r-bioc-affyio →
1.42.0-1 →
armhf → 2016-05-14 12:14:49
sbuild (Debian sbuild) 0.68.0 (15 Jan 2016) on bm-wb-01
+==============================================================================+
| r-bioc-affyio 1.42.0-1 (armhf) 14 May 2016 11:52 |
+==============================================================================+
Package: r-bioc-affyio
Version: 1.42.0-1
Source Version: 1.42.0-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/r-bioc-affyio-U_PDd1/r-bioc-affyio-1.42.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-affyio-U_PDd1' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/stretch-staging-armhf-sbuild-1d4334f7-0501-4d27-b859-ecccecba6487' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private stretch-staging/main Sources [8962 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.0 MB]
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Reading package lists...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'r-bioc-affyio' packaging is maintained in the 'Svn' version control system at:
svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-affyio/trunk/
Need to get 111 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main r-bioc-affyio 1.42.0-1 (dsc) [2065 B]
Get:2 http://172.17.0.1/private stretch-staging/main r-bioc-affyio 1.42.0-1 (tar) [106 kB]
Get:3 http://172.17.0.1/private stretch-staging/main r-bioc-affyio 1.42.0-1 (diff) [2024 B]
Fetched 111 kB in 0s (1928 kB/s)
Download complete and in download only mode
+------------------------------------------------------------------------------+
| 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-afshuX/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-afshuX/apt_archive ./ InRelease
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Get:3 file:/<<BUILDDIR>>/resolver-afshuX/apt_archive ./ Release.gpg [299 B]
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Get:5 file:/<<BUILDDIR>>/resolver-afshuX/apt_archive ./ Packages [526 B]
Ign:4 file:/<<BUILDDIR>>/resolver-afshuX/apt_archive ./ Sources
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Get:5 file:/<<BUILDDIR>>/resolver-afshuX/apt_archive ./ Packages [759 B]
Reading package lists...
W: file:///<<BUILDDIR>>/resolver-afshuX/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
manpages
Use 'apt autoremove' to remove it.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 24 not upgraded.
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After this operation, 0 B of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-afshuX/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [768 B]
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package sbuild-build-depends-core-dummy.
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(Reading database ... 12650 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 9), cdbs, zlib1g-dev, r-base-dev
Filtered Build-Depends: debhelper (>= 9), cdbs, zlib1g-dev, r-base-dev
dpkg-deb: building package 'sbuild-build-depends-r-bioc-affyio-dummy' in '/<<BUILDDIR>>/resolver-x6ZZyb/apt_archive/sbuild-build-depends-r-bioc-affyio-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-x6ZZyb/apt_archive ./ InRelease
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Get:3 file:/<<BUILDDIR>>/resolver-x6ZZyb/apt_archive ./ Release.gpg [299 B]
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Get:4 file:/<<BUILDDIR>>/resolver-x6ZZyb/apt_archive ./ Sources [234 B]
Get:5 file:/<<BUILDDIR>>/resolver-x6ZZyb/apt_archive ./ Packages [550 B]
Ign:4 file:/<<BUILDDIR>>/resolver-x6ZZyb/apt_archive ./ Sources
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Get:5 file:/<<BUILDDIR>>/resolver-x6ZZyb/apt_archive ./ Packages [798 B]
Reading package lists...
W: file:///<<BUILDDIR>>/resolver-x6ZZyb/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
Reading package lists...
Install r-bioc-affyio build dependencies (apt-based resolver)
-------------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
manpages
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils ca-certificates cdbs
cpp-5 debhelper dh-autoreconf dh-strip-nondeterminism file fontconfig
fontconfig-config fonts-dejavu-core g++-5 gcc-5 gcc-5-base gcc-6-base
gettext gettext-base gfortran gfortran-5 groff-base intltool-debian
libarchive-zip-perl libasan2 libatomic1 libblas-common libblas-dev libblas3
libbsd0 libbz2-dev libcairo2 libcc1-0 libcroco3 libcurl3 libdatrie1
libexpat1 libffi6 libfile-stripnondeterminism-perl libfontconfig1
libfreetype6 libgcc-5-dev libgcc1 libgfortran-5-dev libgfortran3
libglib2.0-0 libgnutls30 libgomp1 libgraphite2-3 libgssapi-krb5-2
libharfbuzz0b libhogweed4 libice6 libicu55 libidn11 libjbig0 libjpeg-dev
libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 liblapack-dev liblapack3 libldap-2.4-2 liblzma-dev libmagic1
libncurses5-dev libnettle6 libnghttp2-14 libp11-kit0 libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre16-3
libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev
libpng16-16 libreadline-dev libreadline6-dev librtmp1 libsasl2-2
libsasl2-modules-db libsigsegv2 libsm6 libssh2-1 libssl1.0.2 libstdc++-5-dev
libstdc++6 libtasn1-6 libtcl8.6 libthai-data libthai0 libtiff5
libtimedate-perl libtinfo-dev libtk8.6 libtool libubsan0 libunistring0
libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6
libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6 m4 man-db openssl
po-debconf r-base-core r-base-dev ucf unzip x11-common xdg-utils zip
zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation devscripts gcc-5-locales dh-make gcc-5-doc libstdc++6-5-dbg
libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan2-dbg
liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx0-dbg
libquadmath0-dbg gettext-doc libasprintf-dev libgettextpo-dev gfortran-doc
gfortran-5-doc libgfortran3-dbg groff liblapack-doc-man liblapack-doc
gnutls-bin krb5-doc krb5-user liblzma-doc ncurses-doc readline-doc
libstdc++-5-doc tcl8.6 tk8.6 libtool-doc gcj-jdk less www-browser
libmail-box-perl ess r-doc-info | r-doc-pdf r-mathlib r-base-html
texlive-base texlive-latex-base texlive-generic-recommended
texlive-fonts-recommended texlive-fonts-extra texlive-extra-utils
texlive-latex-recommended texlive-latex-extra texinfo gvfs-bin
Recommended packages:
curl | wget | lynx-cur bzip2-doc libglib2.0-data shared-mime-info
xdg-user-dirs krb5-locales libpng-tools libsasl2-modules libltdl-dev
xml-core libmail-sendmail-perl r-recommended r-doc-html
libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils
x11-xserver-utils
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils ca-certificates cdbs
debhelper dh-autoreconf dh-strip-nondeterminism file fontconfig
fontconfig-config fonts-dejavu-core gcc-6-base gettext gettext-base gfortran
gfortran-5 groff-base intltool-debian libarchive-zip-perl libblas-common
libblas-dev libblas3 libbsd0 libbz2-dev libcairo2 libcroco3 libcurl3
libdatrie1 libexpat1 libffi6 libfile-stripnondeterminism-perl libfontconfig1
libfreetype6 libgfortran-5-dev libgfortran3 libglib2.0-0 libgnutls30
libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhogweed4 libice6 libicu55
libidn11 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev
libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3
libldap-2.4-2 liblzma-dev libmagic1 libncurses5-dev libnettle6 libnghttp2-14
libp11-kit0 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
libpaper-utils libpaper1 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5
libpipeline1 libpixman-1-0 libpng-dev libpng16-16 libreadline-dev
libreadline6-dev librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6
libssh2-1 libssl1.0.2 libtasn1-6 libtcl8.6 libthai-data libthai0 libtiff5
libtimedate-perl libtinfo-dev libtk8.6 libtool libunistring0 libx11-6
libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6
libxft2 libxml2 libxrender1 libxss1 libxt6 m4 man-db openssl po-debconf
r-base-core r-base-dev sbuild-build-depends-r-bioc-affyio-dummy ucf unzip
x11-common xdg-utils zip zlib1g-dev
The following packages will be upgraded:
cpp-5 g++-5 gcc-5 gcc-5-base libasan2 libatomic1 libcc1-0 libgcc-5-dev
libgcc1 libgomp1 libstdc++-5-dev libstdc++6 libubsan0
13 upgraded, 122 newly installed, 0 to remove and 11 not upgraded.
