.linux-armv7l-2.7/layer1/Seq.o build/temp.linux-armv7l-2.7/layer1/Setting.o build/temp.linux-armv7l-2.7/layer1/Ortho.o build/temp.linux-armv7l-2.7/layer1/ScrollBar.o build/temp.linux-armv7l-2.7/layer1/Text.o build/temp.linux-armv7l-2.7/layer1/Character.o build/temp.linux-armv7l-2.7/layer1/View.o build/temp.linux-armv7l-2.7/layer1/Color.o build/temp.linux-armv7l-2.7/layer1/PyMOLObject.o build/temp.linux-armv7l-2.7/layer1/Wizard.o build/temp.linux-armv7l-2.7/layer1/Extrude.o build/temp.linux-armv7l-2.7/layer1/ButMode.o build/temp.linux-armv7l-2.7/layer1/Symmetry.o build/temp.linux-armv7l-2.7/layer1/Scene.o build/temp.linux-armv7l-2.7/layer1/FontGLUT.o build/temp.linux-armv7l-2.7/layer1/Shaker.o build/temp.linux-armv7l-2.7/layer1/PConv.o build/temp.linux-armv7l-2.7/layer1/FontGLUT8x13.o build/temp.linux-armv7l-2.7/layer1/FontGLUT9x15.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel10.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel12.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel18.o build/temp.linux-armv7l-2.7/layer1/FontType.o build/temp.linux-armv7l-2.7/layer1/Movie.o build/temp.linux-armv7l-2.7/layer2/RepDihedral.o build/temp.linux-armv7l-2.7/layer2/RepEllipsoid.o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule.o build/temp.linux-armv7l-2.7/layer2/SculptCache.o build/temp.linux-armv7l-2.7/layer2/RepNonbonded.o build/temp.linux-armv7l-2.7/layer2/Sculpt.o build/temp.linux-armv7l-2.7/layer2/ObjectVolume.o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule2.o build/temp.linux-armv7l-2.7/layer2/GadgetSet.o build/temp.linux-armv7l-2.7/layer2/ObjectCGO.o build/temp.linux-armv7l-2.7/layer2/ObjectMap.o build/temp.linux-armv7l-2.7/layer2/RepAngle.o build/temp.linux-armv7l-2.7/layer2/RepDistDash.o build/temp.linux-armv7l-2.7/layer2/RepWireBond.o build/temp.linux-armv7l-2.7/layer2/ObjectSlice.o build/temp.linux-armv7l-2.7/layer2/RepMesh.o build/temp.linux-armv7l-2.7/layer2/RepNonbondedSphere.o build/temp.linux-armv7l-2.7/layer2/CoordSet.o build/temp.linux-armv7l-2.7/layer2/ObjectGadgetRamp.o build/temp.linux-armv7l-2.7/layer2/RepSphere.o build/temp.linux-armv7l-2.7/layer2/VFont.o build/temp.linux-armv7l-2.7/layer2/ObjectAlignment.o build/temp.linux-armv7l-2.7/layer2/ObjectCallback.o build/temp.linux-armv7l-2.7/layer2/ObjectDist.o build/temp.linux-armv7l-2.7/layer2/DistSet.o build/temp.linux-armv7l-2.7/layer2/RepDot.o build/temp.linux-armv7l-2.7/layer2/RepCylBond.o build/temp.linux-armv7l-2.7/layer2/ObjectMesh.o build/temp.linux-armv7l-2.7/layer2/ObjectGroup.o build/temp.linux-armv7l-2.7/layer2/RepDistLabel.o build/temp.linux-armv7l-2.7/layer2/RepLabel.o build/temp.linux-armv7l-2.7/layer2/RepCartoon.o build/temp.linux-armv7l-2.7/layer2/RepRibbon.o build/temp.linux-armv7l-2.7/layer2/RepSurface.o build/temp.linux-armv7l-2.7/layer2/ObjectSurface.o build/temp.linux-armv7l-2.7/layer2/AtomInfo.o build/temp.linux-armv7l-2.7/layer2/ObjectGadget.o build/temp.linux-armv7l-2.7/layer3/Executive.o build/temp.linux-armv7l-2.7/layer3/Seeker.o build/temp.linux-armv7l-2.7/layer3/Selector.o build/temp.linux-armv7l-2.7/layer3/PlugIOManager.o build/temp.linux-armv7l-2.7/layer3/Editor.o build/temp.linux-armv7l-2.7/layer4/Cmd.o build/temp.linux-armv7l-2.7/layer4/Menu.o build/temp.linux-armv7l-2.7/layer4/PopUp.o build/temp.linux-armv7l-2.7/layer4/Export.o build/temp.linux-armv7l-2.7/layer5/TestPyMOL.o build/temp.linux-armv7l-2.7/layer5/PyMOL.o build/temp.linux-armv7l-2.7/layer5/main.o build/temp.linux-armv7l-2.7/modules/cealign/src/ccealignmodule.o build/temp.linux-armv7l-2.7/generated/src/ShaderText.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mmcif.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -lpng -lfreetype -lGL -lGLU -lGLEW -lglut -o build/lib.linux-armv7l-2.7/pymol/_cmd.so
running install_lib
creating /«PKGBUILDDIR»/debian/pymol/usr/lib
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web
copying build/lib.linux-armv7l-2.7/web/pymolhttpd.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web
copying build/lib.linux-armv7l-2.7/web/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web/examples
copying build/lib.linux-armv7l-2.7/web/examples/justhttpd.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web/examples
copying build/lib.linux-armv7l-2.7/web/examples/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web/examples
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/creating.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/experimenting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/parser.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/moving.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/xray.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/internal.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/parsing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/headering.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/xwin.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/editor.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/colorramping.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/helping.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/monitoring.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/selecting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/constants_palette.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/checking.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/menu.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/externing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/selector.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/importing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/api.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/cgo.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/cmd.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/preset.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/feedingback.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/fitting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/constants.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/callback.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/gui.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/m4x.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/setting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/completing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/movie.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/invocation.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/vfont.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/rpc.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/keywords.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/wizarding.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/util.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/editing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/keyboard.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/locking.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/computing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/controlling.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/querying.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/viewing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/shortcut.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/povray.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/exporting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
