pdb2pqr →
2.1.1+dfsg-7+deb11u1 →
armhf → 2022-03-27 01:56:12
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-03
+==============================================================================+
| pdb2pqr 2.1.1+dfsg-7+deb11u1 (armhf) Sun, 27 Mar 2022 01:19:53 +0000 |
+==============================================================================+
Package: pdb2pqr
Version: 2.1.1+dfsg-7+deb11u1
Source Version: 2.1.1+dfsg-7+deb11u1
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-f99402b8-6e7d-45ff-a083-b52d39899187' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private bullseye-staging/main Sources [12.2 MB]
Get:3 http://172.17.4.1/private bullseye-staging/main armhf Packages [13.2 MB]
Fetched 25.5 MB in 25s (1013 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'pdb2pqr' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/pdb2pqr.git
Please use:
git clone https://salsa.debian.org/med-team/pdb2pqr.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 5261 kB of source archives.
Get:1 http://172.17.4.1/private bullseye-staging/main pdb2pqr 2.1.1+dfsg-7+deb11u1 (dsc) [2342 B]
Get:2 http://172.17.4.1/private bullseye-staging/main pdb2pqr 2.1.1+dfsg-7+deb11u1 (tar) [5191 kB]
Get:3 http://172.17.4.1/private bullseye-staging/main pdb2pqr 2.1.1+dfsg-7+deb11u1 (diff) [67.5 kB]
Fetched 5261 kB in 1s (8744 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/pdb2pqr-gQwss5/pdb2pqr-2.1.1+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/pdb2pqr-gQwss5' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-WL26Z4/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-WL26Z4/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-WL26Z4/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ Packages [432 B]
Fetched 2108 B in 1s (2774 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
bsdextrautils libnss-nis libnss-nisplus netbase sensible-utils
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 36 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (22.6 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12546 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), dh-python, gfortran, swig, xmlto, openbabel, python3-dev, python3-numpy, scons (>= 3.1.1-4), dos2unix, pkg-config
Filtered Build-Depends: debhelper-compat (= 12), dh-python, gfortran, swig, xmlto, openbabel, python3-dev, python3-numpy, scons (>= 3.1.1-4), dos2unix, pkg-config
dpkg-deb: building package 'sbuild-build-depends-pdb2pqr-dummy' in '/<<BUILDDIR>>/resolver-WL26Z4/apt_archive/sbuild-build-depends-pdb2pqr-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-pdb2pqr-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ Sources [567 B]
Get:5 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ Packages [648 B]
Fetched 2548 B in 1s (3473 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install pdb2pqr build dependencies (apt-based resolver)
-------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
libnss-nis libnss-nisplus netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev debhelper dh-autoreconf dh-python
dh-strip-nondeterminism docbook-xml docbook-xsl dos2unix dwz file
fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
gfortran-10 groff-base intltool-debian libarchive-zip-perl libblas3
libboost-iostreams1.71.0 libbrotli1 libbsd0 libcairo2 libdebhelper-perl
libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl
libfontconfig1 libfreetype6 libgfortran-10-dev libgfortran5 libglib2.0-0
libicu67 libinchi1 libjs-jquery libjs-sphinxdoc libjs-underscore liblapack3
libmaeparser1 libmagic-mgc libmagic1 libmd0 libmpdec3 libopenbabel7
libpipeline1 libpixman-1-0 libpng16-16 libpython3-dev libpython3-stdlib
libpython3.9 libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib
libsigsegv2 libsub-override-perl libtool libuchardet0 libx11-6 libx11-data
libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2
libxml2-utils libxrender1 libxslt1.1 m4 man-db media-types openbabel
pkg-config po-debconf python3 python3-dev python3-distutils python3-lib2to3
python3-minimal python3-numpy python3-pkg-resources python3.9 python3.9-dev
python3.9-minimal scons sgml-base sgml-data swig swig4.0 ucf xml-core xmlto
xsltproc zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc dh-make docbook docbook-dsssl
docbook-defguide dbtoepub docbook-xsl-doc-html | docbook-xsl-doc-pdf
| docbook-xsl-doc-text | docbook-xsl-doc docbook-xsl-saxon fop libsaxon-java
libxalan2-java libxslthl-java xalan gettext-doc libasprintf-dev
libgettextpo-dev gfortran-doc gfortran-10-doc libcoarrays-dev groff
libtool-doc gcj-jdk m4-doc apparmor less www-browser libmail-box-perl
python3-doc python3-tk python3-venv python-numpy-doc python3-numpy-dbg
python3-pytest python3-setuptools python3.9-venv python3.9-doc
binfmt-support sgml-base-doc perlsgml w3-recs opensp swig-doc swig-examples
swig4.0-examples swig4.0-doc w3m | lynx-cur | links texlive-htmlxml
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs javascript-common ca-certificates libltdl-dev
libmail-sendmail-perl dblatex | fop libpaper-utils zip
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev debhelper dh-autoreconf dh-python
dh-strip-nondeterminism docbook-xml docbook-xsl dos2unix dwz file
fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
gfortran-10 groff-base intltool-debian libarchive-zip-perl libblas3
libboost-iostreams1.71.0 libbrotli1 libbsd0 libcairo2 libdebhelper-perl
libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl
libfontconfig1 libfreetype6 libgfortran-10-dev libgfortran5 libglib2.0-0
libicu67 libinchi1 libjs-jquery libjs-sphinxdoc libjs-underscore liblapack3
libmaeparser1 libmagic-mgc libmagic1 libmd0 libmpdec3 libopenbabel7
libpipeline1 libpixman-1-0 libpng16-16 libpython3-dev libpython3-stdlib
libpython3.9 libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib
libsigsegv2 libsub-override-perl libtool libuchardet0 libx11-6 libx11-data
libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2
libxml2-utils libxrender1 libxslt1.1 m4 man-db media-types openbabel
pkg-config po-debconf python3 python3-dev python3-distutils python3-lib2to3
python3-minimal python3-numpy python3-pkg-resources python3.9 python3.9-dev
python3.9-minimal sbuild-build-depends-pdb2pqr-dummy scons sgml-base
sgml-data swig swig4.0 ucf xml-core xmlto xsltproc zlib1g-dev
0 upgraded, 101 newly installed, 0 to remove and 36 not upgraded.
Need to get 55.3 MB/55.5 MB of archives.
After this operation, 218 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-WL26Z4/apt_archive ./ sbuild-build-depends-pdb2pqr-dummy 0.invalid.0 [932 B]
Get:2 http://172.17.4.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:3 http://172.17.4.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-6 [793 kB]
Get:4 http://172.17.4.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.3-1 [29.9 kB]
Get:5 http://172.17.4.1/private bullseye-staging/main armhf man-db armhf 2.9.4-2 [1307 kB]
Get:6 http://172.17.4.1/private bullseye-staging/main armhf libpython3.9-minimal armhf 3.9.2-1+rpi1 [791 kB]
Get:7 http://172.17.4.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.10-2+deb11u2 [74.6 kB]
Get:8 http://172.17.4.1/private bullseye-staging/main armhf python3.9-minimal armhf 3.9.2-1+rpi1 [1625 kB]
Get:9 http://172.17.4.1/private bullseye-staging/main armhf python3-minimal armhf 3.9.2-3 [38.2 kB]
Get:10 http://172.17.4.1/private bullseye-staging/main armhf media-types all 4.0.0 [30.3 kB]
Get:11 http://172.17.4.1/private bullseye-staging/main armhf libmpdec3 armhf 2.5.1-1+rpi1 [73.4 kB]
Get:12 http://172.17.4.1/private bullseye-staging/main armhf libpython3.9-stdlib armhf 3.9.2-1+rpi1 [1616 kB]
Get:13 http://172.17.4.1/private bullseye-staging/main armhf python3.9 armhf 3.9.2-1+rpi1 [466 kB]
Get:14 http://172.17.4.1/private bullseye-staging/main armhf libpython3-stdlib armhf 3.9.2-3 [21.4 kB]
Get:15 http://172.17.4.1/private bullseye-staging/main armhf python3 armhf 3.9.2-3 [37.9 kB]
Get:16 http://172.17.4.1/private bullseye-staging/main armhf sgml-base all 1.30 [15.1 kB]
Get:17 http://172.17.4.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB]
Get:18 http://172.17.4.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.39-3 [117 kB]
Get:19 http://172.17.4.1/private bullseye-staging/main armhf file armhf 1:5.39-3 [68.0 kB]
Get:20 http://172.17.4.1/private bullseye-staging/main armhf gettext-base armhf 0.21-4 [171 kB]
Get:21 http://172.17.4.1/private bullseye-staging/main armhf ucf all 3.0043 [74.0 kB]
Get:22 http://172.17.4.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.13-1 [34.3 kB]
Get:23 http://172.17.4.1/private bullseye-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:24 http://172.17.4.1/private bullseye-staging/main armhf autoconf all 2.69-14 [313 kB]
Get:25 http://172.17.4.1/private bullseye-staging/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get:26 http://172.17.4.1/private bullseye-staging/main armhf automake all 1:1.16.3-2 [814 kB]
Get:27 http://172.17.4.1/private bullseye-staging/main armhf autopoint all 0.21-4 [510 kB]
Get:28 http://172.17.4.1/private bullseye-staging/main armhf libdebhelper-perl all 13.3.4 [189 kB]
Get:29 http://172.17.4.1/private bullseye-staging/main armhf libtool all 2.4.6-15 [513 kB]
Get:30 http://172.17.4.1/private bullseye-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:31 http://172.17.4.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:32 http://172.17.4.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:33 http://172.17.4.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB]