Need to get 139 MB/139 MB of archives.
After this operation, 177 MB of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-x6ZZyb/apt_archive ./ sbuild-build-depends-r-bioc-affyio-dummy 0.invalid.0 [792 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf gcc-6-base armhf 6.1.1-1+rpi1 [170 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf libgcc1 armhf 1:6.1.1-1+rpi1 [38.2 kB]
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Get:5 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-7 [1083 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1 [89.0 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.10 [177 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf libexpat1 armhf 2.1.1-1 [60.4 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf libfreetype6 armhf 2.6.3-3 [384 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf ucf all 3.0036 [70.2 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf fonts-dejavu-core all 2.35-1 [1064 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf fontconfig-config all 2.11.0-6.4 [271 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf libfontconfig1 armhf 2.11.0-6.4 [313 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf fontconfig armhf 2.11.0-6.4 [401 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf libjbig0 armhf 2.1-3.1 [27.5 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf libpaper1 armhf 1.1.24+nmu4 [21.4 kB]
Get:19 http://172.17.0.1/private stretch-staging/main armhf libpcrecpp0v5 armhf 2:8.38-3.1 [148 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf libxdmcp6 armhf 1:1.1.2-1.1 [24.9 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf libxcb1 armhf 1.11.1-1 [40.9 kB]
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Get:26 http://172.17.0.1/private stretch-staging/main armhf libxext6 armhf 2:1.3.3-1 [48.1 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf libxrender1 armhf 1:0.9.9-2 [28.9 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf libxft2 armhf 2.3.2-1 [48.3 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf x11-common all 1:7.7+15 [251 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf libxss1 armhf 1:1.2.2-1 [16.8 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf libgomp1 armhf 6.1.1-1+rpi1 [63.5 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf g++-5 armhf 5.3.1-17 [24.5 MB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf gcc-5 armhf 5.3.1-17 [5288 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf cpp-5 armhf 5.3.1-17 [22.9 MB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf libcc1-0 armhf 6.1.1-1+rpi1 [24.9 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf libatomic1 armhf 6.1.1-1+rpi1 [6804 B]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libasan2 armhf 5.3.1-17 [227 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf libubsan0 armhf 6.1.1-1+rpi1 [90.5 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf libstdc++-5-dev armhf 5.3.1-17 [1430 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf libgcc-5-dev armhf 5.3.1-17 [449 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf gcc-5-base armhf 5.3.1-17 [171 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf libssl1.0.2 armhf 1.0.2h-1 [889 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.25-2 [250 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.25-2 [61.2 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.7-2 [111 kB]
Get:46 http://172.17.0.1/private stretch-staging/main armhf libnettle6 armhf 3.2-1 [202 kB]
Get:47 http://172.17.0.1/private stretch-staging/main armhf libhogweed4 armhf 3.2-1 [126 kB]
Get:48 http://172.17.0.1/private stretch-staging/main armhf libidn11 armhf 1.32-3 [110 kB]
Get:49 http://172.17.0.1/private stretch-staging/main armhf libffi6 armhf 3.2.1-4 [18.5 kB]
Get:50 http://172.17.0.1/private stretch-staging/main armhf libp11-kit0 armhf 0.23.2-3 [93.3 kB]
Get:51 http://172.17.0.1/private stretch-staging/main armhf libtasn1-6 armhf 4.8-1 [44.1 kB]
Get:52 http://172.17.0.1/private stretch-staging/main armhf libgnutls30 armhf 3.4.11-4 [718 kB]
Get:53 http://172.17.0.1/private stretch-staging/main armhf libkeyutils1 armhf 1.5.9-9 [11.9 kB]
Get:54 http://172.17.0.1/private stretch-staging/main armhf libkrb5support0 armhf 1.13.2+dfsg-5 [56.6 kB]
Get:55 http://172.17.0.1/private stretch-staging/main armhf libk5crypto3 armhf 1.13.2+dfsg-5 [110 kB]
Get:56 http://172.17.0.1/private stretch-staging/main armhf libkrb5-3 armhf 1.13.2+dfsg-5 [259 kB]
Get:57 http://172.17.0.1/private stretch-staging/main armhf libgssapi-krb5-2 armhf 1.13.2+dfsg-5 [130 kB]
Get:58 http://172.17.0.1/private stretch-staging/main armhf libsasl2-modules-db armhf 2.1.26.dfsg1-15 [65.6 kB]
Get:59 http://172.17.0.1/private stretch-staging/main armhf libsasl2-2 armhf 2.1.26.dfsg1-15 [96.7 kB]
Get:60 http://172.17.0.1/private stretch-staging/main armhf libldap-2.4-2 armhf 2.4.42+dfsg-2+rpi1+b2 [198 kB]
Get:61 http://172.17.0.1/private stretch-staging/main armhf libicu55 armhf 55.1-7 [7380 kB]
Get:62 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.3+dfsg1-1 [800 kB]
Get:63 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:64 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:65 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:66 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20160430.1 [72.6 kB]
Get:67 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-4 [735 kB]
Get:68 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.7-2 [424 kB]
Get:69 http://172.17.0.1/private stretch-staging/main armhf openssl armhf 1.0.2h-1 [667 kB]
Get:70 http://172.17.0.1/private stretch-staging/main armhf ca-certificates all 20160104 [200 kB]
Get:71 http://172.17.0.1/private stretch-staging/main armhf cdbs all 0.4.130 [76.4 kB]
Get:72 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.48.0-1 [2540 kB]
Get:73 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-1 [131 kB]
Get:74 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.7-2 [1400 kB]
Get:75 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:76 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:77 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.57-1 [95.1 kB]
Get:78 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.016-1 [11.9 kB]
Get:79 http://172.17.0.1/private stretch-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:80 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.016-1 [6998 B]
Get:81 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.6-0.1 [200 kB]