copying build/lib.linux-armv7l-2.7/pymol/commanding.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/contrib
copying build/lib.linux-armv7l-2.7/pymol/contrib/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/contrib
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/embed
copying build/lib.linux-armv7l-2.7/pymol/embed/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/embed
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/embed/wxpymol
copying build/lib.linux-armv7l-2.7/pymol/embed/wxpymol/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/embed/wxpymol
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/embed/epymol
copying build/lib.linux-armv7l-2.7/pymol/embed/epymol/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/embed/epymol
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl
copying build/lib.linux-armv7l-2.7/pymol/opengl/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl
copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/glconst.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl
copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl
copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/_opengl_num.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl
copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/_opengl.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl
copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/openglutil.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl
copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/openglutil_num.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu
copying build/lib.linux-armv7l-2.7/pymol/opengl/glu/gluconst.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu
copying build/lib.linux-armv7l-2.7/pymol/opengl/glu/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu
copying build/lib.linux-armv7l-2.7/pymol/opengl/glu/_glu_num.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu
copying build/lib.linux-armv7l-2.7/pymol/opengl/glu/_glu.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glut
copying build/lib.linux-armv7l-2.7/pymol/opengl/glut/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glut
copying build/lib.linux-armv7l-2.7/pymol/opengl/glut/glutconst.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glut
copying build/lib.linux-armv7l-2.7/pymol/opengl/glut/_glut.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glut
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/measurement.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/demo.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/message.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/benchmark.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/dragging.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/distance.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/filter.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/charge.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/box.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/pair_fit.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/annotation.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/fedora.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/stereodemo.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/label.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/cleanup.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/renaming.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/pseudoatom.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/mutagenesis.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/appearance.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/density.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/sculpting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/toggle.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
copying build/lib.linux-armv7l-2.7/pymol/wizard/security.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/plugins
copying build/lib.linux-armv7l-2.7/pymol/plugins/legacysupport.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/plugins
copying build/lib.linux-armv7l-2.7/pymol/plugins/managergui.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/plugins
copying build/lib.linux-armv7l-2.7/pymol/plugins/repository.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/plugins
copying build/lib.linux-armv7l-2.7/pymol/plugins/installation.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/plugins
copying build/lib.linux-armv7l-2.7/pymol/plugins/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/plugins
copying build/lib.linux-armv7l-2.7/pymol/_cmd.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/protein.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/io.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/brick.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/protein_amber99.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/charge.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/mass.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/protein_residues.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/arc.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/cc1.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/water_residues.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/models.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/cex.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/cif.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/cpv.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/mol2.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/water_amber.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/gms.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/solvate.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/mae.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/map.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/lst.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/mmd.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/mol.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/pdb.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/pkl.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/protein_mmff.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/sdf.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/place.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/bond_mmff.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/xyz.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/protein_amber.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/dictdb.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/neighbor.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/gamess1.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/bonds.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/hetatm.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