Get:34 http://172.17.4.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.12.0-1 [15.4 kB]
Get:35 http://172.17.4.1/private bullseye-staging/main armhf libelf1 armhf 0.183-1 [161 kB]
Get:36 http://172.17.4.1/private bullseye-staging/main armhf dwz armhf 0.13+20210201-1 [164 kB]
Get:37 http://172.17.4.1/private bullseye-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:38 http://172.17.4.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-6.7 [580 kB]
Get:39 http://172.17.4.1/private bullseye-staging/main armhf gettext armhf 0.21-4 [1215 kB]
Get:40 http://172.17.4.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:41 http://172.17.4.1/private bullseye-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:42 http://172.17.4.1/private bullseye-staging/main armhf debhelper all 13.3.4 [1049 kB]
Get:43 http://172.17.4.1/private bullseye-staging/main armhf python3-lib2to3 all 3.9.2-1 [77.8 kB]
Get:44 http://172.17.4.1/private bullseye-staging/main armhf python3-distutils all 3.9.2-1 [143 kB]
Get:45 http://172.17.4.1/private bullseye-staging/main armhf dh-python all 4.20201102+nmu1 [99.4 kB]
Get:46 http://172.17.4.1/private bullseye-staging/main armhf xml-core all 0.18+nmu1 [23.8 kB]
Get:47 http://172.17.4.1/private bullseye-staging/main armhf sgml-data all 2.0.11+nmu1 [179 kB]
Get:48 http://172.17.4.1/private bullseye-staging/main armhf docbook-xml all 4.5-9 [84.4 kB]
Get:49 http://172.17.4.1/private bullseye-staging/main armhf docbook-xsl all 1.79.2+dfsg-1 [1237 kB]
Get:50 http://172.17.4.1/private bullseye-staging/main armhf dos2unix armhf 7.4.1-1 [387 kB]
Get:51 http://172.17.4.1/private bullseye-staging/main armhf fonts-dejavu-core all 2.37-2 [1069 kB]
Get:52 http://172.17.4.1/private bullseye-staging/main armhf fontconfig-config all 2.13.1-4.2 [281 kB]
Get:53 http://172.17.4.1/private bullseye-staging/main armhf libgfortran5 armhf 10.2.1-6+rpi1 [232 kB]
Get:54 http://172.17.4.1/private bullseye-staging/main armhf libgfortran-10-dev armhf 10.2.1-6+rpi1 [278 kB]
Get:55 http://172.17.4.1/private bullseye-staging/main armhf gfortran-10 armhf 10.2.1-6+rpi1 [7195 kB]
Get:56 http://172.17.4.1/private bullseye-staging/main armhf gfortran armhf 4:10.2.1-1+rpi1 [1428 B]
Get:57 http://172.17.4.1/private bullseye-staging/main armhf libblas3 armhf 3.9.0-3 [108 kB]
Get:58 http://172.17.4.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:59 http://172.17.4.1/private bullseye-staging/main armhf libmd0 armhf 1.0.3-3 [27.2 kB]
Get:60 http://172.17.4.1/private bullseye-staging/main armhf libbsd0 armhf 0.11.3-1 [103 kB]
Get:61 http://172.17.4.1/private bullseye-staging/main armhf libpng16-16 armhf 1.6.37-3 [276 kB]
Get:62 http://172.17.4.1/private bullseye-staging/main armhf libfreetype6 armhf 2.10.4+dfsg-1 [353 kB]
Get:63 http://172.17.4.1/private bullseye-staging/main armhf libfontconfig1 armhf 2.13.1-4.2 [328 kB]
Get:64 http://172.17.4.1/private bullseye-staging/main armhf libpixman-1-0 armhf 0.40.0-1 [463 kB]
Get:65 http://172.17.4.1/private bullseye-staging/main armhf libxau6 armhf 1:1.0.9-1 [19.1 kB]
Get:66 http://172.17.4.1/private bullseye-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:67 http://172.17.4.1/private bullseye-staging/main armhf libxcb1 armhf 1.14-3 [136 kB]
Get:68 http://172.17.4.1/private bullseye-staging/main armhf libx11-data all 2:1.7.2-1 [311 kB]
Get:69 http://172.17.4.1/private bullseye-staging/main armhf libx11-6 armhf 2:1.7.2-1 [705 kB]
Get:70 http://172.17.4.1/private bullseye-staging/main armhf libxcb-render0 armhf 1.14-3 [110 kB]
Get:71 http://172.17.4.1/private bullseye-staging/main armhf libxcb-shm0 armhf 1.14-3 [101 kB]
Get:72 http://172.17.4.1/private bullseye-staging/main armhf libxext6 armhf 2:1.3.3-1.1 [47.8 kB]
Get:73 http://172.17.4.1/private bullseye-staging/main armhf libxrender1 armhf 1:0.9.10-1 [29.9 kB]
Get:74 http://172.17.4.1/private bullseye-staging/main armhf libcairo2 armhf 1.16.0-5 [602 kB]
Get:75 http://172.17.4.1/private bullseye-staging/main armhf libexpat1-dev armhf 2.2.10-2+deb11u2 [122 kB]
Get:76 http://172.17.4.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.66.8-1 [1183 kB]
Get:77 http://172.17.4.1/private bullseye-staging/main armhf libinchi1 armhf 1.03+dfsg-3 [351 kB]
Get:78 http://172.17.4.1/private bullseye-staging/main armhf libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB]
Get:79 http://172.17.4.1/private bullseye-staging/main armhf libjs-underscore all 1.9.1~dfsg-3 [100 kB]
Get:80 http://172.17.4.1/private bullseye-staging/main armhf libjs-sphinxdoc all 3.4.3-2 [127 kB]
Get:81 http://172.17.4.1/private bullseye-staging/main armhf liblapack3 armhf 3.9.0-3 [1597 kB]
Get:82 http://172.17.4.1/private bullseye-staging/main armhf libmaeparser1 armhf 1.2.4-1 [76.1 kB]
Get:83 http://172.17.4.1/private bullseye-staging/main armhf libopenbabel7 armhf 3.1.1+dfsg-6 [2775 kB]
Get:84 http://172.17.4.1/private bullseye-staging/main armhf libpython3.9 armhf 3.9.2-1+rpi1 [1413 kB]
Get:85 http://172.17.4.1/private bullseye-staging/main armhf libpython3.9-dev armhf 3.9.2-1+rpi1 [3055 kB]
Get:86 http://172.17.4.1/private bullseye-staging/main armhf libpython3-dev armhf 3.9.2-3 [21.7 kB]
Get:87 http://172.17.4.1/private bullseye-staging/main armhf libxml2-utils armhf 2.9.10+dfsg-6.7 [105 kB]
Get:88 http://172.17.4.1/private bullseye-staging/main armhf libxslt1.1 armhf 1.1.34-4 [218 kB]
Get:89 http://172.17.4.1/private bullseye-staging/main armhf openbabel armhf 3.1.1+dfsg-6 [128 kB]
Get:90 http://172.17.4.1/private bullseye-staging/main armhf pkg-config armhf 0.29.2-1 [61.5 kB]
Get:91 http://172.17.4.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:92 http://172.17.4.1/private bullseye-staging/main armhf python3.9-dev armhf 3.9.2-1+rpi1 [501 kB]
Get:93 http://172.17.4.1/private bullseye-staging/main armhf python3-dev armhf 3.9.2-3 [24.8 kB]
Get:94 http://172.17.4.1/private bullseye-staging/main armhf python3-pkg-resources all 52.0.0-4 [190 kB]
Get:95 http://172.17.4.1/private bullseye-staging/main armhf python3-numpy armhf 1:1.19.5-1 [2930 kB]
Get:96 http://172.17.4.1/private bullseye-staging/main armhf scons all 4.0.1+dfsg-2 [559 kB]
Get:97 http://172.17.4.1/private bullseye-staging/main armhf swig4.0 armhf 4.0.2-1 [1221 kB]
Get:98 http://172.17.4.1/private bullseye-staging/main armhf swig all 4.0.2-1 [330 kB]
Get:99 http://172.17.4.1/private bullseye-staging/main armhf xsltproc armhf 1.1.34-4 [123 kB]
Get:100 http://172.17.4.1/private bullseye-staging/main armhf xmlto armhf 0.0.28-2.1 [32.1 kB]
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Setting up dos2unix (7.4.1-1) ...
Setting up libjs-jquery (3.5.1+dfsg+~3.5.5-7) ...
Setting up swig4.0 (4.0.2-1) ...
Setting up libbsd0:armhf (0.11.3-1) ...
Setting up libelf1:armhf (0.183-1) ...
Setting up libxml2:armhf (2.9.10+dfsg-6.7) ...
Setting up libpython3.9-stdlib:armhf (3.9.2-1+rpi1) ...
Setting up libpython3-stdlib:armhf (3.9.2-3) ...
Setting up libjs-underscore (1.9.1~dfsg-3) ...
Setting up libinchi1 (1.03+dfsg-3) ...
Setting up libfile-stripnondeterminism-perl (1.12.0-1) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up liblapack3:armhf (3.9.0-3) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up libxcb1:armhf (1.14-3) ...
Setting up gettext (0.21-4) ...
Setting up swig (4.0.2-1) ...
Setting up libtool (2.4.6-15) ...
Setting up libxcb-render0:armhf (1.14-3) ...
Setting up fontconfig-config (2.13.1-4.2) ...
Setting up m4 (1.4.18-5) ...
Setting up libxcb-shm0:armhf (1.14-3) ...
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libpython3.9:armhf (3.9.2-1+rpi1) ...
Setting up libfreetype6:armhf (2.10.4+dfsg-1) ...
Setting up gfortran-10 (10.2.1-6+rpi1) ...
Setting up libjs-sphinxdoc (3.4.3-2) ...
Setting up autoconf (2.69-14) ...
Setting up dh-strip-nondeterminism (1.12.0-1) ...
Setting up dwz (0.13+20210201-1) ...
Setting up groff-base (1.22.4-6) ...
Setting up xml-core (0.18+nmu1) ...
Setting up libxslt1.1:armhf (1.1.34-4) ...
Setting up libx11-6:armhf (2:1.7.2-1) ...
Setting up libfontconfig1:armhf (2.13.1-4.2) ...
Setting up libxml2-utils (2.9.10+dfsg-6.7) ...
Setting up python3.9 (3.9.2-1+rpi1) ...
Setting up automake (1:1.16.3-2) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libxrender1:armhf (1:0.9.10-1) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up xsltproc (1.1.34-4) ...
Setting up libxext6:armhf (2:1.3.3-1.1) ...
Setting up libpython3.9-dev:armhf (3.9.2-1+rpi1) ...
Setting up python3 (3.9.2-3) ...
Setting up man-db (2.9.4-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up gfortran (4:10.2.1-1+rpi1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up libcairo2:armhf (1.16.0-5) ...
Setting up dh-autoreconf (20) ...
Setting up python3.9-dev (3.9.2-1+rpi1) ...
Setting up python3-lib2to3 (3.9.2-1) ...
Setting up python3-pkg-resources (52.0.0-4) ...
Setting up python3-distutils (3.9.2-1) ...
Setting up dh-python (4.20201102+nmu1) ...
Setting up libpython3-dev:armhf (3.9.2-3) ...
Setting up libopenbabel7 (3.1.1+dfsg-6) ...
Setting up debhelper (13.3.4) ...
Setting up python3-dev (3.9.2-3) ...
Setting up scons (4.0.1+dfsg-2) ...
Setting up python3-numpy (1:1.19.5-1) ...
Setting up openbabel (3.1.1+dfsg-6) ...
Processing triggers for libc-bin (2.31-13+rpi1) ...
Processing triggers for sgml-base (1.30) ...
Setting up docbook-xsl (1.79.2+dfsg-1) ...
Setting up sgml-data (2.0.11+nmu1) ...
Processing triggers for sgml-base (1.30) ...
Setting up docbook-xml (4.5-9) ...
Processing triggers for sgml-base (1.30) ...
Setting up xmlto (0.0.28-2.1) ...