Get:82 http://172.17.0.1/private stretch-staging/main armhf dh-autoreconf all 12 [15.8 kB]
Get:83 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160403 [800 kB]
Get:84 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 6.1.1-1+rpi1 [166 kB]
Get:85 http://172.17.0.1/private stretch-staging/main armhf libgfortran-5-dev armhf 5.3.1-17 [182 kB]
Get:86 http://172.17.0.1/private stretch-staging/main armhf gfortran-5 armhf 5.3.1-17 [23.7 MB]
Get:87 http://172.17.0.1/private stretch-staging/main armhf gfortran armhf 4:5.3.1-1+rpi1 [1362 B]
Get:88 http://172.17.0.1/private stretch-staging/main armhf libblas-common armhf 3.6.0-2 [13.5 kB]
Get:89 http://172.17.0.1/private stretch-staging/main armhf libblas3 armhf 3.6.0-2 [110 kB]
Get:90 http://172.17.0.1/private stretch-staging/main armhf libblas-dev armhf 3.6.0-2 [116 kB]
Get:91 http://172.17.0.1/private stretch-staging/main armhf libbz2-dev armhf 1.0.6-8 [27.8 kB]
Get:92 http://172.17.0.1/private stretch-staging/main armhf libpixman-1-0 armhf 0.33.6-1 [454 kB]
Get:93 http://172.17.0.1/private stretch-staging/main armhf libxcb-render0 armhf 1.11.1-1 [17.0 kB]
Get:94 http://172.17.0.1/private stretch-staging/main armhf libxcb-shm0 armhf 1.11.1-1 [11.5 kB]
Get:95 http://172.17.0.1/private stretch-staging/main armhf libcairo2 armhf 1.14.6-1 [688 kB]
Get:96 http://172.17.0.1/private stretch-staging/main armhf libnghttp2-14 armhf 1.10.0-1 [72.2 kB]
Get:97 http://172.17.0.1/private stretch-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-1 [54.2 kB]
Get:98 http://172.17.0.1/private stretch-staging/main armhf libssh2-1 armhf 1.5.0-2.1 [121 kB]
Get:99 http://172.17.0.1/private stretch-staging/main armhf libcurl3 armhf 7.47.0-1 [247 kB]
Get:100 http://172.17.0.1/private stretch-staging/main armhf libdatrie1 armhf 0.2.10-2 [32.5 kB]
Get:101 http://172.17.0.1/private stretch-staging/main armhf libgraphite2-3 armhf 1.3.8-1 [62.5 kB]
Get:102 http://172.17.0.1/private stretch-staging/main armhf libharfbuzz0b armhf 1.0.1-1+b1 [501 kB]
Get:103 http://172.17.0.1/private stretch-staging/main armhf libice6 armhf 2:1.0.9-1+b1 [51.9 kB]
Get:104 http://172.17.0.1/private stretch-staging/main armhf libjpeg62-turbo armhf 1:1.4.2-2 [104 kB]
Get:105 http://172.17.0.1/private stretch-staging/main armhf libjpeg62-turbo-dev armhf 1:1.4.2-2 [413 kB]
Get:106 http://172.17.0.1/private stretch-staging/main armhf libjpeg-dev all 1:1.4.2-2 [51.7 kB]
Get:107 http://172.17.0.1/private stretch-staging/main armhf liblapack3 armhf 3.6.0-2 [1382 kB]
Get:108 http://172.17.0.1/private stretch-staging/main armhf liblapack-dev armhf 3.6.0-2 [1355 kB]
Get:109 http://172.17.0.1/private stretch-staging/main armhf liblzma-dev armhf 5.1.1alpha+20120614-2.1 [248 kB]
Get:110 http://172.17.0.1/private stretch-staging/main armhf libtinfo-dev armhf 6.0+20160319-1 [65.7 kB]
Get:111 http://172.17.0.1/private stretch-staging/main armhf libncurses5-dev armhf 6.0+20160319-1 [153 kB]
Get:112 http://172.17.0.1/private stretch-staging/main armhf libthai-data all 0.1.24-2 [163 kB]
Get:113 http://172.17.0.1/private stretch-staging/main armhf libthai0 armhf 0.1.24-2 [46.6 kB]
Get:114 http://172.17.0.1/private stretch-staging/main armhf libpango-1.0-0 armhf 1.40.1-1 [293 kB]
Get:115 http://172.17.0.1/private stretch-staging/main armhf libpangoft2-1.0-0 armhf 1.40.1-1 [231 kB]
Get:116 http://172.17.0.1/private stretch-staging/main armhf libpangocairo-1.0-0 armhf 1.40.1-1 [220 kB]
Get:117 http://172.17.0.1/private stretch-staging/main armhf libpaper-utils armhf 1.1.24+nmu4 [17.2 kB]
Get:118 http://172.17.0.1/private stretch-staging/main armhf libpcre16-3 armhf 2:8.38-3.1 [229 kB]
Get:119 http://172.17.0.1/private stretch-staging/main armhf libpcre32-3 armhf 2:8.38-3.1 [223 kB]
Get:120 http://172.17.0.1/private stretch-staging/main armhf libpcre3-dev armhf 2:8.38-3.1 [556 kB]
Get:121 http://172.17.0.1/private stretch-staging/main armhf libpng16-16 armhf 1.6.21-4 [257 kB]
Get:122 http://172.17.0.1/private stretch-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
Get:123 http://172.17.0.1/private stretch-staging/main armhf libpng-dev armhf 1.6.21-4 [223 kB]
Get:124 http://172.17.0.1/private stretch-staging/main armhf libreadline6-dev armhf 6.3-8+b3 [105 kB]
Get:125 http://172.17.0.1/private stretch-staging/main armhf libreadline-dev armhf 6.3-8+b3 [958 B]
Get:126 http://172.17.0.1/private stretch-staging/main armhf libsm6 armhf 2:1.2.2-1+b1 [31.2 kB]
Get:127 http://172.17.0.1/private stretch-staging/main armhf libtcl8.6 armhf 8.6.5+dfsg-2 [862 kB]
Get:128 http://172.17.0.1/private stretch-staging/main armhf libtiff5 armhf 4.0.6-1 [201 kB]
Get:129 http://172.17.0.1/private stretch-staging/main armhf libtk8.6 armhf 8.6.5-1 [657 kB]
Get:130 http://172.17.0.1/private stretch-staging/main armhf libxt6 armhf 1:1.1.5-1 [155 kB]
Get:131 http://172.17.0.1/private stretch-staging/main armhf zip armhf 3.0-11 [212 kB]
Get:132 http://172.17.0.1/private stretch-staging/main armhf unzip armhf 6.0-20 [142 kB]
Get:133 http://172.17.0.1/private stretch-staging/main armhf xdg-utils all 1.1.1-1 [71.1 kB]
Get:134 http://172.17.0.1/private stretch-staging/main armhf r-base-core armhf 3.3.0-1 [20.7 MB]
Get:135 http://172.17.0.1/private stretch-staging/main armhf r-base-dev all 3.3.0-1 [4292 B]
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Processing triggers for libc-bin (2.22-7) ...
Processing triggers for systemd (229-5) ...
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Setting up bsdmainutils (9.0.10) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
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Setting up fontconfig (2.11.0-6.4) ...
Regenerating fonts cache... done.
Setting up libjbig0:armhf (2.1-3.1) ...
Setting up libpaper1:armhf (1.1.24+nmu4) ...
Creating config file /etc/papersize with new version
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Setting up libunistring0:armhf (0.9.3-5.2) ...
Setting up libxau6:armhf (1:1.0.8-1) ...
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Setting up libxrender1:armhf (1:0.9.9-2) ...
Setting up libxft2:armhf (2.3.2-1) ...
Setting up x11-common (1:7.7+15) ...
update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
Running in chroot, ignoring request.
All runlevel operations denied by policy
invoke-rc.d: policy-rc.d denied execution of start.
Setting up libxss1:armhf (1:1.2.2-1) ...
Setting up libgomp1:armhf (6.1.1-1+rpi1) ...
Setting up gcc-5-base:armhf (5.3.1-17) ...
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Setting up libatomic1:armhf (6.1.1-1+rpi1) ...