copying build/lib.linux-armv7l-2.7/chempy/bond_amber.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin
copying build/lib.linux-armv7l-2.7/chempy/bmin/commands.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin
copying build/lib.linux-armv7l-2.7/chempy/bmin/state.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin
copying build/lib.linux-armv7l-2.7/chempy/bmin/util.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin
copying build/lib.linux-armv7l-2.7/chempy/bmin/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin
copying build/lib.linux-armv7l-2.7/chempy/bmin/realtime.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/fast
copying build/lib.linux-armv7l-2.7/chempy/fast/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/fast
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ
copying build/lib.linux-armv7l-2.7/chempy/champ/assign.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ
copying build/lib.linux-armv7l-2.7/chempy/champ/amber99.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ
copying build/lib.linux-armv7l-2.7/chempy/champ/formal_charges.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ
copying build/lib.linux-armv7l-2.7/chempy/champ/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ
copying build/lib.linux-armv7l-2.7/chempy/champ/_champ.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker
copying build/lib.linux-armv7l-2.7/chempy/tinker/state.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker
copying build/lib.linux-armv7l-2.7/chempy/tinker/amber.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker
copying build/lib.linux-armv7l-2.7/chempy/tinker/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker
copying build/lib.linux-armv7l-2.7/chempy/tinker/realtime.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker
copying build/lib.linux-armv7l-2.7/chempy/tinker/keyword.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/fragments
copying build/lib.linux-armv7l-2.7/chempy/fragments/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/fragments
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk
copying build/lib.linux-armv7l-2.7/pmg_tk/PyMOLMapLoad.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk
copying build/lib.linux-armv7l-2.7/pmg_tk/Demo.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk
copying build/lib.linux-armv7l-2.7/pmg_tk/Setting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk
copying build/lib.linux-armv7l-2.7/pmg_tk/SetEditor.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk
copying build/lib.linux-armv7l-2.7/pmg_tk/ColorEditor.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk
copying build/lib.linux-armv7l-2.7/pmg_tk/PMGApp.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk
copying build/lib.linux-armv7l-2.7/pmg_tk/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/demo
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/demo/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/demo
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/volume.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/ModalWindow.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/ColorRampModel.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/builder.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/ColorMap.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/hist.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/SimpleColorChooser.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal
copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/startup
copying build/lib.linux-armv7l-2.7/pmg_tk/startup/apbs_tools.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/startup
copying build/lib.linux-armv7l-2.7/pmg_tk/startup/remote_pdb_load.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/startup
copying build/lib.linux-armv7l-2.7/pmg_tk/startup/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/startup
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_wx
copying build/lib.linux-armv7l-2.7/pmg_wx/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_wx
creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol2
copying build/lib.linux-armv7l-2.7/pymol2/make_cmd2.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol2
copying build/lib.linux-armv7l-2.7/pymol2/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol2
copying build/lib.linux-armv7l-2.7/pymol2/cmd2.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol2
running install_egg_info
Writing /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol-1.6.0.0.egg-info
copying pymol -> /«PKGBUILDDIR»/debian/pymol/usr/bin
debian/rules override_dh_install
make[1]: Entering directory `/«PKGBUILDDIR»'
pdflatex -output-directory debian -jobname pymol-ref-card debian/pymolRef.tex
This is pdfTeX, Version 3.1415926-2.5-1.40.14 (TeX Live 2013/Debian)
restricted \write18 enabled.
entering extended mode
(./debian/pymolRef.tex
LaTeX2e <2011/06/27>
Babel <3.9f> and hyphenation patterns for 2 languages loaded.
(/usr/share/texlive/texmf-dist/tex/latex/base/article.cls
Document Class: article 2007/10/19 v1.4h Standard LaTeX document class
(/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo))
(/usr/share/texlive/texmf-dist/tex/latex/tools/multicol.sty)
No file pymol-ref-card.aux.
Underfull \hbox (badness 10000) in paragraph at lines 78--79
[1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}]
(/usr/share/texlive/texmf-dist/tex/latex/base/omscmr.fd) [2]
(debian/pymol-ref-card.aux) )
(see the transcript file for additional information)</usr/share/texlive/texmf-d
ist/fonts/type1/public/amsfonts/cm/cmbx12.pfb></usr/share/texlive/texmf-dist/fo
nts/type1/public/amsfonts/cm/cmitt10.pfb></usr/share/texlive/texmf-dist/fonts/t
ype1/public/amsfonts/cm/cmmi9.pfb></usr/share/texlive/texmf-dist/fonts/type1/pu
blic/amsfonts/cm/cmr10.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/am
sfonts/cm/cmr12.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/
cm/cmr9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy9
.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmti9.pfb></
usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmtt9.pfb>
Output written on debian/pymol-ref-card.pdf (2 pages, 108323 bytes).