Setting up sbuild-build-depends-pdb2pqr-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.2-armmp armhf (armv7l)
Toolchain package versions: binutils_2.35.2-2+rpi1 dpkg-dev_1.20.9+rpi1 g++-10_10.2.1-6+rpi1 gcc-10_10.2.1-6+rpi1 libc6-dev_2.31-13+rpi1 libstdc++-10-dev_10.2.1-6+rpi1 libstdc++6_10.2.1-6+rpi1 linux-libc-dev_5.10.46-4+rpi1
Package versions: adduser_3.118 apt_2.2.4 autoconf_2.69-14 automake_1:1.16.3-2 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_11.1+rpi1 base-passwd_3.5.51 bash_5.1-2 binutils_2.35.2-2+rpi1 binutils-arm-linux-gnueabihf_2.35.2-2+rpi1 binutils-common_2.35.2-2+rpi1 bsdextrautils_2.36.1-8 bsdutils_1:2.36.1-8 build-essential_12.9 bzip2_1.0.8-4 coreutils_8.32-4 cpp_4:10.2.1-1+rpi1 cpp-10_10.2.1-6+rpi1 dash_0.5.11+git20200708+dd9ef66-5 debconf_1.5.77 debhelper_13.3.4 debianutils_4.11.2 dh-autoreconf_20 dh-python_4.20201102+nmu1 dh-strip-nondeterminism_1.12.0-1 diffutils_1:3.7-5 dirmngr_2.2.27-2 docbook-xml_4.5-9 docbook-xsl_1.79.2+dfsg-1 dos2unix_7.4.1-1 dpkg_1.20.9+rpi1 dpkg-dev_1.20.9+rpi1 dwz_0.13+20210201-1 e2fsprogs_1.46.2-2 fakeroot_1.25.3-1.1 fdisk_2.36.1-8 file_1:5.39-3 findutils_4.8.0-1 fontconfig-config_2.13.1-4.2 fonts-dejavu-core_2.37-2 g++_4:10.2.1-1+rpi1 g++-10_10.2.1-6+rpi1 gcc_4:10.2.1-1+rpi1 gcc-10_10.2.1-6+rpi1 gcc-10-base_10.2.1-6+rpi1 gcc-6-base_6.5.0-1+rpi3 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gettext_0.21-4 gettext-base_0.21-4 gfortran_4:10.2.1-1+rpi1 gfortran-10_10.2.1-6+rpi1 gnupg_2.2.27-2 gnupg-l10n_2.2.27-2 gnupg-utils_2.2.27-2 gpg_2.2.27-2 gpg-agent_2.2.27-2 gpg-wks-client_2.2.27-2 gpg-wks-server_2.2.27-2 gpgconf_2.2.27-2 gpgsm_2.2.27-2 gpgv_2.2.27-2 grep_3.6-1 groff-base_1.22.4-6 gzip_1.10-4 hostname_3.23 init-system-helpers_1.60 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-10 libapt-pkg6.0_2.2.4 libarchive-zip-perl_1.68-1 libasan6_10.2.1-6+rpi1 libassuan0_2.5.3-7.1 libatomic1_10.2.1-6+rpi1 libattr1_1:2.4.48-6 libaudit-common_1:3.0-2 libaudit1_1:3.0-2 libbinutils_2.35.2-2+rpi1 libblas3_3.9.0-3 libblkid1_2.36.1-8 libboost-iostreams1.71.0_1.71.0-7+b1 libbrotli1_1.0.9-2+b1 libbsd0_0.11.3-1 libbz2-1.0_1.0.8-4 libc-bin_2.31-13+rpi1 libc-dev-bin_2.31-13+rpi1 libc6_2.31-13+rpi1 libc6-dev_2.31-13+rpi1 libcairo2_1.16.0-5 libcap-ng0_0.7.9-2.2+b1 libcc1-0_10.2.1-6+rpi1 libcom-err2_1.46.2-2 libcrypt-dev_1:4.4.18-4 libcrypt1_1:4.4.18-4 libctf-nobfd0_2.35.2-2+rpi1 libctf0_2.35.2-2+rpi1 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.260 libdebhelper-perl_13.3.4 libdpkg-perl_1.20.9+rpi1 libelf1_0.183-1 libexpat1_2.2.10-2+deb11u2 libexpat1-dev_2.2.10-2+deb11u2 libext2fs2_1.46.2-2 libfakeroot_1.25.3-1.1 libfdisk1_2.36.1-8 libffi7_3.3-6 libfile-stripnondeterminism-perl_1.12.0-1 libfontconfig1_2.13.1-4.2 libfreetype6_2.10.4+dfsg-1 libgcc-10-dev_10.2.1-6+rpi1 libgcc-s1_10.2.1-6+rpi1 libgcrypt20_1.8.7-6 libgdbm-compat4_1.19-2 libgdbm6_1.19-2 libgfortran-10-dev_10.2.1-6+rpi1 libgfortran5_10.2.1-6+rpi1 libglib2.0-0_2.66.8-1 libgmp10_2:6.2.1+dfsg-1 libgnutls30_3.7.1-5 libgomp1_10.2.1-6+rpi1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.18.3-6 libhogweed6_3.7.3-1 libicu67_67.1-7 libidn2-0_2.3.0-5 libinchi1_1.03+dfsg-3 libisl23_0.23-1 libjs-jquery_3.5.1+dfsg+~3.5.5-7 libjs-sphinxdoc_3.4.3-2 libjs-underscore_1.9.1~dfsg-3 libk5crypto3_1.18.3-6 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-6 libkrb5support0_1.18.3-6 libksba8_1.5.0-3 liblapack3_3.9.0-3 libldap-2.4-2_2.4.57+dfsg-3 libldap-common_2.4.57+dfsg-3 liblz4-1_1.9.3-2 liblzma5_5.2.5-2 libmaeparser1_1.2.4-1 libmagic-mgc_1:5.39-3 libmagic1_1:5.39-3 libmd0_1.0.3-3 libmount1_2.36.1-8 libmpc3_1.2.0-1 libmpdec3_2.5.1-1+rpi1 libmpfr6_4.1.0-3 libncursesw6_6.2+20201114-2 libnettle8_3.7.3-1 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libnss-nis_3.1-4 libnss-nisplus_1.3-4 libopenbabel7_3.1.1+dfsg-6 libp11-kit0_0.23.22-1 libpam-modules_1.4.0-9 libpam-modules-bin_1.4.0-9 libpam-runtime_1.4.0-9 libpam0g_1.4.0-9 libpcre2-8-0_10.36-2 libpcre3_2:8.39-13 libperl5.32_5.32.1-4+deb11u1 libpipeline1_1.5.3-1 libpixman-1-0_0.40.0-1 libpng16-16_1.6.37-3 libpython3-dev_3.9.2-3 libpython3-stdlib_3.9.2-3 libpython3.9_3.9.2-1+rpi1 libpython3.9-dev_3.9.2-1+rpi1 libpython3.9-minimal_3.9.2-1+rpi1 libpython3.9-stdlib_3.9.2-1+rpi1 libreadline8_8.1-1 libsasl2-2_2.1.27+dfsg-2.1 libsasl2-modules-db_2.1.27+dfsg-2.1 libseccomp2_2.5.1-1+rpi1 libselinux1_3.1-3 libsemanage-common_3.1-1 libsemanage1_3.1-1+b1 libsepol1_3.1-1 libsigsegv2_2.13-1 libsmartcols1_2.36.1-8 libsqlite3-0_3.34.1-3 libss2_1.46.2-2 libssl1.1_1.1.1k-1+deb11u1 libstdc++-10-dev_10.2.1-6+rpi1 libstdc++6_10.2.1-6+rpi1 libsub-override-perl_0.09-2 libsystemd0_247.3-6+rpi1 libtasn1-6_4.16.0-2 libtinfo6_6.2+20201114-2 libtirpc-common_1.3.1-1 libtirpc-dev_1.3.1-1 libtirpc3_1.3.1-1 libtool_2.4.6-15 libubsan1_10.2.1-6+rpi1 libuchardet0_0.0.7-1 libudev1_247.3-6+rpi1 libunistring2_0.9.10-4 libuuid1_2.36.1-8 libx11-6_2:1.7.2-1 libx11-data_2:1.7.2-1 libxau6_1:1.0.9-1 libxcb-render0_1.14-3 libxcb-shm0_1.14-3 libxcb1_1.14-3 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1.1 libxml2_2.9.10+dfsg-6.7 libxml2-utils_2.9.10+dfsg-6.7 libxrender1_1:0.9.10-1 libxslt1.1_1.1.34-4 libxxhash0_0.8.0-2+rpi1 libzstd1_1.4.8+dfsg-2.1+rpi1 linux-libc-dev_5.10.46-4+rpi1 login_1:4.8.1-1 logsave_1.46.2-2 lsb-base_11.1.0+rpi1 m4_1.4.18-5 make_4.3-4.1 man-db_2.9.4-2 mawk_1.3.4.20200120-2 media-types_4.0.0 mount_2.36.1-8 ncurses-base_6.2+20201114-2 ncurses-bin_6.2+20201114-2 netbase_6.3 openbabel_3.1.1+dfsg-6 passwd_1:4.8.1-1 patch_2.7.6-7 perl_5.32.1-4+deb11u1 perl-base_5.32.1-4+deb11u1 perl-modules-5.32_5.32.1-4+deb11u1 pinentry-curses_1.1.0-4 pkg-config_0.29.2-1 po-debconf_1.0.21+nmu1 python3_3.9.2-3 python3-dev_3.9.2-3 python3-distutils_3.9.2-1 python3-lib2to3_3.9.2-1 python3-minimal_3.9.2-3 python3-numpy_1:1.19.5-1 python3-pkg-resources_52.0.0-4 python3.9_3.9.2-1+rpi1 python3.9-dev_3.9.2-1+rpi1 python3.9-minimal_3.9.2-1+rpi1 raspbian-archive-keyring_20120528.2 readline-common_8.1-1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-pdb2pqr-dummy_0.invalid.0 scons_4.0.1+dfsg-2 sed_4.7-1 sensible-utils_0.0.14 sgml-base_1.30 sgml-data_2.0.11+nmu1 swig_4.0.2-1 swig4.0_4.0.2-1 sysvinit-utils_2.96-7 tar_1.34+dfsg-1 tzdata_2021a-1 ucf_3.0043 util-linux_2.36.1-8 xml-core_0.18+nmu1 xmlto_0.0.28-2.1 xsltproc_1.1.34-4 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.xyQLPegV/trustedkeys.kbx': General error
gpgv: Signature made Sat Feb 19 18:48:53 2022 UTC
gpgv: using RSA key 772292F6F7AC85FAE041D41EE5F43F9C2734F287
gpgv: issuer "merkys@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./pdb2pqr_2.1.1+dfsg-7+deb11u1.dsc
dpkg-source: info: extracting pdb2pqr in /<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg
dpkg-source: info: unpacking pdb2pqr_2.1.1+dfsg.orig.tar.xz
dpkg-source: info: unpacking pdb2pqr_2.1.1+dfsg-7+deb11u1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying fix-hashbangs.patch
dpkg-source: info: applying no_privacy_breach_logo.patch
dpkg-source: info: applying do_not_try_to_build_removed_js_target.patch
dpkg-source: info: applying fix_hardening_no_relro
dpkg-source: info: applying fix_no_debug_symbols_warning
dpkg-source: info: applying spelling.patch
dpkg-source: info: applying python3_PR516.patch
dpkg-source: info: applying python3_scons.patch
dpkg-source: info: applying python3_sundry.patch
dpkg-source: info: applying python3_scriptbang.patch
dpkg-source: info: applying use_pkg-config.patch
dpkg-source: info: applying reproducible-build.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
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-f99402b8-6e7d-45ff-a083-b52d39899187
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package pdb2pqr
dpkg-buildpackage: info: source version 2.1.1+dfsg-7+deb11u1
dpkg-buildpackage: info: source distribution bullseye
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --with python3
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
( cd pdb2pka && \
if [ -e pMC_mult_wrap.cpp.saved ]; then mv pMC_mult_wrap.cpp.saved pMC_mult_wrap.cpp; fi && \
if [ -e pMC_mult.py.saved ]; then mv pMC_mult.py.saved pMC_mult.py; fi )
find . -name *.pyc -delete
find . -name *.so -delete
find . -name *.os -delete
rm -f *.cgi .sconsign.dblite .variables.cache pdb2pqr.py html/server.html src/aconf.py
dh_auto_clean
make[1]: Leaving directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_clean
debian/rules binary-arch
dh binary-arch --with python3
dh_update_autotools_config -a
dh_autoreconf -a
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_auto_configure
( cd pdb2pka && \
cp -a pMC_mult_wrap.cpp pMC_mult_wrap.cpp.saved && \
cp -a pMC_mult.py pMC_mult.py.saved && \
swig -c++ -python -o pMC_mult_wrap.cpp pMC_mult.i )
scons \
URL="http://localhost/pdb2pqr/" \
PREFIX="/usr/share/pdb2pqr"
scons: Reading SConscript files ...
not using opal
scons: done reading SConscript files.
scons: Building targets ...