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Setting up libgnutls30:armhf (3.4.11-4) ...
Setting up libkeyutils1:armhf (1.5.9-9) ...
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Setting up libk5crypto3:armhf (1.13.2+dfsg-5) ...
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Setting up libsasl2-modules-db:armhf (2.1.26.dfsg1-15) ...
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Setting up libldap-2.4-2:armhf (2.4.42+dfsg-2+rpi1+b2) ...
Setting up libicu55:armhf (55.1-7) ...
Setting up libxml2:armhf (2.9.3+dfsg1-1) ...
Setting up libsigsegv2:armhf (2.10-5) ...
Setting up m4 (1.4.17-5) ...
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Setting up automake (1:1.15-4) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up autopoint (0.19.7-2) ...
Setting up openssl (1.0.2h-1) ...
Setting up ca-certificates (20160104) ...
Setting up cdbs (0.4.130) ...
Setting up libglib2.0-0:armhf (2.48.0-1) ...
No schema files found: doing nothing.
Setting up libcroco3:armhf (0.6.11-1) ...
Setting up gettext (0.19.7-2) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up po-debconf (1.0.19) ...
Setting up libarchive-zip-perl (1.57-1) ...
Setting up libfile-stripnondeterminism-perl (0.016-1) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libtool (2.4.6-0.1) ...
Setting up libgfortran3:armhf (6.1.1-1+rpi1) ...
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Setting up gfortran (4:5.3.1-1+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 libblas-common (3.6.0-2) ...
Setting up libblas3 (3.6.0-2) ...
update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
Setting up libblas-dev (3.6.0-2) ...
update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
Setting up libbz2-dev:armhf (1.0.6-8) ...
Setting up libpixman-1-0:armhf (0.33.6-1) ...
Setting up libxcb-render0:armhf (1.11.1-1) ...
Setting up libxcb-shm0:armhf (1.11.1-1) ...
Setting up libcairo2:armhf (1.14.6-1) ...
Setting up libnghttp2-14:armhf (1.10.0-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-1) ...
Setting up libssh2-1:armhf (1.5.0-2.1) ...
Setting up libcurl3:armhf (7.47.0-1) ...
Setting up libdatrie1:armhf (0.2.10-2) ...
Setting up libgraphite2-3:armhf (1.3.8-1) ...
Setting up libharfbuzz0b:armhf (1.0.1-1+b1) ...
Setting up libice6:armhf (2:1.0.9-1+b1) ...
Setting up libjpeg62-turbo:armhf (1:1.4.2-2) ...
Setting up libjpeg62-turbo-dev:armhf (1:1.4.2-2) ...
Setting up libjpeg-dev (1:1.4.2-2) ...
Setting up liblapack3 (3.6.0-2) ...
update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up liblapack-dev (3.6.0-2) ...
update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
Setting up liblzma-dev:armhf (5.1.1alpha+20120614-2.1) ...
Setting up libtinfo-dev:armhf (6.0+20160319-1) ...
Setting up libncurses5-dev:armhf (6.0+20160319-1) ...
Setting up libthai-data (0.1.24-2) ...
Setting up libthai0:armhf (0.1.24-2) ...
Setting up libpango-1.0-0:armhf (1.40.1-1) ...
Setting up libpangoft2-1.0-0:armhf (1.40.1-1) ...
Setting up libpangocairo-1.0-0:armhf (1.40.1-1) ...
Setting up libpaper-utils (1.1.24+nmu4) ...
Setting up libpcre16-3:armhf (2:8.38-3.1) ...
Setting up libpcre32-3:armhf (2:8.38-3.1) ...
Setting up libpcre3-dev:armhf (2:8.38-3.1) ...
Setting up libpng16-16:armhf (1.6.21-4) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-2+b1) ...
Setting up libpng-dev:armhf (1.6.21-4) ...
Setting up libreadline6-dev:armhf (6.3-8+b3) ...
Setting up libreadline-dev:armhf (6.3-8+b3) ...
Setting up libsm6:armhf (2:1.2.2-1+b1) ...
Setting up libtcl8.6:armhf (8.6.5+dfsg-2) ...
Setting up libtiff5:armhf (4.0.6-1) ...
Setting up libtk8.6:armhf (8.6.5-1) ...
Setting up libxt6:armhf (1:1.1.5-1) ...
Setting up zip (3.0-11) ...
Setting up unzip (6.0-20) ...
Setting up xdg-utils (1.1.1-1) ...
Setting up r-base-core (3.3.0-1) ...
Creating config file /etc/R/Renviron with new version
Setting up r-base-dev (3.3.0-1) ...
Setting up dh-autoreconf (12) ...
Setting up debhelper (9.20160403) ...
Setting up sbuild-build-depends-r-bioc-affyio-dummy (0.invalid.0) ...
Setting up dh-strip-nondeterminism (0.016-1) ...
Processing triggers for libc-bin (2.22-7) ...
Processing triggers for systemd (229-5) ...
Processing triggers for ca-certificates (20160104) ...
Updating certificates in /etc/ssl/certs...
173 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.4.0-1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.26-8 dpkg-dev_1.18.4 g++-5_5.3.1-17 gcc-5_5.3.1-17 libc6-dev_2.22-7 libstdc++-5-dev_5.3.1-17 libstdc++6_6.1.1-1+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.114 apt_1.2.11 autoconf_2.69-10 automake_1:1.15-4 autopoint_0.19.7-2 autotools-dev_20160430.1 base-files_9.6+rpi1 base-passwd_3.5.39 bash_4.3-14 binutils_2.26-8 bsdmainutils_9.0.10 bsdutils_1:2.28-1 build-essential_11.7 bzip2_1.0.6-8 ca-certificates_20160104 cdbs_0.4.130 coreutils_8.25-2 cpio_2.11+dfsg-5 cpp_4:5.3.1-1+rpi1 cpp-5_5.3.1-17 dash_0.5.8-2.2 debconf_1.5.59 debfoster_2.7-2 debhelper_9.20160403 debianutils_4.7 dh-autoreconf_12 dh-strip-nondeterminism_0.016-1 diffutils_1:3.3-3 dmsetup_2:1.02.123-1 dpkg_1.18.4 dpkg-dev_1.18.4 e2fslibs_1.43~WIP.2016.03.15-2 e2fsprogs_1.43~WIP.2016.03.15-2 fakeroot_1.20.2-1 file_1:5.25-2 findutils_4.6.0+git+20160126-2 fontconfig_2.11.0-6.4 fontconfig-config_2.11.0-6.4 fonts-dejavu-core_2.35-1 g++_4:5.3.1-1+rpi1 g++-5_5.3.1-17 gcc_4:5.3.1-1+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-14 gcc-5_5.3.1-17 gcc-5-base_5.3.1-17 gcc-6-base_6.1.1-1+rpi1 gettext_0.19.7-2 gettext-base_0.19.7-2 gfortran_4:5.3.1-1+rpi1 gfortran-5_5.3.1-17 gnupg_1.4.20-6 gpgv_1.4.20-6 grep_2.25-1 groff-base_1.22.3-7 gzip_1.6-5 hostname_3.17 init_1.31 