Transcript written on debian/pymol-ref-card.log.
sed -e s/@PYTHON_VERSION@/2.7/g < debian/pymol.launch.in > debian/pymol.launch
dh_numpy
dh_install data/shaders usr/lib/python2.7/dist-packages/pymol/data/
install -m 755 debian/pymol.launch debian/pymol/usr/bin/pymol
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_installdocs -a -O--parallel
dh_installchangelogs -a -O--parallel
dh_installexamples -a -O--parallel
dh_installman -a -O--parallel
dh_python2 -a -O--parallel
dh_installmenu -a -O--parallel
dh_installmime -a -O--parallel
dh_perl -a -O--parallel
dh_link -a -O--parallel
debian/rules override_dh_compress
make[1]: Entering directory `/«PKGBUILDDIR»'
dh_compress -Xpdb
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_fixperms -a -O--parallel
dh_strip -a -O--parallel
dh_makeshlibs -a -O--parallel
dh_shlibdeps -a -O--parallel
dh_installdeb -a -O--parallel
dh_gencontrol -a -O--parallel
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -a -O--parallel
dh_builddeb -a -O--parallel
dpkg-deb: warning: 'debian/pymol/DEBIAN/control' contains user-defined field 'Python-Version'
dpkg-deb: warning: ignoring 1 warning about the control file(s)
dpkg-deb: building package `pymol' in `../pymol_1.6.0.0-1.1_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../pymol_1.6.0.0-1.1_armhf.changes
dpkg-genchanges: arch-specific upload - not including arch-independent packages
dpkg-genchanges: binary-only upload - not including any source code
dpkg-source --after-build pymol-1.6.0.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20131106-0556
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
pymol_1.6.0.0-1.1_armhf.changes:
────────────────────────────────
Format: 1.8
Date: Thu, 31 Oct 2013 11:53:43 +0400
Source: pymol
Binary: pymol
Architecture: armhf
Version: 1.6.0.0-1.1
Distribution: jessie-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Sergei Golovan <sgolovan@debian.org>
Description:
pymol - Molecular Graphics System
Changes:
pymol (1.6.0.0-1.1) unstable; urgency=low
.
* Non-maintainer upload.
* debian/control: Remove the obsolete and unnecessary tk8.4-dev from build
dependencies.
Checksums-Sha1:
667229accf331fc4482e4bbbac3d1a4dd2290abd 6836388 pymol_1.6.0.0-1.1_armhf.deb
Checksums-Sha256:
cfd5aa3e78efea7e352530a0427f4bc21d2999e3736216336194a3d91c79c2b8 6836388 pymol_1.6.0.0-1.1_armhf.deb
Files:
9adf50999bfe83ff56548ad4eeec97cc 6836388 science optional pymol_1.6.0.0-1.1_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
pymol_1.6.0.0-1.1_armhf.deb
───────────────────────────
new debian package, version 2.0.
size 6836388 bytes: control archive=12929 bytes.
1191 bytes, 25 lines control
35431 bytes, 451 lines md5sums
412 bytes, 18 lines * postinst #!/bin/sh
160 bytes, 5 lines * postrm #!/bin/sh
247 bytes, 14 lines * prerm #!/bin/sh
Package: pymol
Version: 1.6.0.0-1.1
Architecture: armhf
Maintainer: Debichem Team <debichem-devel@lists.alioth.debian.org>
Installed-Size: 16626
Depends: python-numpy (>= 1:1.7-0~b1), python-pmw, python-tk, python-numpy-abi9, python (>= 2.7), python (<< 2.8), python2.7:any, freeglut3, libc6 (>= 2.15), libfreetype6 (>= 2.2.1), libgcc1 (>= 1:4.4.0), libgl1-mesa-glx | libgl1, libglew1.7 (>= 1.7.0), libglu1-mesa | libglu1, libpng12-0 (>= 1.2.13-4), libstdc++6 (>= 4.4.0)
Recommends: apbs
Section: science
Priority: optional
Homepage: http://www.pymol.org
Description: Molecular Graphics System
PyMOL is a molecular graphics system targeted at medium to large
biomolecules like proteins. It can generate high-quality publication-ready
molecular graphics images and animations.
.
Features include:
* Visualization of molecules, molecular trajectories and surfaces
of crystallography data or orbitals
* Molecular builder and sculptor
* Internal raytracer and movie generator
* Fully extensible and scriptable via a Python interface
.
File formats PyMOL can read include PDB, XYZ, CIF, MDL Molfile, ChemDraw,
CCP4 maps, XPLOR maps and Gaussian cube maps.