CopySubAction("pdb2pqr.py", "pdb2pqr.py.in")
Chmod("pdb2pqr.py", 0755)
CopySubAction("apbs_cgi.cgi", "apbs_cgi.py")
Chmod("apbs_cgi.cgi", 0755)
CopySubAction("visualize.cgi", "visualize.py")
Chmod("visualize.cgi", 0755)
CopySubAction("querystatus.cgi", "querystatus.py")
Chmod("querystatus.cgi", 0755)
CopySubAction("src/aconf.py", "src/aconf.py.in")
CopySubAction("html/server.html", "html/server.html.in")
Copy("pdb2pqr.cgi", "pdb2pqr.py")
g++ -o pdb2pka/substruct/Algorithms.os -c -g -fPIC -I/usr/include/python3.9 -I/usr/include/arm-linux-gnueabihf/python3.9 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include pdb2pka/substruct/Algorithms.cpp
In file included from /usr/include/python3.9/numpy/ndarraytypes.h:1822,
from /usr/include/python3.9/numpy/ndarrayobject.h:12,
from /usr/include/python3.9/numpy/arrayobject.h:4,
from pdb2pka/substruct/Algorithms.cpp:43:
/usr/include/python3.9/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
pdb2pka/substruct/Algorithms.cpp: In function 'PyObject* initAlgorithms()':
pdb2pka/substruct/Algorithms.cpp:333:1: warning: control reaches end of non-void function [-Wreturn-type]
333 | };
| ^
g++ -o pdb2pka/substruct/Algorithms.cpython-39-arm-linux-gnueabihf.so -Wl,-z,relro -Wl,-z,now -shared pdb2pka/substruct/Algorithms.os -L/usr/lib
g++ -o pdb2pka/pMC_mult.os -c -g -fPIC -I/usr/include/python3.9 -I/usr/include/arm-linux-gnueabihf/python3.9 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include pdb2pka/pMC_mult.cpp
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_vector.h: In copy constructor 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:558:31: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
558 | std::__uninitialized_copy_a(__x.begin(), __x.end(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
559 | this->_M_impl._M_start,
| ~~~~~~~~~~~~~~~~~~~~~~~
560 | _M_get_Tp_allocator());
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _ForwardIterator = double*; _Tp = double]':
/usr/include/c++/10/bits/stl_uninitialized.h:323:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
323 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:323:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:325:37: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
325 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _ForwardIterator = double*]':
/usr/include/c++/10/bits/stl_uninitialized.h:125:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
125 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:125:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:150:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
147 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
148 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
149 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
150 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = double*; _ForwardIterator = double*; _Allocator = std::allocator<double>]':
/usr/include/c++/10/bits/stl_uninitialized.h:347:2: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
346 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
347 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
348 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_uninitialized.h: In static member function 'static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _ForwardIterator = double*]':
/usr/include/c++/10/bits/stl_uninitialized.h:107:9: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
107 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:107:9: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:109:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
109 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<double*>; _ForwardIterator = double*; _Tp = double]':
/usr/include/c++/10/bits/stl_uninitialized.h:323:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
323 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:323:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:325:37: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
325 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from pdb2pka/pMC_mult.h:9,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::copy(_II, _II, _OI) [with _II = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _OI = double*]':
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
560 | copy(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:569:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
568 | return std::__copy_move_a<__is_move_iterator<_II>::__value>
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
569 | (std::__miter_base(__first), std::__miter_base(__last), __result);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<double*>; _ForwardIterator = double*]':
/usr/include/c++/10/bits/stl_uninitialized.h:125:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
125 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:125:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:150:15: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
147 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
148 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
149 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
150 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algobase.h:61,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from pdb2pka/pMC_mult.h:9,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/cpp_type_traits.h: In function '_Iterator std::__miter_base(_Iterator) [with _Iterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >]':
/usr/include/c++/10/bits/cpp_type_traits.h:544:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
544 | __miter_base(_Iterator __it)
| ^~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from pdb2pka/pMC_mult.h:9,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _OI = double*]':
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
511 | __copy_move_a(_II __first, _II __last, _OI __result)
| ^~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_uninitialized.h: In static member function 'static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<double*>; _ForwardIterator = double*]':
/usr/include/c++/10/bits/stl_uninitialized.h:107:9: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
107 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:107:9: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:109:27: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
109 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algobase.h:67,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from pdb2pka/pMC_mult.h:9,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_iterator.h: In function '_Iterator std::__niter_base(__gnu_cxx::__normal_iterator<_Iterator, _Container>) [with _Iterator = const double*; _Container = std::vector<double>]':
/usr/include/c++/10/bits/stl_iterator.h:1225:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
1225 | __niter_base(__gnu_cxx::__normal_iterator<_Iterator, _Container> __it)
| ^~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from pdb2pka/pMC_mult.h:9,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<double*>; _OI = double*]':
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
560 | copy(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
In file included from /usr/include/c++/10/bits/stl_algobase.h:67,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from pdb2pka/pMC_mult.h:9,
from pdb2pka/pMC_mult.cpp:6:
/usr/include/c++/10/bits/stl_iterator.h: In function 'decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = double*]':
/usr/include/c++/10/bits/stl_iterator.h:2198:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
2198 | __miter_base(move_iterator<_Iterator> __it)
| ^~~~~~~~~~~~
g++ -o pdb2pka/pMC_mult_wrap.os -c -g -fPIC -I/usr/include/python3.9 -I/usr/include/arm-linux-gnueabihf/python3.9 -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include pdb2pka/pMC_mult_wrap.cpp
pdb2pka/pMC_mult_wrap.cpp: In function 'std::vector<double>::iterator std_vector_Sl_double_Sg__erase__SWIG_0(std::vector<double>*, std::vector<double>::iterator)':
pdb2pka/pMC_mult_wrap.cpp:4847:44: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
4847 | SWIGINTERN std::vector< double >::iterator std_vector_Sl_double_Sg__erase__SWIG_0(std::vector< double > *self,std::vector< double >::iterator pos){ return self->erase(pos); }
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:4847:171: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
4847 | SWIGINTERN std::vector< double >::iterator std_vector_Sl_double_Sg__erase__SWIG_0(std::vector< double > *self,std::vector< double >::iterator pos){ return self->erase(pos); }
| ^
pdb2pka/pMC_mult_wrap.cpp: In function 'std::vector<double>::iterator std_vector_Sl_double_Sg__erase__SWIG_1(std::vector<double>*, std::vector<double>::iterator, std::vector<double>::iterator)':
pdb2pka/pMC_mult_wrap.cpp:4848:44: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
4848 | SWIGINTERN std::vector< double >::iterator std_vector_Sl_double_Sg__erase__SWIG_1(std::vector< double > *self,std::vector< double >::iterator first,std::vector< double >::iterator last){ return self->erase(first, last); }
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:4848:44: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp:4848:218: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
4848 | SWIGINTERN std::vector< double >::iterator std_vector_Sl_double_Sg__erase__SWIG_1(std::vector< double > *self,std::vector< double >::iterator first,std::vector< double >::iterator last){ return self->erase(first, last); }
| ^
pdb2pka/pMC_mult_wrap.cpp: In function 'std::vector<double>::iterator std_vector_Sl_double_Sg__insert__SWIG_0(std::vector<double>*, std::vector<double>::iterator, const value_type&)':
pdb2pka/pMC_mult_wrap.cpp:4849:44: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
4849 | SWIGINTERN std::vector< double >::iterator std_vector_Sl_double_Sg__insert__SWIG_0(std::vector< double > *self,std::vector< double >::iterator pos,std::vector< double >::value_type const &x){ return self->insert(pos, x); }
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:4849:219: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
4849 | SWIGINTERN std::vector< double >::iterator std_vector_Sl_double_Sg__insert__SWIG_0(std::vector< double > *self,std::vector< double >::iterator pos,std::vector< double >::value_type const &x){ return self->insert(pos, x); }
| ^
pdb2pka/pMC_mult_wrap.cpp: In function 'void std_vector_Sl_double_Sg__insert__SWIG_1(std::vector<double>*, std::vector<double>::iterator, std::vector<double>::size_type, const value_type&)':
pdb2pka/pMC_mult_wrap.cpp:4850:17: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
4850 | SWIGINTERN void std_vector_Sl_double_Sg__insert__SWIG_1(std::vector< double > *self,std::vector< double >::iterator pos,std::vector< double >::size_type n,std::vector< double >::value_type const &x){ self->insert(pos, n, x); }
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:4850:223: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
4850 | SWIGINTERN void std_vector_Sl_double_Sg__insert__SWIG_1(std::vector< double > *self,std::vector< double >::iterator pos,std::vector< double >::size_type n,std::vector< double >::value_type const &x){ self->insert(pos, n, x); }
| ^
pdb2pka/pMC_mult_wrap.cpp: In function 'PyObject* _wrap_DoubleVector_erase__SWIG_0(PyObject*, Py_ssize_t, PyObject**)':
pdb2pka/pMC_mult_wrap.cpp:8847:60: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
8847 | result = std_vector_Sl_double_Sg__erase__SWIG_0(arg1,arg2);
| ^
pdb2pka/pMC_mult_wrap.cpp: In function 'PyObject* _wrap_DoubleVector_erase__SWIG_1(PyObject*, Py_ssize_t, PyObject**)':
pdb2pka/pMC_mult_wrap.cpp:8897:65: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
8897 | result = std_vector_Sl_double_Sg__erase__SWIG_1(arg1,arg2,arg3);
| ^
pdb2pka/pMC_mult_wrap.cpp: In function 'PyObject* _wrap_DoubleVector_insert__SWIG_0(PyObject*, Py_ssize_t, PyObject**)':
pdb2pka/pMC_mult_wrap.cpp:9288:83: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
9288 | result = std_vector_Sl_double_Sg__insert__SWIG_0(arg1,arg2,(double const &)*arg3);
| ^
pdb2pka/pMC_mult_wrap.cpp: In function 'PyObject* _wrap_DoubleVector_insert__SWIG_1(PyObject*, Py_ssize_t, PyObject**)':
pdb2pka/pMC_mult_wrap.cpp:9341:42: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
9341 | std_vector_Sl_double_Sg__insert__SWIG_1(arg1,arg2,arg3,(double const &)*arg4);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In copy constructor 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:558:31: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
558 | std::__uninitialized_copy_a(__x.begin(), __x.end(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
559 | this->_M_impl._M_start,
| ~~~~~~~~~~~~~~~~~~~~~~~
560 | _M_get_Tp_allocator());
| ~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp: In function 'swig::SwigPyIterator* swig::make_output_iterator(const OutIter&, const OutIter&, const OutIter&, PyObject*) [with OutIter = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
pdb2pka/pMC_mult_wrap.cpp:4163:12: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
4163 | return new SwigPyIteratorClosed_T<OutIter>(current, begin, end, seq);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:4163:12: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp: In function 'Sequence* swig::getslice(const Sequence*, Difference, Difference, Py_ssize_t) [with Sequence = std::vector<double>; Difference = int]':
pdb2pka/pMC_mult_wrap.cpp:3782:16: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
3782 | return new Sequence(sb, se);
| ^~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp: In function 'void swig::setslice(Sequence*, Difference, Difference, Py_ssize_t, const InputSeq&) [with Sequence = std::vector<double>; Difference = int; InputSeq = std::vector<double>]':
pdb2pka/pMC_mult_wrap.cpp:3828:33: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
3828 | self->insert(std::copy(is.begin(), isit, sb), isit, is.end());
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:3828:23: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
3828 | self->insert(std::copy(is.begin(), isit, sb), isit, is.end());
| ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:3828:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp:3835:22: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
