Raspbian Package Auto-Building

Build log for r-bioc-affyio (1.40.0-1) on armhf

r-bioc-affyio → 1.40.0-1 → armhf → 2015-11-04 13:39:50 

sbuild (Debian sbuild) 0.65.2 (24 Mar 2015) on bm-wb-01

╔══════════════════════════════════════════════════════════════════════════════╗
║ r-bioc-affyio 1.40.0-1 (armhf)                             04 Nov 2015 13:27 ║
╚══════════════════════════════════════════════════════════════════════════════╝

Package: r-bioc-affyio
Version: 1.40.0-1
Source Version: 1.40.0-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf

I: NOTICE: Log filtering will replace 'build/r-bioc-affyio-MJpwIO/r-bioc-affyio-1.40.0' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/r-bioc-affyio-MJpwIO' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-a1ea6cba-bc5f-49ba-af66-ea68d7155b63' with '«CHROOT»'

┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot                                                                │
└──────────────────────────────────────────────────────────────────────────────┘

Get:1 http://172.17.0.1 stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1 stretch-staging/main Sources [8440 kB]
Get:3 http://172.17.0.1 stretch-staging/main armhf Packages [10.4 MB]
Ign http://172.17.0.1 stretch-staging/main Translation-en
Fetched 18.8 MB in 35s (534 kB/s)
Reading package lists...

┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files                                                           │
└──────────────────────────────────────────────────────────────────────────────┘


Check APT
─────────

Checking available source versions...

Download source files with APT
──────────────────────────────

Reading package lists...
Building dependency tree...
Reading state information...
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 110 kB of source archives.
Get:1 http://172.17.0.1/private/ stretch-staging/main r-bioc-affyio 1.40.0-1 (dsc) [2064 B]
Get:2 http://172.17.0.1/private/ stretch-staging/main r-bioc-affyio 1.40.0-1 (tar) [106 kB]
Get:3 http://172.17.0.1/private/ stretch-staging/main r-bioc-affyio 1.40.0-1 (diff) [2012 B]
Fetched 110 kB in 0s (1690 kB/s)
Download complete and in download only mode

Check architectures
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Check dependencies
──────────────────

Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/«BUILDDIR»/resolver-B9Yib_/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Ign file: ./ InRelease
Get:1 file: ./ Release.gpg [299 B]
Get:2 file: ./ Release [2119 B]
Ign file: ./ Translation-en
Reading package lists...
Reading package lists...

┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver)                         │
└──────────────────────────────────────────────────────────────────────────────┘