init-system-helpers_1.31 initscripts_2.88dsf-59.3 insserv_1.14.0-5.3 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-8+rpi1 kmod_22-1.1 libacl1_2.2.52-3 libapparmor1_2.10-4 libapt-pkg5.0_1.2.11 libarchive-zip-perl_1.57-1 libasan2_5.3.1-17 libatomic1_6.1.1-1+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.4.5-1 libaudit1_1:2.4.5-1 libblas-common_3.6.0-2 libblas-dev_3.6.0-2 libblas3_3.6.0-2 libblkid1_2.28-1 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libbz2-dev_1.0.6-8 libc-bin_2.22-7 libc-dev-bin_2.22-7 libc6_2.22-7 libc6-dev_2.22-7 libcairo2_1.14.6-1 libcap2_1:2.24-12 libcap2-bin_1:2.24-12 libcc1-0_6.1.1-1+rpi1 libcomerr2_1.43~WIP.2016.03.15-2 libcroco3_0.6.11-1 libcryptsetup4_2:1.7.0-2 libcurl3_7.47.0-1 libdatrie1_0.2.10-2 libdb5.3_5.3.28-11 libdbus-1-3_1.10.8-1 libdebconfclient0_0.209 libdevmapper1.02.1_2:1.02.123-1 libdpkg-perl_1.18.4 libdrm2_2.4.67-1 libexpat1_2.1.1-1 libfakeroot_1.20.2-1 libfdisk1_2.28-1 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.016-1 libfontconfig1_2.11.0-6.4 libfreetype6_2.6.3-3 libgc1c2_1:7.4.2-7.4 libgcc-5-dev_5.3.1-17 libgcc1_1:6.1.1-1+rpi1 libgcrypt20_1.7.0-2 libgdbm3_1.8.3-13.1 libgfortran-5-dev_5.3.1-17 libgfortran3_6.1.1-1+rpi1 libglib2.0-0_2.48.0-1 libgmp10_2:6.1.0+dfsg-2 libgnutls30_3.4.11-4 libgomp1_6.1.1-1+rpi1 libgpg-error0_1.22-1 libgraphite2-3_1.3.8-1 libgssapi-krb5-2_1.13.2+dfsg-5 libharfbuzz0b_1.0.1-1+b1 libhogweed4_3.2-1 libice6_2:1.0.9-1+b1 libicu55_55.1-7 libidn11_1.32-3 libisl15_0.16.1-1 libjbig0_2.1-3.1 libjpeg-dev_1:1.4.2-2 libjpeg62-turbo_1:1.4.2-2 libjpeg62-turbo-dev_1:1.4.2-2 libk5crypto3_1.13.2+dfsg-5 libkeyutils1_1.5.9-9 libklibc_2.0.4-8+rpi1 libkmod2_22-1.1 libkrb5-3_1.13.2+dfsg-5 libkrb5support0_1.13.2+dfsg-5 liblapack-dev_3.6.0-2 liblapack3_3.6.0-2 libldap-2.4-2_2.4.42+dfsg-2+rpi1+b2 liblz4-1_0.0~r131-2 liblzma-dev_5.1.1alpha+20120614-2.1 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.25-2 libmount1_2.28-1 libmpc3_1.0.3-1 libmpfr4_3.1.4-1 libncurses5_6.0+20160319-1 libncurses5-dev_6.0+20160319-1 libncursesw5_6.0+20160319-1 libnettle6_3.2-1 libnghttp2-14_1.10.0-1 libp11-kit0_0.23.2-3 libpam-modules_1.1.8-3.2 libpam-modules-bin_1.1.8-3.2 libpam-runtime_1.1.8-3.2 libpam0g_1.1.8-3.2 libpango-1.0-0_1.40.1-1 libpangocairo-1.0-0_1.40.1-1 libpangoft2-1.0-0_1.40.1-1 libpaper-utils_1.1.24+nmu4 libpaper1_1.1.24+nmu4 libpcre16-3_2:8.38-3.1 libpcre3_2:8.38-3.1 libpcre3-dev_2:8.38-3.1 libpcre32-3_2:8.38-3.1 libpcrecpp0v5_2:8.38-3.1 libperl5.22_5.22.2-1 libpipeline1_1.4.1-2 libpixman-1-0_0.33.6-1 libpng-dev_1.6.21-4 libpng12-0_1.2.54-6 libpng16-16_1.6.21-4 libprocps5_2:3.3.11-3 libreadline-dev_6.3-8+b3 libreadline6_6.3-8+b3 libreadline6-dev_6.3-8+b3 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.26.dfsg1-15 libsasl2-modules-db_2.1.26.dfsg1-15 libseccomp2_2.3.0-1 libselinux1_2.5-2 libsemanage-common_2.5-1 libsemanage1_2.5-1 libsepol1_2.5-1 libsigsegv2_2.10-5 libsm6_2:1.2.2-1+b1 libsmartcols1_2.28-1 libss2_1.43~WIP.2016.03.15-2 libssh2-1_1.5.0-2.1 libssl1.0.2_1.0.2h-1 libstdc++-5-dev_5.3.1-17 libstdc++6_6.1.1-1+rpi1 libsystemd0_229-5 libtasn1-6_4.8-1 libtcl8.6_8.6.5+dfsg-2 libthai-data_0.1.24-2 libthai0_0.1.24-2 libtiff5_4.0.6-1 libtimedate-perl_2.3000-2 libtinfo-dev_6.0+20160319-1 libtinfo5_6.0+20160319-1 libtk8.6_8.6.5-1 libtool_2.4.6-0.1 libubsan0_6.1.1-1+rpi1 libudev1_229-5 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-28 libustr-1.0-1_1.0.4-5 libuuid1_2.28-1 libx11-6_2:1.6.3-1 libx11-data_2:1.6.3-1 libxau6_1:1.0.8-1 libxcb-render0_1.11.1-1 libxcb-shm0_1.11.1-1 libxcb1_1.11.1-1 libxdmcp6_1:1.1.2-1.1 libxext6_2:1.3.3-1 libxft2_2.3.2-1 libxml2_2.9.3+dfsg1-1 libxrender1_1:0.9.9-2 libxss1_1:1.2.2-1 libxt6_1:1.1.5-1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.2-3.1 lsb-base_9.20160110+rpi1 m4_1.4.17-5 make_4.1-9 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.05-1 mawk_1.3.3-17 mount_2.28-1 multiarch-support_2.22-7 nano_2.5.3-3 ncurses-base_6.0+20160319-1 ncurses-bin_6.0+20160319-1 openssl_1.0.2h-1 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.2-1 perl-base_5.22.2-1 perl-modules-5.22_5.22.2-1 po-debconf_1.0.19 procps_2:3.3.11-3 r-base-core_3.3.0-1 r-base-dev_3.3.0-1 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-affyio-dummy_0.invalid.0 sed_4.2.2-7.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_229-5 systemd-sysv_229-5 sysv-rc_2.88dsf-59.3 sysvinit-utils_2.88dsf-59.3 tar_1.28-2.1 tzdata_2016d-2 ucf_3.0036 udev_229-5 unzip_6.0-20 util-linux_2.28-1 x11-common_1:7.7+15 xdg-utils_1.1.1-1 xz-utils_5.1.1alpha+20120614-2.1 zip_3.0-11 zlib1g_1:1.2.8.dfsg-2+b1 zlib1g-dev_1:1.2.8.dfsg-2+b1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Sun May 8 08:38:29 2016 UTC using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./r-bioc-affyio_1.42.0-1.dsc
dpkg-source: info: extracting r-bioc-affyio in r-bioc-affyio-1.42.0
dpkg-source: info: unpacking r-bioc-affyio_1.42.0.orig.tar.gz
dpkg-source: info: unpacking r-bioc-affyio_1.42.0-1.debian.tar.xz
dpkg-source: info: applying use_debian_packaged_zlib.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=root
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-1d4334f7-0501-4d27-b859-ecccecba6487
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: source package r-bioc-affyio
dpkg-buildpackage: source version 1.42.0-1
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build r-bioc-affyio-1.42.0
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
test -x debian/rules
dh_clean
if test -d src; then \
find src -regex ".*\.o" | \
xargs --no-run-if-empty -r rm; \
fi
rm -f config.log config.status
debian/rules build-arch
test -x debian/rules
mkdir -p "."
fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep
dh_installdirs -A
mkdir -p "."
dh_installdirs usr/lib/R/site-library
echo "R:Depends=r-base-core (>= 3.3.0-1), r-api-3" >> debian/r-bioc-affyio.substvars
if test -f /usr/bin/xvfb-run; then \
xvfb-run -a \
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-affyio/usr/lib/R/site-library --clean \
. \
"--built-timestamp=\"Sun, 08 May 2016 10:36:53 +0200\"" \
; \
else \
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-affyio/usr/lib/R/site-library \
--clean . \
"--built-timestamp=\"Sun, 08 May 2016 10:36:53 +0200\"" \
; \
fi
* installing *source* package 'affyio' ...
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for main in -lz... yes
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking if zlib version >= 1.1.3... yes
checking for pthread_create in -lpthread... yes
checking if we can use pthreads... yes
checking if PTHREAD_STACK_MIN is defined... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fread_functions.c -o fread_functions.o
fread_functions.c: In function 'gzread_int32':
fread_functions.c:414:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(int)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_uint32':
fread_functions.c:439:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(unsigned int)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_int16':
fread_functions.c:458:20: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(short)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_uint16':
fread_functions.c:476:20: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(unsigned short)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_float32':
fread_functions.c:497:20: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(float)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_char':
fread_functions.c:513:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(char)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_uchar':
fread_functions.c:529:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(unsigned char)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_double64':
fread_functions.c:547:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream, destination,sizeof(double)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_be_int32':
fread_functions.c:575:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(int)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_be_uint32':
fread_functions.c:600:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(unsigned int)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_be_int16':
fread_functions.c:620:20: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(short)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_be_uint16':
fread_functions.c:636:20: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(unsigned short)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_be_float32':
fread_functions.c:656:20: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(float)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_be_char':
fread_functions.c:673:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(char)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_be_uchar':
fread_functions.c:690:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream,destination,sizeof(unsigned char)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
fread_functions.c: In function 'gzread_be_double64':
fread_functions.c:706:19: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
result = gzread(instream, destination,sizeof(double)*n);
^
In file included from fread_functions.h:12:0,
from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init_package.c -o init_package.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_abatch.c -o read_abatch.o
read_abatch.c: In function 'gz_get_detailed_header_info':
read_abatch.c:1989:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
currentFile = open_gz_cel_file(filename);
^
read_abatch.c:1991:22: warning: passing argument 1 of 'gzAdvanceToSection' from incompatible pointer type [-Wincompatible-pointer-types]
gzAdvanceToSection(currentFile,"[HEADER]",buffer);
^
read_abatch.c:1439:13: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzAdvanceToSection(gzFile my_file,char *sectiontitle, char *buffer){
^
read_abatch.c:1993:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"Cols",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:1998:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"Rows",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2003:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"GridCornerUL",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2009:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"GridCornerUR",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2015:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"GridCornerLR",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2021:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"GridCornerLL",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2027:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"DatHeader",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2059:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"Algorithm",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2067:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"AlgorithmParameters",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2072:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(currentFile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c: In function 'gz_get_masks_outliers':
read_abatch.c:2100:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
currentFile = open_gz_cel_file(filename);
^
read_abatch.c:2104:22: warning: passing argument 1 of 'gzAdvanceToSection' from incompatible pointer type [-Wincompatible-pointer-types]
gzAdvanceToSection(currentFile,"[MASKS]",buffer);
^
read_abatch.c:1439:13: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzAdvanceToSection(gzFile my_file,char *sectiontitle, char *buffer){
^
read_abatch.c:2105:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"NumberCells=",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2109:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"CellHeader=",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2118:38: warning: passing argument 3 of 'ReadgzFileLine' from incompatible pointer type [-Wincompatible-pointer-types]
ReadgzFileLine(buffer, BUF_SIZE, currentFile);
^
read_abatch.c:1354:13: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void ReadgzFileLine(char *buffer, int buffersize, gzFile currentFile){
^
read_abatch.c:2133:22: warning: passing argument 1 of 'gzAdvanceToSection' from incompatible pointer type [-Wincompatible-pointer-types]
gzAdvanceToSection(currentFile,"[OUTLIERS]",buffer);
^
read_abatch.c:1439:13: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzAdvanceToSection(gzFile my_file,char *sectiontitle, char *buffer){
^
read_abatch.c:2134:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"NumberCells=",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2138:20: warning: passing argument 1 of 'gzfindStartsWith' from incompatible pointer type [-Wincompatible-pointer-types]
gzfindStartsWith(currentFile,"CellHeader=",buffer);
^
read_abatch.c:1416:14: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
^
read_abatch.c:2146:38: warning: passing argument 3 of 'ReadgzFileLine' from incompatible pointer type [-Wincompatible-pointer-types]
ReadgzFileLine(buffer, BUF_SIZE, currentFile);
^
read_abatch.c:1354:13: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
static void ReadgzFileLine(char *buffer, int buffersize, gzFile currentFile){
^
read_abatch.c:2158:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(currentFile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c: In function 'isgzBinaryCelFile':
read_abatch.c:3141:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_abatch.c:3148:13: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c:3153:13: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c:3159:13: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c:3164:13: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c:3169:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c: In function 'gzread_binary_header':
read_abatch.c:3192:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_abatch.c:3247:15: warning: passing argument 1 of 'gzread' from incompatible pointer type [-Wincompatible-pointer-types]
if (!gzread(infile,this_header->header,sizeof(char)*this_header->header_len)){
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1313:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
^
read_abatch.c:3289:13: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c: In function 'gzread_binarycel_file_intensities':
read_abatch.c:3591:10: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(my_header->gzinfile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c:3597:10: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(my_header->infile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'FILE * {aka struct _IO_FILE *}'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c:3607:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(my_header->gzinfile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c: In function 'gzread_binarycel_file_stddev':
read_abatch.c:3644:10: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(my_header->gzinfile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c:3654:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(my_header->gzinfile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c: In function 'gzread_binarycel_file_npixels':
read_abatch.c:3692:10: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(my_header->infile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'FILE * {aka struct _IO_FILE *}'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c:3702:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(my_header->gzinfile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c: In function 'gz_binary_apply_masks':
read_abatch.c:3735:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(my_header->infile,my_header->n_cells*sizeofrecords,SEEK_CUR);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'FILE * {aka struct _IO_FILE *}'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_abatch.c:3748:12: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(my_header->gzinfile,my_header->n_masks*sizeof(cur_loc),SEEK_CUR);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_abatch.c:3761:12: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(my_header->gzinfile,my_header->n_outliers*sizeof(cur_loc),SEEK_CUR);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_abatch.c:3764:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(my_header->gzinfile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_abatch.c: In function 'gzbinary_get_masks_outliers':