3835 | self->erase(sb,se);
| ~~~~~~~~~~~^~~~~~~
pdb2pka/pMC_mult_wrap.cpp:3838:23: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
3838 | self->insert(sb, is.begin(), is.end());
| ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:3838:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp: In function 'void swig::delslice(Sequence*, Difference, Difference, Py_ssize_t) [with Sequence = std::vector<double>; Difference = int]':
pdb2pka/pMC_mult_wrap.cpp:3887:20: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
3887 | self->erase(sb,se);
| ~~~~~~~~~~~^~~~~~~
pdb2pka/pMC_mult_wrap.cpp:3892:27: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
3892 | it = self->erase(it);
| ~~~~~~~~~~~^~~~
pdb2pka/pMC_mult_wrap.cpp:3904:33: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
3904 | it = typename Sequence::reverse_iterator(self->erase((++it).base()));
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:3904:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp: In function 'void swig::erase(Sequence*, const typename Sequence::iterator&) [with Sequence = std::vector<double>]':
pdb2pka/pMC_mult_wrap.cpp:3758:15: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
3758 | seq->erase(position);
| ~~~~~~~~~~^~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(std::vector<_Tp, _Alloc>::const_iterator) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1430:7: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
1430 | erase(const_iterator __position)
| ^~~~~
/usr/include/c++/10/bits/stl_vector.h:1431:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1431 | { return _M_erase(begin() + (__position - cbegin())); }
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(std::vector<_Tp, _Alloc>::const_iterator, std::vector<_Tp, _Alloc>::const_iterator) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1457:7: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
1457 | erase(const_iterator __first, const_iterator __last)
| ^~~~~
/usr/include/c++/10/bits/stl_vector.h:1457:7: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
/usr/include/c++/10/bits/stl_vector.h:1461:17: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1461 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg));
| ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(std::vector<_Tp, _Alloc>::const_iterator, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:130:5: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
130 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:154:19: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
154 | _M_insert_aux(__pos, std::move(__x_copy._M_val()));
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:161:19: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
161 | _M_realloc_insert(begin() + (__position - cbegin()), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(std::vector<_Tp, _Alloc>::const_iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1335:7: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
1335 | insert(const_iterator __position, size_type __n, const value_type& __x)
| ^~~~~~
/usr/include/c++/10/bits/stl_vector.h:1338:16: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1338 | _M_fill_insert(begin() + __offset, __n, __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp: In function 'swig::SwigPyIterator* swig::make_output_iterator(const OutIter&, PyObject*) [with OutIter = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
pdb2pka/pMC_mult_wrap.cpp:4177:12: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
4177 | return new SwigPyIteratorOpen_T<OutIter>(current, seq);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::reverse_iterator std::vector<_Tp, _Alloc>::rbegin() [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:848:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
848 | { return reverse_iterator(end()); }
| ^
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::reverse_iterator std::vector<_Tp, _Alloc>::rend() [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:866:40: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
866 | { return reverse_iterator(begin()); }
| ^
/usr/include/c++/10/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::resize(std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:960:18: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
960 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::reserve(std::vector<_Tp, _Alloc>::size_type) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:85:36: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
85 | __tmp = _M_allocate_and_copy(__n,
| ~~~~~~~~~~~~~~~~~~~~^~~~~
86 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(this->_M_impl._M_start),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
87 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(this->_M_impl._M_finish));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:226:44: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
226 | pointer __tmp = _M_allocate_and_copy(__xlen, __x.begin(),
| ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
227 | __x.end());
| ~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:238:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
238 | std::_Destroy(std::copy(__x.begin(), __x.end(), begin()),
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
239 | end(), _M_get_Tp_allocator());
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:238:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _ForwardIterator = double*; _Tp = double]':
/usr/include/c++/10/bits/stl_uninitialized.h:323:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
323 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:323:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:325:37: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
325 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp: In constructor 'swig::SwigPyIteratorClosed_T<OutIterator, ValueType, FromOper>::SwigPyIteratorClosed_T(swig::SwigPyIteratorClosed_T<OutIterator, ValueType, FromOper>::out_iterator, swig::SwigPyIteratorClosed_T<OutIterator, ValueType, FromOper>::out_iterator, swig::SwigPyIteratorClosed_T<OutIterator, ValueType, FromOper>::out_iterator, PyObject*) [with OutIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; ValueType = double; FromOper = swig::from_oper<double>]':
pdb2pka/pMC_mult_wrap.cpp:4133:5: note: parameter passing for argument of type 'swig::SwigPyIteratorClosed_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
4133 | SwigPyIteratorClosed_T(out_iterator curr, out_iterator first, out_iterator last, PyObject *seq)
| ^~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:4133:5: note: parameter passing for argument of type 'swig::SwigPyIteratorClosed_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp:4133:5: note: parameter passing for argument of type 'swig::SwigPyIteratorClosed_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp:4134:93: note: parameter passing for argument of type 'swig::SwigPyIteratorClosed_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
4134 | : SwigPyForwardIteratorClosed_T<OutIterator,ValueType,FromOper>(curr, first, last, seq)
| ^
pdb2pka/pMC_mult_wrap.cpp:4134:93: note: parameter passing for argument of type 'swig::SwigPyIteratorClosed_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In constructor 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; <template-parameter-2-2> = void; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:653:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
653 | vector(_InputIterator __first, _InputIterator __last,
| ^~~~~~
/usr/include/c++/10/bits/stl_vector.h:653:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_vector.h:657:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
657 | _M_range_initialize(__first, __last,
| ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
658 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::const_reverse_iterator std::vector<_Tp, _Alloc>::rbegin() const [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:857:44: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
857 | { return const_reverse_iterator(end()); }
| ^
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::copy(_II, _II, _OI) [with _II = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _OI = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
560 | copy(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:569:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
568 | return std::__copy_move_a<__is_move_iterator<_II>::__value>
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
569 | (std::__miter_base(__first), std::__miter_base(__last), __result);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(std::vector<_Tp, _Alloc>::const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; <template-parameter-2-2> = void; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1379:2: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
1379 | insert(const_iterator __position, _InputIterator __first,
| ^~~~~~
/usr/include/c++/10/bits/stl_vector.h:1379:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_vector.h:1379:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_vector.h:1383:22: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1383 | _M_insert_dispatch(begin() + __offset,
| ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
1384 | __first, __last, __false_type());
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h:1383:22: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/bits/stl_algobase.h:67,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_iterator.h: In constructor 'std::reverse_iterator<_Iterator>::reverse_iterator(std::reverse_iterator<_Iterator>::iterator_type) [with _Iterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_iterator.h:167:7: note: parameter passing for argument of type 'std::reverse_iterator<__gnu_cxx::__normal_iterator<double*, std::vector<double> > >::iterator_type' changed in GCC 7.1
167 | reverse_iterator(iterator_type __x) : current(__x) { }
| ^~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:171:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
171 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/vector.tcc:175:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
175 | _GLIBCXX_MOVE3(__position + 1, end(), __position);
| ^~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::iterator) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:184:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
184 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:184:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/vector.tcc:190:6: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
190 | _GLIBCXX_MOVE3(__last, end(), __first);
| ^~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_insert_aux(std::vector<_Tp, _Alloc>::iterator, _Arg&&) [with _Arg = double; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:395:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
395 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:509:5: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp: In constructor 'swig::SwigPyIteratorOpen_T<OutIterator, ValueType, FromOper>::SwigPyIteratorOpen_T(swig::SwigPyIteratorOpen_T<OutIterator, ValueType, FromOper>::out_iterator, PyObject*) [with OutIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; ValueType = double; FromOper = swig::from_oper<double>]':
pdb2pka/pMC_mult_wrap.cpp:4059:5: note: parameter passing for argument of type 'swig::SwigPyIteratorOpen_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
4059 | SwigPyIteratorOpen_T(out_iterator curr, PyObject *seq)
| ^~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:4060:59: note: parameter passing for argument of type 'swig::SwigPyIteratorOpen_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
4060 | : SwigPyForwardIteratorOpen_T<OutIterator>(curr, seq)
| ^
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_assign(std::size_t, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:267:13: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
267 | std::fill(begin(), end(), __val);
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::pointer std::vector<_Tp, _Alloc>::_M_allocate_and_copy(std::vector<_Tp, _Alloc>::size_type, _ForwardIterator, _ForwardIterator) [with _ForwardIterator = std::move_iterator<double*>; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1508:2: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
1508 | _M_allocate_and_copy(size_type __n,
| ^~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h:1508:2: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
/usr/include/c++/10/bits/stl_vector.h:1514:35: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
1514 | std::__uninitialized_copy_a(__first, __last, __result,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1515 | _M_get_Tp_allocator());
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::pointer std::vector<_Tp, _Alloc>::_M_allocate_and_copy(std::vector<_Tp, _Alloc>::size_type, _ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1508:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
1508 | _M_allocate_and_copy(size_type __n,
| ^~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h:1508:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_vector.h:1514:35: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
1514 | std::__uninitialized_copy_a(__first, __last, __result,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
1515 | _M_get_Tp_allocator());
| ~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/ext/alloc_traits.h:34,
from /usr/include/c++/10/bits/basic_string.h:40,
from /usr/include/c++/10/string:55,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/alloc_traits.h: In function 'void std::_Destroy(_ForwardIterator, _ForwardIterator, std::allocator<_T2>&) [with _ForwardIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Tp = double]':
/usr/include/c++/10/bits/alloc_traits.h:735:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
735 | _Destroy(_ForwardIterator __first, _ForwardIterator __last,
| ^~~~~~~~
/usr/include/c++/10/bits/alloc_traits.h:735:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/alloc_traits.h:738:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