Python-Version: 2.7
drwxr-xr-x root/root 0 2013-11-06 05:56 ./
drwxr-xr-x root/root 0 2013-11-06 05:55 ./usr/
drwxr-xr-x root/root 0 2013-11-06 05:55 ./usr/bin/
-rwxr-xr-x root/root 469 2013-11-06 05:55 ./usr/bin/pymol
drwxr-xr-x root/root 0 2013-11-06 05:55 ./usr/share/
drwxr-xr-x root/root 0 2013-11-06 05:55 ./usr/share/applications/
-rw-r--r-- root/root 584 2013-08-01 23:09 ./usr/share/applications/pymol.desktop
drwxr-xr-x root/root 0 2013-11-06 05:55 ./usr/share/chempy/
drwxr-xr-x root/root 0 2013-11-06 05:55 ./usr/share/doc/
drwxr-xr-x root/root 0 2013-11-06 05:55 ./usr/share/doc/pymol/
-rw-r--r-- root/root 120 2013-06-11 22:37 ./usr/share/doc/pymol/AUTHORS
-rw-r--r-- root/root 3547 2013-06-11 22:37 ./usr/share/doc/pymol/DEVELOPERS
-rw-r--r-- root/root 195 2008-07-23 01:40 ./usr/share/doc/pymol/README.Debian
-rw-r--r-- root/root 262 2008-07-23 00:59 ./usr/share/doc/pymol/TODO.Debian
-rw-r--r-- root/root 3689 2009-09-10 11:36 ./usr/share/doc/pymol/copyright
drwxr-xr-x root/root 0 2013-11-06 05:55 ./usr/share/doc/pymol/examples/
-rw-r--r-- root/root 496044 2013-06-11 22:37 ./usr/share/doc/pymol/examples/1tii.pdb
-rw-r--r-- root/root 138996 2013-06-11 22:37 ./usr/share/doc/pymol/examples/3al1.pdb
-rw-r--r-- root/root 25872 2013-06-11 22:37 ./usr/share/doc/pymol/examples/helix_amber.pdb
-rw-r--r-- root/root 168966 2013-06-11 22:37 ./usr/share/doc/pymol/examples/il2.pdb
-rw-r--r-- root/root 6826 2013-06-11 22:37 ./usr/share/doc/pymol/examples/names.pdb
-rw-r--r-- root/root 1537 2013-06-11 22:37 ./usr/share/doc/pymol/examples/odd01.pdb
-rw-r--r-- root/root 2772 2013-06-11 22:37 ./usr/share/doc/pymol/examples/odd02.pdb
-rw-r--r-- root/root 8457 2013-06-11 22:37 ./usr/share/doc/pymol/examples/pept.pdb
-rw-r--r-- root/root 4144 2013-06-11 22:37 ./usr/share/doc/pymol/examples/small02.pdb
-rw-r--r-- root/root 3305 2013-06-11 22:37 ./usr/share/doc/pymol/examples/tiny.pdb
-rw-r--r-- root/root 35752 2013-06-11 22:37 ./usr/share/doc/pymol/examples/water.pdb
-rw-r--r-- root/root 409 2013-06-11 22:38 ./usr/share/doc/pymol/examples/generate_amber.py
-rw-r--r-- root/root 757 2013-06-11 22:38 ./usr/share/doc/pymol/examples/generate_mmff.py
-rw-r--r-- root/root 1008 2013-06-11 22:38 ./usr/share/doc/pymol/examples/povray01.py
-rw-r--r-- root/root 107438 2013-11-06 05:55 ./usr/share/doc/pymol/pymol-ref-card.pdf.gz
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lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/fedora.py -> ../../../../../share/pyshared/pymol/wizard/fedora.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/annotation.py -> ../../../../../share/pyshared/pymol/wizard/annotation.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/pair_fit.py -> ../../../../../share/pyshared/pymol/wizard/pair_fit.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/box.py -> ../../../../../share/pyshared/pymol/wizard/box.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/charge.py -> ../../../../../share/pyshared/pymol/wizard/charge.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/filter.py -> ../../../../../share/pyshared/pymol/wizard/filter.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/distance.py -> ../../../../../share/pyshared/pymol/wizard/distance.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/dragging.py -> ../../../../../share/pyshared/pymol/wizard/dragging.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/benchmark.py -> ../../../../../share/pyshared/pymol/wizard/benchmark.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/message.py -> ../../../../../share/pyshared/pymol/wizard/message.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/demo.py -> ../../../../../share/pyshared/pymol/wizard/demo.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizard/measurement.py -> ../../../../../share/pyshared/pymol/wizard/measurement.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/plugins/__init__.py -> ../../../../../share/pyshared/pymol/plugins/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/plugins/installation.py -> ../../../../../share/pyshared/pymol/plugins/installation.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/plugins/repository.py -> ../../../../../share/pyshared/pymol/plugins/repository.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/plugins/managergui.py -> ../../../../../share/pyshared/pymol/plugins/managergui.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/plugins/legacysupport.py -> ../../../../../share/pyshared/pymol/plugins/legacysupport.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/compute_fog_color.fs -> ../../../../../../share/pyshared/pymol/data/shaders/compute_fog_color.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/anaglyph_header.fs -> ../../../../../../share/pyshared/pymol/data/shaders/anaglyph_header.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default_es.vs -> ../../../../../../share/pyshared/pymol/data/shaders/default_es.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default_es.fs -> ../../../../../../share/pyshared/pymol/data/shaders/default_es.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/sphere_arb_vs.vs -> ../../../../../../share/pyshared/pymol/data/shaders/sphere_arb_vs.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/sphere_arb_fs.fs -> ../../../../../../share/pyshared/pymol/data/shaders/sphere_arb_fs.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/anaglyph.fs -> ../../../../../../share/pyshared/pymol/data/shaders/anaglyph.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/screen.vs -> ../../../../../../share/pyshared/pymol/data/shaders/screen.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/screen.fs -> ../../../../../../share/pyshared/pymol/data/shaders/screen.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/defaultscreen.vs -> ../../../../../../share/pyshared/pymol/data/shaders/defaultscreen.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/defaultscreen.fs -> ../../../../../../share/pyshared/pymol/data/shaders/defaultscreen.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/label.vs -> ../../../../../../share/pyshared/pymol/data/shaders/label.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/label.fs -> ../../../../../../share/pyshared/pymol/data/shaders/label.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default.vs -> ../../../../../../share/pyshared/pymol/data/shaders/default.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default.fs -> ../../../../../../share/pyshared/pymol/data/shaders/default.