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following NEW packages will be installed:
  sbuild-build-depends-core-dummy
debconf: delaying package configuration, since apt-utils is not installed
0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
Need to get 0 B/768 B of archives.
After this operation, 0 B of additional disk space will be used.
Selecting previously unselected package sbuild-build-depends-core-dummy.
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(Reading database ... 12031 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) ...
Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), cdbs, zlib1g-dev, r-base-dev
Filtered Build-Depends: libc6-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), cdbs, zlib1g-dev, r-base-dev
dpkg-deb: building package 'sbuild-build-depends-r-bioc-affyio-dummy' in '/«BUILDDIR»/resolver-il0c8q/apt_archive/sbuild-build-depends-r-bioc-affyio-dummy.deb'.
OK
Ign file: ./ InRelease
Get:1 file: ./ Release.gpg [299 B]
Get:2 file: ./ Release [2119 B]
Ign file: ./ Translation-en
Reading package lists...
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 extra packages will be installed:
  bsdmainutils ca-certificates cdbs debhelper dh-strip-nondeterminism file
  fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
  gfortran-5 groff-base intltool-debian libarchive-zip-perl libblas-common
  libblas-dev libblas3 libbz2-dev libcairo2 libcroco3 libcurl3 libdatrie1
  libexpat1 libffi6 libfile-stripnondeterminism-perl libfontconfig1
  libfreetype6 libgfortran-5-dev libgfortran3 libglib2.0-0 libgnutls-deb0-28
  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 libpng12-dev libreadline-dev libreadline6-dev
  librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libssh2-1 libssl1.0.0
  libtasn1-6 libtcl8.6 libthai-data libthai0 libtiff5 libtimedate-perl
  libtinfo-dev libtk8.6 libunistring0 libx11-6 libx11-data libxau6
  libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2
  libxrender1 libxss1 libxt6 man-db openssl po-debconf r-base-core r-base-dev
  ucf unzip x11-common xdg-utils zip zlib1g-dev
Suggested packages:
  wamerican wordlist whois vacation devscripts dh-make gettext-doc autopoint
  libasprintf-dev libgettextpo-dev gfortran-doc gfortran-5-doc
  libgfortran3-dbg groff gnutls-bin krb5-doc krb5-user liblzma-doc ncurses-doc
  readline-doc tcl8.6 tk8.6 less www-browser libmail-box-perl 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:
  autotools-dev curl wget lynx-cur bzip2-doc libglib2.0-data shared-mime-info
  xdg-user-dirs krb5-locales libsasl2-modules 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:
  bsdmainutils ca-certificates cdbs debhelper dh-strip-nondeterminism file
  fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
  gfortran-5 groff-base intltool-debian libarchive-zip-perl libblas-common
  libblas-dev libblas3 libbz2-dev libcairo2 libcroco3 libcurl3 libdatrie1
  libexpat1 libffi6 libfile-stripnondeterminism-perl libfontconfig1
  libfreetype6 libgfortran-5-dev libgfortran3 libglib2.0-0 libgnutls-deb0-28
  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 libpng12-dev libreadline-dev libreadline6-dev
  librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libssh2-1 libssl1.0.0
  libtasn1-6 libtcl8.6 libthai-data libthai0 libtiff5 libtimedate-perl
  libtinfo-dev libtk8.6 libunistring0 libx11-6 libx11-data libxau6
  libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2
  libxrender1 libxss1 libxt6 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
0 upgraded, 111 newly installed, 0 to remove and 0 not upgraded.
Need to get 79.8 MB/79.8 MB of archives.
After this operation, 246 MB of additional disk space will be used.
Get:1 http://172.17.0.1/private/ stretch-staging/main groff-base armhf 1.22.3-1 [1085 kB]