738 | _Destroy(__first, __last);
| ~~~~~~~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _ForwardIterator = double*]':
/usr/include/c++/10/bits/stl_uninitialized.h:125:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
125 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:125:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:150:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
147 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
148 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
149 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
150 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp: In constructor 'swig::SwigPyForwardIteratorClosed_T<OutIterator, ValueType, FromOper>::SwigPyForwardIteratorClosed_T(swig::SwigPyForwardIteratorClosed_T<OutIterator, ValueType, FromOper>::out_iterator, swig::SwigPyForwardIteratorClosed_T<OutIterator, ValueType, FromOper>::out_iterator, swig::SwigPyForwardIteratorClosed_T<OutIterator, ValueType, FromOper>::out_iterator, PyObject*) [with OutIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; ValueType = double; FromOper = swig::from_oper<double>]':
pdb2pka/pMC_mult_wrap.cpp:4085:5: note: parameter passing for argument of type 'swig::SwigPyForwardIteratorClosed_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
4085 | SwigPyForwardIteratorClosed_T(out_iterator curr, out_iterator first, out_iterator last, PyObject *seq)
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:4085:5: note: parameter passing for argument of type 'swig::SwigPyForwardIteratorClosed_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp:4085:5: note: parameter passing for argument of type 'swig::SwigPyForwardIteratorClosed_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp:4086:73: note: parameter passing for argument of type 'swig::SwigPyForwardIteratorClosed_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
4086 | : SwigPyIterator_T<OutIterator>(curr, seq), begin(first), end(last)
| ^
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1577:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
1577 | _M_range_initialize(_ForwardIterator __first, _ForwardIterator __last,
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h:1577:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_vector.h:1580:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
1580 | const size_type __n = std::distance(__first, __last);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h:1585:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
1585 | std::__uninitialized_copy_a(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1586 | this->_M_impl._M_start,
| ~~~~~~~~~~~~~~~~~~~~~~~
1587 | _M_get_Tp_allocator());
| ~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algobase.h:67,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_iterator.h: In constructor 'std::reverse_iterator<_Iterator>::reverse_iterator(std::reverse_iterator<_Iterator>::iterator_type) [with _Iterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_iterator.h:167:7: note: parameter passing for argument of type 'std::reverse_iterator<__gnu_cxx::__normal_iterator<const double*, std::vector<double> > >::iterator_type' changed in GCC 7.1
167 | reverse_iterator(iterator_type __x) : current(__x) { }
| ^~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/cmath:42,
from /usr/include/c++/10/math.h:36,
from /usr/include/python3.9/pyport.h:205,
from /usr/include/python3.9/Python.h:63,
from pdb2pka/pMC_mult_wrap.cpp:178:
/usr/include/c++/10/bits/cpp_type_traits.h: In function '_Iterator std::__miter_base(_Iterator) [with _Iterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >]':
/usr/include/c++/10/bits/cpp_type_traits.h:544:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
544 | __miter_base(_Iterator __it)
| ^~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _OI = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
511 | __copy_move_a(_II __first, _II __last, _OI __result)
| ^~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::_M_insert_dispatch(std::vector<_Tp, _Alloc>::iterator, _InputIterator, _InputIterator, std::__false_type) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1662:2: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
1662 | _M_insert_dispatch(iterator __pos, _InputIterator __first,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h:1662:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_vector.h:1662:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_vector.h:1665:19: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
1665 | _M_range_insert(__pos, __first, __last,
| ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
1666 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_vector.h:1665:19: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = double*; _ForwardIterator = double*; _Allocator = std::allocator<double>]':
/usr/include/c++/10/bits/stl_uninitialized.h:347:2: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
346 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
347 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
348 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::move(_II, _II, _OI) [with _II = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _OI = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_algobase.h:593:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
593 | move(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/10/bits/stl_algobase.h:593:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:593:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:601:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
601 | return std::__copy_move_a<true>(std::__miter_base(__first),
| ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
602 | std::__miter_base(__last), __result);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::__uninitialized_move_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = double*; _ForwardIterator = double*; _Allocator = std::allocator<double>]':
/usr/include/c++/10/bits/stl_uninitialized.h:333:41: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
333 | return std::__uninitialized_copy_a(_GLIBCXX_MAKE_MOVE_ITERATOR(__first),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
334 | _GLIBCXX_MAKE_MOVE_ITERATOR(__last),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
335 | __result, __alloc);
| ~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp: In constructor 'swig::SwigPyForwardIteratorOpen_T<OutIterator, ValueType, FromOper>::SwigPyForwardIteratorOpen_T(swig::SwigPyForwardIteratorOpen_T<OutIterator, ValueType, FromOper>::out_iterator, PyObject*) [with OutIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; ValueType = double; FromOper = swig::from_oper<double>]':
pdb2pka/pMC_mult_wrap.cpp:4023:5: note: parameter passing for argument of type 'swig::SwigPyForwardIteratorOpen_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
4023 | SwigPyForwardIteratorOpen_T(out_iterator curr, PyObject *seq)
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp:4024:48: note: parameter passing for argument of type 'swig::SwigPyForwardIteratorOpen_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> >, double, swig::from_oper<double> >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
4024 | : SwigPyIterator_T<OutIterator>(curr, seq)
| ^
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function 'void std::fill(_ForwardIterator, _ForwardIterator, const _Tp&) [with _ForwardIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Tp = double]':
/usr/include/c++/10/bits/stl_algobase.h:937:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
937 | fill(_ForwardIterator __first, _ForwardIterator __last, const _Tp& __value)
| ^~~~
/usr/include/c++/10/bits/stl_algobase.h:937:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:944:20: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
944 | std::__fill_a(__first, __last, __value);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<double*>; _ForwardIterator = double*; _Tp = double]':
/usr/include/c++/10/bits/stl_uninitialized.h:323:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
323 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:323:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:325:37: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
325 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/alloc_traits.h:33,
from /usr/include/c++/10/ext/alloc_traits.h:34,
from /usr/include/c++/10/bits/basic_string.h:40,
from /usr/include/c++/10/string:55,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_construct.h: In function 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_construct.h:171:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
171 | _Destroy(_ForwardIterator __first, _ForwardIterator __last)
| ^~~~~~~~
/usr/include/c++/10/bits/stl_construct.h:171:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_construct.h:185:11: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
184 | std::_Destroy_aux<__has_trivial_destructor(_Value_type)>::
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
185 | __destroy(__first, __last);
| ~~~~~~~~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_uninitialized.h: In static member function 'static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _ForwardIterator = double*]':
/usr/include/c++/10/bits/stl_uninitialized.h:107:9: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
107 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:107:9: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:109:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
109 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp: In constructor 'swig::SwigPyIterator_T<OutIterator>::SwigPyIterator_T(swig::SwigPyIterator_T<OutIterator>::out_iterator, PyObject*) [with OutIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
pdb2pka/pMC_mult_wrap.cpp:3965:5: note: parameter passing for argument of type 'swig::SwigPyIterator_T<__gnu_cxx::__normal_iterator<double*, std::vector<double> > >::out_iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
3965 | SwigPyIterator_T(out_iterator curr, PyObject *seq)
| ^~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algobase.h:66,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_iterator_base_funcs.h: In function 'typename std::iterator_traits< <template-parameter-1-1> >::difference_type std::distance(_InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:138:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
138 | distance(_InputIterator __first, _InputIterator __last)
| ^~~~~~~~
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:138:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:141:29: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
141 | return std::__distance(__first, __last,
| ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
142 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algobase.h:67,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_iterator.h: In function '_Iterator std::__niter_base(__gnu_cxx::__normal_iterator<_Iterator, _Container>) [with _Iterator = const double*; _Container = std::vector<double>]':
/usr/include/c++/10/bits/stl_iterator.h:1225:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
1225 | __niter_base(__gnu_cxx::__normal_iterator<_Iterator, _Container> __it)
| ^~~~~~~~~~~~
/usr/include/c++/10/bits/stl_iterator.h: In function '_Iterator std::__niter_base(__gnu_cxx::__normal_iterator<_Iterator, _Container>) [with _Iterator = double*; _Container = std::vector<double>]':
/usr/include/c++/10/bits/stl_iterator.h:1225:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function '_From std::__niter_wrap(_From, _To) [with _From = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _To = double*]':
/usr/include/c++/10/bits/stl_algobase.h:323:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
323 | __niter_wrap(_From __from, _To __res)
| ^~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_range_insert(std::vector<_Tp, _Alloc>::iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:721:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
721 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:721:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/vector.tcc:721:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/vector.tcc:727:41: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
727 | const size_type __n = std::distance(__first, __last);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:744:16: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
744 | std::copy(__first, __last, __position);
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:751:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
751 | std::__uninitialized_copy_a(__mid, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~
752 | this->_M_impl._M_finish,
| ~~~~~~~~~~~~~~~~~~~~~~~~
753 | _M_get_Tp_allocator());
| ~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:762:16: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
762 | std::copy(__first, __mid, __position);
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:778:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
778 | = std::__uninitialized_copy_a(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
779 | __new_finish,
| ~~~~~~~~~~~~~
780 | _M_get_Tp_allocator());
| ~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/cmath:42,
from /usr/include/c++/10/math.h:36,
from /usr/include/python3.9/pyport.h:205,
from /usr/include/python3.9/Python.h:63,
from pdb2pka/pMC_mult_wrap.cpp:178:
/usr/include/c++/10/bits/cpp_type_traits.h: In function '_Iterator std::__miter_base(_Iterator) [with _Iterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/cpp_type_traits.h:544:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
544 | __miter_base(_Iterator __it)
| ^~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = true; _II = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _OI = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
511 | __copy_move_a(_II __first, _II __last, _OI __result)
| ^~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
pdb2pka/pMC_mult_wrap.cpp: In function 'void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont<double>; Seq = std::vector<double>]':
pdb2pka/pMC_mult_wrap.cpp:4462:18: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