read_abatch.c:3797:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(my_header->gzinfile,my_header->n_cells*sizeofrecords,SEEK_CUR);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_abatch.c:3827:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(my_header->gzinfile);
^
In file included from fread_functions.h:12:0,
from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_bpmap.c -o read_bpmap.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_cdf_xda.c -o read_cdf_xda.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_cdffile2.c -o read_cdffile2.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_celfile_generic.c -o read_celfile_generic.o
read_celfile_generic.c: In function 'isgzGenericCelFile':
read_celfile_generic.c:1067:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_celfile_generic.c:1074:13: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c:1080:13: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c:1089:12: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c:1094:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c: In function 'gzgeneric_get_header_info':
read_celfile_generic.c:1115:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_celfile_generic.c:1151:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c: In function 'gzgeneric_get_detailed_header_info':
read_celfile_generic.c:1175:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_celfile_generic.c:1633:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c: In function 'check_gzgeneric_cel_file':
read_celfile_generic.c:1661:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_celfile_generic.c:1701:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c: In function 'gzread_genericcel_file_intensities':
read_celfile_generic.c:1726:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_celfile_generic.c:1745:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c: In function 'gzread_genericcel_file_stddev':
read_celfile_generic.c:1777:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_celfile_generic.c:1790:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:1802:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c: In function 'gzread_genericcel_file_npixels':
read_celfile_generic.c:1831:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_celfile_generic.c:1844:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:1848:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:1861:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c: In function 'gzgeneric_get_masks_outliers':
read_celfile_generic.c:1896:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_celfile_generic.c:1910:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:1915:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:1920:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:1939:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:1960:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_celfile_generic.c: In function 'gzgeneric_apply_masks':
read_celfile_generic.c:1991:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_celfile_generic.c:2012:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:2017:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:2022:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:2038:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_celfile_generic.c:2056:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_clf.c -o read_clf.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_generic.c -o read_generic.o
read_generic.c: In function 'gzread_ASTRING_fw':
read_generic.c:927:9: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(instream, length-destination->len, SEEK_CUR);
^
In file included from fread_functions.h:12:0,
from read_generic.c:50:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_generic.c: In function 'gzread_AWSTRING_fw':
read_generic.c:973:9: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(instream, length-2*destination->len, SEEK_CUR);
^
In file included from fread_functions.h:12:0,
from read_generic.c:50:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_generic.c: In function 'gzRead_Generic':
read_generic.c:1508:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(cur_file_name, "rb")) == NULL)
^
read_generic.c:1540:14: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from fread_functions.h:12:0,
from read_generic.c:50:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_multichannel_celfile_generic.c -o read_multichannel_celfile_generic.o
read_multichannel_celfile_generic.c: In function 'isgzGenericMultiChannelCelFile':
read_multichannel_celfile_generic.c:620:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_multichannel_celfile_generic.c:627:13: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c:633:13: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c:642:12: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c:647:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c: In function 'gzmultichannel_determine_number_channels':
read_multichannel_celfile_generic.c:677:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_multichannel_celfile_generic.c:701:12: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile,next_group,SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:704:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c: In function 'gzmultichannel_determine_channel_name':
read_multichannel_celfile_generic.c:729:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_multichannel_celfile_generic.c:741:12: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile,next_group,SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:751:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c: In function 'gzread_genericcel_file_intensities_multichannel':
read_multichannel_celfile_generic.c:778:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_multichannel_celfile_generic.c:793:12: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile,next_group,SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:807:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c: In function 'gzread_genericcel_file_stddev_multichannel':
read_multichannel_celfile_generic.c:834:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_multichannel_celfile_generic.c:849:12: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile,next_group,SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:856:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:867:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c: In function 'gzread_genericcel_file_npixels_multichannel':
read_multichannel_celfile_generic.c:896:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_multichannel_celfile_generic.c:912:12: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile,next_group,SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:919:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:923:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:936:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c: In function 'gzgeneric_get_masks_outliers_multichannel':
read_multichannel_celfile_generic.c:965:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_multichannel_celfile_generic.c:981:12: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile,next_group,SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:989:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:994:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:999:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:1018:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:1039:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
read_multichannel_celfile_generic.c: In function 'gzgeneric_apply_masks_multichannel':
read_multichannel_celfile_generic.c:1069:15: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
if ((infile = gzopen(filename, "rb")) == NULL)
^
read_multichannel_celfile_generic.c:1090:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:1095:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:1100:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:1116:10: warning: passing argument 1 of 'gzseek' from incompatible pointer type [-Wincompatible-pointer-types]
gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
^
read_multichannel_celfile_generic.c:1134:11: warning: passing argument 1 of 'gzclose' from incompatible pointer type [-Wincompatible-pointer-types]
gzclose(infile);
^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s **'
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_pgf.c -o read_pgf.o
read_pgf.c: In function 'pgf_count_probeset_types':
read_pgf.c:1265:28: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types]
my_pgf->probesets->current= my_pgf->probesets->current->next;
^
gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-z,relro -o affyio.so fread_functions.o init_package.o read_abatch.o read_bpmap.o read_cdf_xda.o read_cdffile2.o read_celfile_generic.o read_clf.o read_generic.o read_multichannel_celfile_generic.o read_pgf.o -lpthread -lz -lpthread -L/usr/lib/R/lib -lR
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
installing to /<<PKGBUILDDIR>>/debian/r-bioc-affyio/usr/lib/R/site-library/affyio/libs
** R
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (affyio)
rm -vf /<<PKGBUILDDIR>>/debian/r-bioc-affyio/usr/lib/R/site-library/R.css \
/<<PKGBUILDDIR>>/debian/r-bioc-affyio/usr/lib/R/site-library/affyio/COPYING \
/<<PKGBUILDDIR>>/debian/r-bioc-affyio/usr/lib/R/site-library/affyio/LICENSE.txt \
/<<PKGBUILDDIR>>/debian/r-bioc-affyio/usr/lib/R/site-library/affyio/LICENSE
if test -f debian/overrides; then \
install -d /<<PKGBUILDDIR>>/debian/r-bioc-affyio/usr/share/lintian/overrides ; \
install -m 0644 debian/overrides \
/<<PKGBUILDDIR>>/debian/r-bioc-affyio/usr/share/lintian/overrides/r-bioc-affyio; \
fi
Adding cdbs dependencies to debian/r-bioc-affyio.substvars
dh_installdirs -pr-bioc-affyio
rm -rf debian/r-bioc-affyio/usr/lib/R/site-library/affyio/LICENSE
dh_installdocs -pr-bioc-affyio
dh_installexamples -pr-bioc-affyio
dh_installman -pr-bioc-affyio
dh_installinfo -pr-bioc-affyio
dh_installmenu -pr-bioc-affyio
dh_installcron -pr-bioc-affyio
dh_installinit -pr-bioc-affyio
dh_installdebconf -pr-bioc-affyio
dh_installemacsen -pr-bioc-affyio
dh_installcatalogs -pr-bioc-affyio
dh_installpam -pr-bioc-affyio
dh_installlogrotate -pr-bioc-affyio
dh_installlogcheck -pr-bioc-affyio
dh_installchangelogs -pr-bioc-affyio
dh_installudev -pr-bioc-affyio
dh_lintian -pr-bioc-affyio
dh_bugfiles -pr-bioc-affyio
dh_install -pr-bioc-affyio
dh_link -pr-bioc-affyio
dh_installmime -pr-bioc-affyio
dh_installgsettings -pr-bioc-affyio
dh_strip -pr-bioc-affyio
dh_compress -pr-bioc-affyio
dh_fixperms -pr-bioc-affyio
dh_makeshlibs -pr-bioc-affyio
dh_installdeb -pr-bioc-affyio
dh_perl -pr-bioc-affyio
dh_shlibdeps -pr-bioc-affyio
dh_gencontrol -pr-bioc-affyio
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -pr-bioc-affyio
dh_builddeb -pr-bioc-affyio
dpkg-deb: building package 'r-bioc-affyio-dbgsym' in '../r-bioc-affyio-dbgsym_1.42.0-1_armhf.deb'.