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/cylinder.vs -> ../../../../../../share/pyshared/pymol/data/shaders/cylinder.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/cylinder.fs -> ../../../../../../share/pyshared/pymol/data/shaders/cylinder.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/cylinder_no_ff.fs -> ../../../../../../share/pyshared/pymol/data/shaders/cylinder_no_ff.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/call_compute_color_for_light.fs -> ../../../../../../share/pyshared/pymol/data/shaders/call_compute_color_for_light.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/compute_color_for_light.fs -> ../../../../../../share/pyshared/pymol/data/shaders/compute_color_for_light.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default_es2.vs -> ../../../../../../share/pyshared/pymol/data/shaders/default_es2.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default_es2.fs -> ../../../../../../share/pyshared/pymol/data/shaders/default_es2.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/sphere.vs -> ../../../../../../share/pyshared/pymol/data/shaders/sphere.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/sphere.fs -> ../../../../../../share/pyshared/pymol/data/shaders/sphere.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/shadertext.txt -> ../../../../../../share/pyshared/pymol/data/shaders/shadertext.txt
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/spheredirect.vs -> ../../../../../../share/pyshared/pymol/data/shaders/spheredirect.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/bg.vs -> ../../../../../../share/pyshared/pymol/data/shaders/bg.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/bg.fs -> ../../../../../../share/pyshared/pymol/data/shaders/bg.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/ramp.vs -> ../../../../../../share/pyshared/pymol/data/shaders/ramp.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/ramp.fs -> ../../../../../../share/pyshared/pymol/data/shaders/ramp.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/volume.vs -> ../../../../../../share/pyshared/pymol/data/shaders/volume.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/volume.fs -> ../../../../../../share/pyshared/pymol/data/shaders/volume.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/labelscreen.vs -> ../../../../../../share/pyshared/pymol/data/shaders/labelscreen.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/labelscreen.fs -> ../../../../../../share/pyshared/pymol/data/shaders/labelscreen.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/indicator.vs -> ../../../../../../share/pyshared/pymol/data/shaders/indicator.vs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/indicator.fs -> ../../../../../../share/pyshared/pymol/data/shaders/indicator.fs
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/commanding.py -> ../../../../share/pyshared/pymol/commanding.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/__init__.py -> ../../../../share/pyshared/pymol/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/exporting.py -> ../../../../share/pyshared/pymol/exporting.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/povray.py -> ../../../../share/pyshared/pymol/povray.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/shortcut.py -> ../../../../share/pyshared/pymol/shortcut.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/viewing.py -> ../../../../share/pyshared/pymol/viewing.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/querying.py -> ../../../../share/pyshared/pymol/querying.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/controlling.py -> ../../../../share/pyshared/pymol/controlling.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/computing.py -> ../../../../share/pyshared/pymol/computing.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/locking.py -> ../../../../share/pyshared/pymol/locking.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/keyboard.py -> ../../../../share/pyshared/pymol/keyboard.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/editing.py -> ../../../../share/pyshared/pymol/editing.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/util.py -> ../../../../share/pyshared/pymol/util.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/wizarding.py -> ../../../../share/pyshared/pymol/wizarding.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/keywords.py -> ../../../../share/pyshared/pymol/keywords.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/rpc.py -> ../../../../share/pyshared/pymol/rpc.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/vfont.py -> ../../../../share/pyshared/pymol/vfont.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/invocation.py -> ../../../../share/pyshared/pymol/invocation.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/movie.py -> ../../../../share/pyshared/pymol/movie.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/completing.py -> ../../../../share/pyshared/pymol/completing.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/setting.py -> ../../../../share/pyshared/pymol/setting.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/m4x.py -> ../../../../share/pyshared/pymol/m4x.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/gui.py -> ../../../../share/pyshared/pymol/gui.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/callback.py -> ../../../../share/pyshared/pymol/callback.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/constants.py -> ../../../../share/pyshared/pymol/constants.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/fitting.py -> ../../../../share/pyshared/pymol/fitting.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/feedingback.py -> ../../../../share/pyshared/pymol/feedingback.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/preset.py -> ../../../../share/pyshared/pymol/preset.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/cmd.py -> ../../../../share/pyshared/pymol/cmd.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/cgo.py -> ../../../../share/pyshared/pymol/cgo.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/api.py -> ../../../../share/pyshared/pymol/api.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/importing.py -> ../../../../share/pyshared/pymol/importing.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/selector.py -> ../../../../share/pyshared/pymol/selector.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/externing.py -> ../../../../share/pyshared/pymol/externing.