4462 | seq->insert(seq->end(),(value_type)(*it));
| ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function 'void std::__fill_a(_FIte, _FIte, const _Tp&) [with _FIte = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Tp = double]':
/usr/include/c++/10/bits/stl_algobase.h:913:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
913 | __fill_a(_FIte __first, _FIte __last, const _Tp& __value)
| ^~~~~~~~
/usr/include/c++/10/bits/stl_algobase.h:913:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:914:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
914 | { std::__fill_a1(__first, __last, __value); }
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_uninitialized.h: In function '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<double*>; _ForwardIterator = double*]':
/usr/include/c++/10/bits/stl_uninitialized.h:125:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
125 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:125:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:150:15: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
147 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
148 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
149 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
150 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/alloc_traits.h:33,
from /usr/include/c++/10/ext/alloc_traits.h:34,
from /usr/include/c++/10/bits/basic_string.h:40,
from /usr/include/c++/10/string:55,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_construct.h: In static member function 'static void std::_Destroy_aux<true>::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_construct.h:161:9: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
161 | __destroy(_ForwardIterator, _ForwardIterator) { }
| ^~~~~~~~~
/usr/include/c++/10/bits/stl_construct.h:161:9: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::copy(_II, _II, _OI) [with _II = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _OI = double*]':
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
560 | copy(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algobase.h:569:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
568 | return std::__copy_move_a<__is_move_iterator<_II>::__value>
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
569 | (std::__miter_base(__first), std::__miter_base(__last), __result);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algobase.h:66,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_iterator_base_funcs.h: In function 'constexpr typename std::iterator_traits< <template-parameter-1-1> >::difference_type std::__distance(_RandomAccessIterator, _RandomAccessIterator, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:98:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
98 | __distance(_RandomAccessIterator __first, _RandomAccessIterator __last,
| ^~~~~~~~~~
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:98:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/vector:67,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(std::vector<_Tp, _Alloc>::const_iterator, std::vector<_Tp, _Alloc>::value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1293:7: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
1293 | insert(const_iterator __position, value_type&& __x)
| ^~~~~~
/usr/include/c++/10/bits/stl_vector.h:1294:30: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
1294 | { return _M_insert_rval(__position, std::move(__x)); }
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function 'void std::__fill_a1(__gnu_cxx::__normal_iterator<_Iterator, _Container>, __gnu_cxx::__normal_iterator<_Iterator, _Container>, const _Tp&) [with _Ite = double*; _Cont = std::vector<double>; _Tp = double]':
/usr/include/c++/10/bits/stl_algobase.h:899:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
899 | __fill_a1(::__gnu_cxx::__normal_iterator<_Ite, _Cont> __first,
| ^~~~~~~~~
/usr/include/c++/10/bits/stl_algobase.h:899:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/vector:66,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/stl_uninitialized.h: In static member function 'static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<double*>; _ForwardIterator = double*]':
/usr/include/c++/10/bits/stl_uninitialized.h:107:9: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
107 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_uninitialized.h:107:9: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
/usr/include/c++/10/bits/stl_uninitialized.h:109:27: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
109 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = __gnu_cxx::__normal_iterator<const double*, std::vector<double> >; _OI = double*]':
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
511 | __copy_move_a(_II __first, _II __last, _OI __result)
| ^~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algobase.h:511:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_insert_rval(std::vector<_Tp, _Alloc>::const_iterator, std::vector<_Tp, _Alloc>::value_type&&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:340:5: note: parameter passing for argument of type 'std::vector<double>::const_iterator' changed in GCC 7.1
340 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:354:17: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
354 | _M_insert_aux(begin() + __n, std::move(__v));
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:356:19: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
356 | _M_realloc_insert(begin() + __n, std::move(__v));
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_algobase.h: In function '_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<double*>; _OI = double*]':
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
560 | copy(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/10/bits/stl_algobase.h:560:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
In file included from /usr/include/c++/10/vector:72,
from pdb2pka/pMC_mult.h:10,
from pdb2pka/pMC_mult_wrap.cpp:2815:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algobase.h:67,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_iterator.h: In function 'decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = double*]':
/usr/include/c++/10/bits/stl_iterator.h:2198:5: note: parameter passing for argument of type 'std::move_iterator<double*>' changed in GCC 7.1
2198 | __miter_base(move_iterator<_Iterator> __it)
| ^~~~~~~~~~~~
pdb2pka/pMC_mult_wrap.cpp: In member function 'ptrdiff_t swig::SwigPyIterator_T<OutIterator>::distance(const swig::SwigPyIterator&) const [with OutIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
pdb2pka/pMC_mult_wrap.cpp:3990:22: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
3990 | return std::distance(current, iters->get_current());
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algobase.h:66,
from /usr/include/c++/10/bits/char_traits.h:39,
from /usr/include/c++/10/string:40,
from /usr/include/c++/10/stdexcept:39,
from pdb2pka/pMC_mult_wrap.cpp:2742:
/usr/include/c++/10/bits/stl_iterator_base_funcs.h: In function 'typename std::iterator_traits< <template-parameter-1-1> >::difference_type std::distance(_InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:138:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
138 | distance(_InputIterator __first, _InputIterator __last)
| ^~~~~~~~
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:138:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:141:29: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
141 | return std::__distance(__first, __last,
| ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
142 | std::__iterator_category(__first));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_iterator_base_funcs.h: In function 'constexpr typename std::iterator_traits< <template-parameter-1-1> >::difference_type std::__distance(_RandomAccessIterator, _RandomAccessIterator, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >]':
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:98:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
98 | __distance(_RandomAccessIterator __first, _RandomAccessIterator __last,
| ^~~~~~~~~~
/usr/include/c++/10/bits/stl_iterator_base_funcs.h:98:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
g++ -o pdb2pka/_pMC_mult.cpython-39-arm-linux-gnueabihf.so -Wl,-z,relro -Wl,-z,now -shared pdb2pka/pMC_mult.os pdb2pka/pMC_mult_wrap.os -L/usr/lib
scons: done building targets.
TARGETS: ['pdb2pqr.py', 'apbs_cgi.cgi', 'visualize.cgi', 'querystatus.cgi', 'src/aconf.py', 'html/server.html', 'pdb2pqr.cgi', 'pdb2pka/substruct/Algorithms.cpython-39-arm-linux-gnueabihf.so', 'pdb2pka/_pMC_mult.cpython-39-arm-linux-gnueabihf.so']
========================
Configuration Parameters
========================
Version: 2.1.1
Install directory: /usr/share/pdb2pqr/
pdb2pka and ligand support: True
Path to the website directory: http://localhost/pdb2pqr/
PDB2PQR jobs run via the web interface will be forked on the server.
The preferred way to configure the build is by editing the file build_config.py
Run scons with the python3 that you intend to use with pdb2pqr.
For example: "scons" will setup pdb2pqr to be run with Debian default Python3 interpreter
Run "scons install" to install pdb2pqr in /usr/share/pdb2pqr/
Run "scons basic-test" for a basic functionality test
Run "scons advanced-test" for a single test of ligand and PROPKA support. Requires numpy and PDB2PKA support compiled.
Run "scons complete-test" for a complete test of all functionality EXCEPT PDB2PKA. Requires numpy and PDB2PKA support compiled.
Run "scons pdb2pka-test" for a test of PDB2PKA functionality.
Requires numpy, PDB2PKA support compiled AND the APBS python3 libraries compiled and installed in the pdb2pka directory.
To setup a web service create a symbolic link to /usr/share/pdb2pqr/ that enables you to view http://localhost/pdb2pqr/ after running "scons install"
Run "scons msvs" to build Visual Studio projects for the Algorithms and pMC_mult modules.
VS project generation is not well supported in scons. Resulting projects should build using NMAKE but cannot be used for debugging.
The resulting projects will need to modified to use VS natively to compile the code or debug.
Build succeeded.
make[1]: Leaving directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
create-stamp debian/debhelper-build-stamp
dh_prep -a
dh_installdirs -a
debian/rules override_dh_install-arch
make[1]: Entering directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_install -a
dos2unix debian/pdb2pqr/usr/share/pdb2pqr/propka30/propka.py
dos2unix: converting file debian/pdb2pqr/usr/share/pdb2pqr/propka30/propka.py to Unix format...
dos2unix debian/pdb2pqr/usr/share/pdb2pqr/src/psize.py
dos2unix: converting file debian/pdb2pqr/usr/share/pdb2pqr/src/psize.py to Unix format...
make[1]: Leaving directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_installdocs -a
debian/rules override_dh_installchangelogs
make[1]: Entering directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_installchangelogs ChangeLog.md
make[1]: Leaving directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
debian/rules override_dh_installexamples
make[1]: Entering directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_installexamples
for bakerdoc in $( grep -l "http://agave.wustl.edu/css/baker.css" -R debian/pdb2pqr-doc/usr/share/doc/pdb2pqr/* ); do \
sed "s|href=\"http://agave.wustl.edu/css/baker.css\"|href=\"baker.css\"|g" -i $bakerdoc; done
grep: debian/pdb2pqr-doc/usr/share/doc/pdb2pqr/*: No such file or directory
make[1]: Leaving directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
debian/rules override_dh_installman-arch
make[1]: Entering directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_installman -a
xmlto -o debian/pdb2pqr/usr/share/man/man1/ man debian/pdb2pqr.1.xml
Note: Writing pdb2pqr.1
xmlto -o debian/pdb2pqr/usr/share/man/man1/ man debian/psize.1.xml
Note: Writing psize.1
xmlto -o debian/pdb2pqr/usr/share/man/man1/ man debian/propka.1.xml
Note: Writing propka.1
make[1]: Leaving directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_python3 -a
dh_perl -a
debian/rules override_dh_link-arch
make[1]: Entering directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_link -a
dh_link -a usr/lib/pdb2pqr/pdb2pka/_pMC_mult.cpython-39-arm-linux-gnueabihf.so usr/share/pdb2pqr/pdb2pka/_pMC_mult.so
dh_link -a usr/lib/pdb2pqr/pdb2pka/substruct/Algorithms.cpython-39-arm-linux-gnueabihf.so usr/share/pdb2pqr/pdb2pka/substruct/Algorithms.so
make[1]: Leaving directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_strip_nondeterminism -a
dh_compress -a
debian/rules override_dh_fixperms-arch
make[1]: Entering directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_fixperms -a
chmod 0644 debian/pdb2pqr/usr/share/pdb2pqr/main.py
chmod 0644 debian/pdb2pqr/usr/share/pdb2pqr/main_cgi.py
chmod 0644 debian/pdb2pqr/usr/share/pdb2pqr/pdb2pka/ligandclean/__init__.py
chmod 0644 debian/pdb2pqr/usr/share/pdb2pqr/pdb2pka/pka_routines.py
chmod 0644 debian/pdb2pqr/usr/share/pdb2pqr/pdb2pka/pKaIO_compat.py
chmod 0644 debian/pdb2pqr/usr/share/pdb2pqr/pdb2pka/pKa_utility_functions_compat.py
chmod 0644 debian/pdb2pqr/usr/share/pdb2pqr/src/errors.py
chmod +x debian/pdb2pqr/usr/share/pdb2pqr/propka30/propka.py
chmod +x debian/pdb2pqr/usr/share/pdb2pqr/src/psize.py
make[1]: Leaving directory '/<<BUILDDIR>>/pdb2pqr-2.1.1+dfsg'
dh_missing -a
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'pdb2pqr-dbgsym' in '../pdb2pqr-dbgsym_2.1.1+dfsg-7+deb11u1_armhf.deb'.
dpkg-deb: building package 'pdb2pqr' in '../pdb2pqr_2.1.1+dfsg-7+deb11u1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../pdb2pqr_2.1.1+dfsg-7+deb11u1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2022-03-27T01:56:05Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
pdb2pqr_2.1.1+dfsg-7+deb11u1_armhf.changes:
-------------------------------------------
Format: 1.8
Date: Wed, 16 Feb 2022 02:13:35 -0500
Source: pdb2pqr
Binary: pdb2pqr pdb2pqr-dbgsym
Architecture: armhf
Version: 2.1.1+dfsg-7+deb11u1
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andrius Merkys <merkys@debian.org>
Description:
pdb2pqr - Preparation of protein structures for electrostatics calculations
Changes:
pdb2pqr (2.1.1+dfsg-7+deb11u1) bullseye; urgency=medium
.
* Team upload.