dpkg-deb: building package 'r-bioc-affyio' in '../r-bioc-affyio_1.42.0-1_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-affyio_1.42.0-1_armhf.changes
dpkg-genchanges: warning: package r-bioc-affyio-dbgsym listed in files list but not in control info
dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build r-bioc-affyio-1.42.0
dpkg-buildpackage: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 20160514-1204
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
r-bioc-affyio_1.42.0-1_armhf.changes:
-------------------------------------
Format: 1.8
Date: Sun, 08 May 2016 10:36:53 +0200
Source: r-bioc-affyio
Binary: r-bioc-affyio
Architecture: armhf
Version: 1.42.0-1
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
r-bioc-affyio - BioConductor tools for parsing Affymetrix data files
Changes:
r-bioc-affyio (1.42.0-1) unstable; urgency=medium
.
* New upstream version
* cme fix dpkg-control
Checksums-Sha1:
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5ed6b80a96b693f729def93248357bc9bd485260 66294 r-bioc-affyio_1.42.0-1_armhf.deb
Checksums-Sha256:
a7665fb27037223da04a295d6be42f48c30d9b4ed9b4a69bbbc40b54c3157b3c 154950 r-bioc-affyio-dbgsym_1.42.0-1_armhf.deb
c7596e112ce46795f45a22318197cc97044573bdb6afe558f7db58a0b5f264c8 66294 r-bioc-affyio_1.42.0-1_armhf.deb
Files:
5dfb440d7237a3e7710eceb5d7b4a423 154950 debug extra r-bioc-affyio-dbgsym_1.42.0-1_armhf.deb
7cdaad7a3819fe64bc0a172c21cefbf2 66294 gnu-r optional r-bioc-affyio_1.42.0-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
r-bioc-affyio-dbgsym_1.42.0-1_armhf.deb
---------------------------------------
new debian package, version 2.0.
size 154950 bytes: control archive=506 bytes.
466 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: r-bioc-affyio-dbgsym
Source: r-bioc-affyio
Version: 1.42.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 175
Depends: r-bioc-affyio (= 1.42.0-1)
Section: debug
Priority: extra
Homepage: http://bioconductor.org/packages/release/bioc/html/affyio.html
Description: Debug symbols for r-bioc-affyio
Auto-Built-Package: debug-symbols
Build-Ids: df60f330ba150f7790638562e20c533258de2d56
drwxr-xr-x root/root 0 2016-05-14 12:04 ./
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/debug/.build-id/df/
-rw-r--r-- root/root 168000 2016-05-14 12:04 ./usr/lib/debug/.build-id/df/60f330ba150f7790638562e20c533258de2d56.debug
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/share/
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-05-14 12:04 ./usr/share/doc/r-bioc-affyio-dbgsym -> r-bioc-affyio
r-bioc-affyio_1.42.0-1_armhf.deb
--------------------------------
new debian package, version 2.0.
size 66294 bytes: control archive=1241 bytes.
596 bytes, 13 lines control
1780 bytes, 23 lines md5sums
Package: r-bioc-affyio
Version: 1.42.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 208
Depends: r-base-core (>= 3.3.0-1), r-api-3, libc6 (>= 2.4), zlib1g (>= 1:1.1.4)
Section: gnu-r
Priority: optional
Homepage: http://bioconductor.org/packages/release/bioc/html/affyio.html
Description: BioConductor tools for parsing Affymetrix data files
This BioConductor package provides routines for parsing Affymetrix data
files based upon file format information. Primary focus is on accessing
the CEL and CDF file formats.
drwxr-xr-x root/root 0 2016-05-14 12:04 ./
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/
drwxr-xr-x root/root 0 2016-05-14 12:03 ./usr/lib/
drwxr-xr-x root/root 0 2016-05-14 12:03 ./usr/lib/R/
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/R/site-library/
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/
-rw-r--r-- root/root 635 2016-05-14 12:03 ./usr/lib/R/site-library/affyio/DESCRIPTION
-rw-r--r-- root/root 375 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/INDEX
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/Meta/
-rw-r--r-- root/root 483 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/Meta/Rd.rds
-rw-r--r-- root/root 496 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/Meta/hsearch.rds
-rw-r--r-- root/root 228 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/Meta/links.rds
-rw-r--r-- root/root 205 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/Meta/nsInfo.rds
-rw-r--r-- root/root 740 2016-05-14 12:03 ./usr/lib/R/site-library/affyio/Meta/package.rds
-rw-r--r-- root/root 46 2016-05-14 12:03 ./usr/lib/R/site-library/affyio/NAMESPACE
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/R/
-rw-r--r-- root/root 1056 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/R/affyio
-rw-r--r-- root/root 3291 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/R/affyio.rdb
-rw-r--r-- root/root 387 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/R/affyio.rdx
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/help/
-rw-r--r-- root/root 297 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/help/AnIndex
-rw-r--r-- root/root 10724 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/help/affyio.rdb
-rw-r--r-- root/root 334 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/help/affyio.rdx
-rw-r--r-- root/root 171 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/help/aliases.rds
-rw-r--r-- root/root 212 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/help/paths.rds
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/html/
-rw-r--r-- root/root 1785 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/html/00Index.html
-rw-r--r-- root/root 1335 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/html/R.css
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/libs/
-rw-r--r-- root/root 157824 2016-05-14 12:04 ./usr/lib/R/site-library/affyio/libs/affyio.so
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/share/
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-05-14 12:04 ./usr/share/doc/r-bioc-affyio/
-rw-r--r-- root/root 285 2013-09-12 08:59 ./usr/share/doc/r-bioc-affyio/README.test
-rw-r--r-- root/root 357 2016-05-08 08:37 ./usr/share/doc/r-bioc-affyio/changelog.Debian.gz
-rw-r--r-- root/root 193 2016-05-03 21:34 ./usr/share/doc/r-bioc-affyio/changelog.gz
-rw-r--r-- root/root 560 2013-10-18 08:57 ./usr/share/doc/r-bioc-affyio/copyright
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 1580
Build-Time: 107
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 586
Job: r-bioc-affyio_1.42.0-1
Machine Architecture: armhf
Package: r-bioc-affyio
Package-Time: 735
Source-Version: 1.42.0-1
Space: 1580
Status: successful
Version: 1.42.0-1
--------------------------------------------------------------------------------
Finished at 20160514-1204
Build needed 00:12:15, 1580k disc space