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/menu.py -> ../../../../share/pyshared/pymol/menu.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/checking.py -> ../../../../share/pyshared/pymol/checking.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/constants_palette.py -> ../../../../share/pyshared/pymol/constants_palette.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/selecting.py -> ../../../../share/pyshared/pymol/selecting.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/monitoring.py -> ../../../../share/pyshared/pymol/monitoring.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/helping.py -> ../../../../share/pyshared/pymol/helping.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/colorramping.py -> ../../../../share/pyshared/pymol/colorramping.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/editor.py -> ../../../../share/pyshared/pymol/editor.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/xwin.py -> ../../../../share/pyshared/pymol/xwin.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/headering.py -> ../../../../share/pyshared/pymol/headering.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/parsing.py -> ../../../../share/pyshared/pymol/parsing.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/internal.py -> ../../../../share/pyshared/pymol/internal.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/xray.py -> ../../../../share/pyshared/pymol/xray.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/moving.py -> ../../../../share/pyshared/pymol/moving.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/parser.py -> ../../../../share/pyshared/pymol/parser.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/experimenting.py -> ../../../../share/pyshared/pymol/experimenting.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol/creating.py -> ../../../../share/pyshared/pymol/creating.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/bmin/realtime.py -> ../../../../../share/pyshared/chempy/bmin/realtime.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/bmin/__init__.py -> ../../../../../share/pyshared/chempy/bmin/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/bmin/util.py -> ../../../../../share/pyshared/chempy/bmin/util.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/bmin/state.py -> ../../../../../share/pyshared/chempy/bmin/state.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/bmin/commands.py -> ../../../../../share/pyshared/chempy/bmin/commands.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/fast/__init__.py -> ../../../../../share/pyshared/chempy/fast/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/champ/__init__.py -> ../../../../../share/pyshared/chempy/champ/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/champ/formal_charges.py -> ../../../../../share/pyshared/chempy/champ/formal_charges.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/champ/amber99.py -> ../../../../../share/pyshared/chempy/champ/amber99.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/champ/assign.py -> ../../../../../share/pyshared/chempy/champ/assign.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/tinker/keyword.py -> ../../../../../share/pyshared/chempy/tinker/keyword.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/tinker/realtime.py -> ../../../../../share/pyshared/chempy/tinker/realtime.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/tinker/__init__.py -> ../../../../../share/pyshared/chempy/tinker/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/tinker/amber.py -> ../../../../../share/pyshared/chempy/tinker/amber.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/tinker/state.py -> ../../../../../share/pyshared/chempy/tinker/state.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/fragments/__init__.py -> ../../../../../share/pyshared/chempy/fragments/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/bond_amber.py -> ../../../../share/pyshared/chempy/bond_amber.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/hetatm.py -> ../../../../share/pyshared/chempy/hetatm.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/__init__.py -> ../../../../share/pyshared/chempy/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/bonds.py -> ../../../../share/pyshared/chempy/bonds.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/gamess1.py -> ../../../../share/pyshared/chempy/gamess1.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/neighbor.py -> ../../../../share/pyshared/chempy/neighbor.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/dictdb.py -> ../../../../share/pyshared/chempy/dictdb.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/protein_amber.py -> ../../../../share/pyshared/chempy/protein_amber.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/xyz.py -> ../../../../share/pyshared/chempy/xyz.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/bond_mmff.py -> ../../../../share/pyshared/chempy/bond_mmff.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/place.py -> ../../../../share/pyshared/chempy/place.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/sdf.py -> ../../../../share/pyshared/chempy/sdf.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/protein_mmff.py -> ../../../../share/pyshared/chempy/protein_mmff.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/pkl.py -> ../../../../share/pyshared/chempy/pkl.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/pdb.py -> ../../../../share/pyshared/chempy/pdb.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/mol.py -> ../../../../share/pyshared/chempy/mol.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/mmd.py -> ../../../../share/pyshared/chempy/mmd.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/lst.py -> ../../../../share/pyshared/chempy/lst.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/map.py -> ../../../../share/pyshared/chempy/map.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/mae.py -> ../../../../share/pyshared/chempy/mae.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/solvate.py -> ../../../../share/pyshared/chempy/solvate.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/gms.py -> ../../../../share/pyshared/chempy/gms.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/water_amber.py -> ../../../../share/pyshared/chempy/water_amber.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/mol2.py -> ../../../../share/pyshared/chempy/mol2.