* Fix ImportError in propka due to changed relative import handling in
Python 3.8. The patch fixing #937262 has changed the way relative imports
are called, but the used construction does not work since Python 3.8.
Undoing changes in the patch fixed the ImportError in propka.
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Files:
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+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
pdb2pqr-dbgsym_2.1.1+dfsg-7+deb11u1_armhf.deb
---------------------------------------------
new Debian package, version 2.0.
size 296984 bytes: control archive=656 bytes.
437 bytes, 12 lines control
299 bytes, 3 lines md5sums
Package: pdb2pqr-dbgsym
Source: pdb2pqr
Version: 2.1.1+dfsg-7+deb11u1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 529
Depends: pdb2pqr (= 2.1.1+dfsg-7+deb11u1)
Section: debug
Priority: optional
Description: debug symbols for pdb2pqr
Build-Ids: 24370409299f7891e7da930b0d7c96e3ef0f93d2 845b27acc5ee5b22cf5ca5533505b6965c46c3d8
drwxr-xr-x root/root 0 2022-02-16 07:13 ./
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/debug/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/debug/.build-id/24/
-rw-r--r-- root/root 14956 2022-02-16 07:13 ./usr/lib/debug/.build-id/24/370409299f7891e7da930b0d7c96e3ef0f93d2.debug
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/debug/.build-id/84/
-rw-r--r-- root/root 497956 2022-02-16 07:13 ./usr/lib/debug/.build-id/84/5b27acc5ee5b22cf5ca5533505b6965c46c3d8.debug
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 14208 2022-02-16 07:13 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/pdb2pqr.debug
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/doc/
lrwxrwxrwx root/root 0 2022-02-16 07:13 ./usr/share/doc/pdb2pqr-dbgsym -> pdb2pqr
pdb2pqr_2.1.1+dfsg-7+deb11u1_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 371392 bytes: control archive=4804 bytes.
1418 bytes, 28 lines control
9687 bytes, 130 lines md5sums
275 bytes, 12 lines * postinst #!/bin/sh
388 bytes, 12 lines * prerm #!/bin/sh
Package: pdb2pqr
Version: 2.1.1+dfsg-7+deb11u1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2845
Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.5), libstdc++6 (>= 5.2), python3 (<< 3.10), python3 (>= 3.9~), python3:any, python3-numpy, python3-networkx
Suggests: apbs
Enhances: autodocktools
Replaces: propka
Provides: propka
Section: science
Priority: optional
Homepage: https://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/apbs/pdb2pqr.html
Description: Preparation of protein structures for electrostatics calculations
PDB2PQR is a Python software package that automates many of the common
tasks of preparing structures for continuum electrostatics calculations.
It thus provides a platform-independent utility for converting protein files
in PDB format to PQR format. These tasks include:
* Adding a limited number of missing heavy atoms to biomolecular structures
* Determining side-chain pKas
* Placing missing hydrogens
* Optimizing the protein for favorable hydrogen bonding
* Assigning charge and radius parameters from a variety of force fields
.
This package also includes PropKa, a tool to modify the protonation state of
protein structures in the Protein Data Bank (PDB) format to match a given pKa
value. It can also be used to refine NMR structures, which often yield
inaccurate pKa values for some residues.
drwxr-xr-x root/root 0 2022-02-16 07:13 ./
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/bin/
lrwxrwxrwx root/root 0 2022-02-16 07:13 ./usr/bin/pdb2pqr -> ../share/pdb2pqr/pdb2pqr.py
lrwxrwxrwx root/root 0 2022-02-16 07:13 ./usr/bin/propka -> ../share/pdb2pqr/propka30/propka.py
lrwxrwxrwx root/root 0 2022-02-16 07:13 ./usr/bin/psize -> ../share/pdb2pqr/src/psize.py
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/pdb2pqr/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/pdb2pqr/pdb2pka/
-rw-r--r-- root/root 582612 2022-02-16 07:13 ./usr/lib/pdb2pqr/pdb2pka/_pMC_mult.cpython-39-arm-linux-gnueabihf.so
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/lib/pdb2pqr/pdb2pka/substruct/
-rw-r--r-- root/root 14620 2022-02-16 07:13 ./usr/lib/pdb2pqr/pdb2pka/substruct/Algorithms.cpython-39-arm-linux-gnueabihf.so
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/doc/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/doc/pdb2pqr/
-rw-r--r-- root/root 31 2016-02-18 19:56 ./usr/share/doc/pdb2pqr/AUTHORS
-rw-r--r-- root/root 175 2016-02-18 19:56 ./usr/share/doc/pdb2pqr/NEWS.gz
-rw-r--r-- root/root 783 2022-02-16 07:13 ./usr/share/doc/pdb2pqr/README.Debian
-rw-r--r-- root/root 688 2016-02-18 19:56 ./usr/share/doc/pdb2pqr/README.md
-rw-r--r-- root/root 2758 2022-02-16 07:13 ./usr/share/doc/pdb2pqr/changelog.Debian.gz
-rw-r--r-- root/root 613 2016-03-08 20:40 ./usr/share/doc/pdb2pqr/changelog.gz
-rw-r--r-- root/root 5186 2022-02-16 07:13 ./usr/share/doc/pdb2pqr/copyright
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/man/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/man/man1/
-rw-r--r-- root/root 2082 2022-02-16 07:13 ./usr/share/man/man1/pdb2pqr.1.gz
-rw-r--r-- root/root 1044 2022-02-16 07:13 ./usr/share/man/man1/propka.1.gz
-rw-r--r-- root/root 1252 2022-02-16 07:13 ./usr/share/man/man1/psize.1.gz
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/pdb2pqr/
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/pdb2pqr/dat/
-rw-r--r-- root/root 61111 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/AA.xml
-rw-r--r-- root/root 62938 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/AMBER.DAT
-rw-r--r-- root/root 2398 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/AMBER.names
-rw-r--r-- root/root 66828 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/CHARMM.DAT
-rw-r--r-- root/root 7123 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/CHARMM.names
-rw-r--r-- root/root 4633 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/HYDROGENS.xml
-rw-r--r-- root/root 35389 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/NA.xml
-rw-r--r-- root/root 25519 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/PARSE.DAT
-rw-r--r-- root/root 5921 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/PARSE.names
-rw-r--r-- root/root 15461 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/PATCHES.xml
-rw-r--r-- root/root 30813 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/PEOEPB.DAT
-rw-r--r-- root/root 1738 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/PEOEPB.names
-rw-r--r-- root/root 35461 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/SWANSON.DAT
-rw-r--r-- root/root 1245 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/SWANSON.names
-rw-r--r-- root/root 65298 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/TOPOLOGY.xml
-rw-r--r-- root/root 99831 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/TYL06.DAT
-rw-r--r-- root/root 2087 2016-02-18 19:56 ./usr/share/pdb2pqr/dat/TYL06.names
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/pdb2pqr/extensions/
-rw-r--r-- root/root 209 2016-02-18 19:56 ./usr/share/pdb2pqr/extensions/README
-rw-r--r-- root/root 4747 2022-02-16 07:13 ./usr/share/pdb2pqr/extensions/__init__.py
-rw-r--r-- root/root 2011 2016-02-18 19:56 ./usr/share/pdb2pqr/extensions/chi.py
-rw-r--r-- root/root 2923 2016-02-18 19:56 ./usr/share/pdb2pqr/extensions/contact.py
-rw-r--r-- root/root 7147 2016-02-18 19:56 ./usr/share/pdb2pqr/extensions/hbond.py
-rw-r--r-- root/root 13553 2022-02-16 07:13 ./usr/share/pdb2pqr/extensions/newresinter.py
-rw-r--r-- root/root 3441 2016-02-18 19:56 ./usr/share/pdb2pqr/extensions/rama.py
-rw-r--r-- root/root 12513 2022-02-16 07:13 ./usr/share/pdb2pqr/extensions/resinter.py
-rw-r--r-- root/root 3139 2022-02-16 07:13 ./usr/share/pdb2pqr/extensions/salt.py
-rw-r--r-- root/root 944 2016-02-18 19:56 ./usr/share/pdb2pqr/extensions/summary.py
-rw-r--r-- root/root 3303 2016-02-18 19:56 ./usr/share/pdb2pqr/extensions/template
-rw-r--r-- root/root 34647 2022-02-16 07:13 ./usr/share/pdb2pqr/main.py
-rw-r--r-- root/root 28310 2022-02-16 07:13 ./usr/share/pdb2pqr/main_cgi.py
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/
-rw-r--r-- root/root 29181 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/NEWligand_topology.py
-rw-r--r-- root/root 0 2016-02-18 19:56 ./usr/share/pdb2pqr/pdb2pka/__init__.py
lrwxrwxrwx root/root 0 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/_pMC_mult.so -> ../../../lib/pdb2pqr/pdb2pka/_pMC_mult.cpython-39-arm-linux-gnueabihf.so
-rw-r--r-- root/root 15131 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/apbs.py
-rw-r--r-- root/root 3539 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/charge_mon.py
-rw-r--r-- root/root 8208 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/example.py
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/graph_cut/
-rw-r--r-- root/root 0 2016-02-18 19:56 ./usr/share/pdb2pqr/pdb2pka/graph_cut/__init__.py
-rw-r--r-- root/root 375 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/graph_cut/create_titration_output.py
-rw-r--r-- root/root 4365 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/graph_cut/graph.py
-rw-r--r-- root/root 36927 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/graph_cut/protein_complex.py
-rw-r--r-- root/root 8380 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/graph_cut/titration_curve.py
-rw-r--r-- root/root 4060 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/graph_cut/uncertainty.py
-rw-r--r-- root/root 4046 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/graph_cut/utils.py
-rw-r--r-- root/root 11732 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/inputgen_pKa.py
-rw-r--r-- root/root 29224 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/ligand_topology.py
drwxr-xr-x root/root 0 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/ligandclean/
-rw-r--r-- root/root 28 2016-02-18 19:56 ./usr/share/pdb2pqr/pdb2pka/ligandclean/__init__.py
-rw-r--r-- root/root 14018 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/ligandclean/ligff.py
-rw-r--r-- root/root 1013 2016-02-18 19:56 ./usr/share/pdb2pqr/pdb2pka/ligandclean/lookuptable.py
-rw-r--r-- root/root 5526 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/ligandclean/peoe_PDB2PQR.py
-rw-r--r-- root/root 4074 2016-02-18 19:56 ./usr/share/pdb2pqr/pdb2pka/ligandclean/templates.py
-rw-r--r-- root/root 4749 2016-02-18 19:56 ./usr/share/pdb2pqr/pdb2pka/ligandclean/trial_templates.py
-rw-r--r-- root/root 34865 2022-02-16 07:13 ./usr/share/pdb2pqr/pdb2pka/pKaIO_compat.py
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+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 56840
Build-Time: 1288
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 826
Job: pdb2pqr_2.1.1+dfsg-7+deb11u1
Machine Architecture: armhf
Package: pdb2pqr
Package-Time: 2172
Source-Version: 2.1.1+dfsg-7+deb11u1
Space: 56840
Status: successful
Version: 2.1.1+dfsg-7+deb11u1
--------------------------------------------------------------------------------
Finished at 2022-03-27T01:56:05Z
Build needed 00:36:12, 56840k disc space