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/cpv.py -> ../../../../share/pyshared/chempy/cpv.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/cif.py -> ../../../../share/pyshared/chempy/cif.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/cex.py -> ../../../../share/pyshared/chempy/cex.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/models.py -> ../../../../share/pyshared/chempy/models.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/water_residues.py -> ../../../../share/pyshared/chempy/water_residues.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/cc1.py -> ../../../../share/pyshared/chempy/cc1.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/arc.py -> ../../../../share/pyshared/chempy/arc.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/protein_residues.py -> ../../../../share/pyshared/chempy/protein_residues.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/mass.py -> ../../../../share/pyshared/chempy/mass.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/charge.py -> ../../../../share/pyshared/chempy/charge.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/protein_amber99.py -> ../../../../share/pyshared/chempy/protein_amber99.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/brick.py -> ../../../../share/pyshared/chempy/brick.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/io.py -> ../../../../share/pyshared/chempy/io.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/chempy/protein.py -> ../../../../share/pyshared/chempy/protein.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/demo/__init__.py -> ../../../../../../share/pyshared/pmg_tk/skins/demo/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/__init__.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/SimpleColorChooser.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/SimpleColorChooser.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/hist.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/hist.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/ColorMap.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/ColorMap.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/builder.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/builder.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/ColorRampModel.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/ColorRampModel.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/ModalWindow.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/ModalWindow.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/volume.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/volume.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/__init__.py -> ../../../../../share/pyshared/pmg_tk/skins/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/startup/__init__.py -> ../../../../../share/pyshared/pmg_tk/startup/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/startup/remote_pdb_load.py -> ../../../../../share/pyshared/pmg_tk/startup/remote_pdb_load.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/startup/apbs_tools.py -> ../../../../../share/pyshared/pmg_tk/startup/apbs_tools.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/__init__.py -> ../../../../share/pyshared/pmg_tk/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/PMGApp.py -> ../../../../share/pyshared/pmg_tk/PMGApp.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/ColorEditor.py -> ../../../../share/pyshared/pmg_tk/ColorEditor.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/SetEditor.py -> ../../../../share/pyshared/pmg_tk/SetEditor.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/Setting.py -> ../../../../share/pyshared/pmg_tk/Setting.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/Demo.py -> ../../../../share/pyshared/pmg_tk/Demo.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_tk/PyMOLMapLoad.py -> ../../../../share/pyshared/pmg_tk/PyMOLMapLoad.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pmg_wx/__init__.py -> ../../../../share/pyshared/pmg_wx/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol2/cmd2.py -> ../../../../share/pyshared/pymol2/cmd2.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol2/__init__.py -> ../../../../share/pyshared/pymol2/__init__.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol2/make_cmd2.py -> ../../../../share/pyshared/pymol2/make_cmd2.py
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/python2.7/dist-packages/pymol-1.6.0.0.egg-info -> ../../../share/pyshared/pymol-1.6.0.0.egg-info
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/pyshared/python2.7/pymol/opengl/gl/openglutil_num.so -> ../../../../../python2.7/dist-packages/pymol/opengl/gl/openglutil_num.so
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/pyshared/python2.7/pymol/opengl/gl/openglutil.so -> ../../../../../python2.7/dist-packages/pymol/opengl/gl/openglutil.so
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/pyshared/python2.7/pymol/opengl/gl/_opengl.so -> ../../../../../python2.7/dist-packages/pymol/opengl/gl/_opengl.so
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/pyshared/python2.7/pymol/opengl/gl/_opengl_num.so -> ../../../../../python2.7/dist-packages/pymol/opengl/gl/_opengl_num.so
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/pyshared/python2.7/pymol/opengl/glu/_glu.so -> ../../../../../python2.7/dist-packages/pymol/opengl/glu/_glu.so
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/pyshared/python2.7/pymol/opengl/glu/_glu_num.so -> ../../../../../python2.7/dist-packages/pymol/opengl/glu/_glu_num.so
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/pyshared/python2.7/pymol/opengl/glut/_glut.so -> ../../../../../python2.7/dist-packages/pymol/opengl/glut/_glut.so
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/pyshared/python2.7/pymol/_cmd.so -> ../../../python2.7/dist-packages/pymol/_cmd.so
lrwxrwxrwx root/root 0 2013-11-06 05:55 ./usr/lib/pyshared/python2.7/chempy/champ/_champ.so -> ../../../../python2.7/dist-packages/chempy/champ/_champ.so
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: armhf
Build-Space: 114896
Build-Time: 613
Distribution: jessie-staging
Host Architecture: armhf
Install-Time: 753
Job: pymol_1.6.0.0-1.1
Machine Architecture: armhf
Package: pymol
Package-Time: 1436
Source-Version: 1.6.0.0-1.1
Space: 114896
Status: successful
Version: 1.6.0.0-1.1
────────────────────────────────────────────────────────────────────────────────
Finished at 20131106-0556
Build needed 00:23:56, 114896k disc space