Get:2 http://172.17.0.1/private/ stretch-staging/main bsdmainutils armhf 9.0.6 [177 kB]
Get:3 http://172.17.0.1/private/ stretch-staging/main libpipeline1 armhf 1.4.1-1 [23.9 kB]
Get:4 http://172.17.0.1/private/ stretch-staging/main man-db armhf 2.7.4-1 [974 kB]
Get:5 http://172.17.0.1/private/ stretch-staging/main libexpat1 armhf 2.1.0-7 [59.8 kB]
Get:6 http://172.17.0.1/private/ stretch-staging/main libfreetype6 armhf 2.6-2 [397 kB]
Get:7 http://172.17.0.1/private/ stretch-staging/main ucf all 3.0030 [69.7 kB]
Get:8 http://172.17.0.1/private/ stretch-staging/main fonts-dejavu-core all 2.35-1 [1064 kB]
Get:9 http://172.17.0.1/private/ stretch-staging/main fontconfig-config all 2.11.0-6.3 [273 kB]
Get:10 http://172.17.0.1/private/ stretch-staging/main libfontconfig1 armhf 2.11.0-6.3 [311 kB]
Get:11 http://172.17.0.1/private/ stretch-staging/main fontconfig armhf 2.11.0-6.3 [402 kB]
Get:12 http://172.17.0.1/private/ stretch-staging/main libffi6 armhf 3.2.1-3 [18.5 kB]
Get:13 http://172.17.0.1/private/ stretch-staging/main libglib2.0-0 armhf 2.46.1-1 [2480 kB]
Get:14 http://172.17.0.1/private/ stretch-staging/main libicu55 armhf 55.1-5 [7378 kB]
Get:15 http://172.17.0.1/private/ stretch-staging/main libxml2 armhf 2.9.2+zdfsg1-4 [797 kB]
Get:16 http://172.17.0.1/private/ stretch-staging/main libcroco3 armhf 0.6.8-3 [121 kB]
Get:17 http://172.17.0.1/private/ stretch-staging/main libjbig0 armhf 2.1-3.1 [27.5 kB]
Get:18 http://172.17.0.1/private/ stretch-staging/main libpaper1 armhf 1.1.24+nmu4 [21.4 kB]
Get:19 http://172.17.0.1/private/ stretch-staging/main libpcrecpp0v5 armhf 2:8.35-7.2 [141 kB]
Get:20 http://172.17.0.1/private/ stretch-staging/main libssh2-1 armhf 1.5.0-2 [122 kB]
Get:21 http://172.17.0.1/private/ stretch-staging/main libtcl8.6 armhf 8.6.4+dfsg-2 [866 kB]
Get:22 http://172.17.0.1/private/ stretch-staging/main libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:23 http://172.17.0.1/private/ stretch-staging/main libxdmcp6 armhf 1:1.1.2-1 [25.0 kB]
Get:24 http://172.17.0.1/private/ stretch-staging/main libxcb1 armhf 1.10-3+b1 [40.6 kB]
Get:25 http://172.17.0.1/private/ stretch-staging/main libx11-data all 2:1.6.3-1 [128 kB]
Get:26 http://172.17.0.1/private/ stretch-staging/main libx11-6 armhf 2:1.6.3-1 [678 kB]
Get:27 http://172.17.0.1/private/ stretch-staging/main libxext6 armhf 2:1.3.3-1 [48.1 kB]
Get:28 http://172.17.0.1/private/ stretch-staging/main libxrender1 armhf 1:0.9.9-2 [28.9 kB]
Get:29 http://172.17.0.1/private/ stretch-staging/main libxft2 armhf 2.3.2-1 [48.3 kB]
Get:30 http://172.17.0.1/private/ stretch-staging/main x11-common all 1:7.7+12 [251 kB]
Get:31 http://172.17.0.1/private/ stretch-staging/main libxss1 armhf 1:1.2.2-1 [16.8 kB]
Get:32 http://172.17.0.1/private/ stretch-staging/main libtk8.6 armhf 8.6.4+dfsg-2 [664 kB]
Get:33 http://172.17.0.1/private/ stretch-staging/main libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:34 http://172.17.0.1/private/ stretch-staging/main libssl1.0.0 armhf 1.0.2d-1 [882 kB]
Get:35 http://172.17.0.1/private/ stretch-staging/main libmagic1 armhf 1:5.25-2 [250 kB]
Get:36 http://172.17.0.1/private/ stretch-staging/main file armhf 1:5.25-2 [61.2 kB]
Get:37 http://172.17.0.1/private/ stretch-staging/main gettext-base armhf 0.19.6-1 [119 kB]
Get:38 http://172.17.0.1/private/ stretch-staging/main libnettle6 armhf 3.1.1-4 [200 kB]
Get:39 http://172.17.0.1/private/ stretch-staging/main libhogweed4 armhf 3.1.1-4 [126 kB]
Get:40 http://172.17.0.1/private/ stretch-staging/main libp11-kit0 armhf 0.23.1-3 [94.2 kB]
Get:41 http://172.17.0.1/private/ stretch-staging/main libtasn1-6 armhf 4.7-2 [44.3 kB]
Get:42 http://172.17.0.1/private/ stretch-staging/main libgnutls-deb0-28 armhf 3.3.18-1 [645 kB]
Get:43 http://172.17.0.1/private/ stretch-staging/main libkeyutils1 armhf 1.5.9-8 [11.5 kB]
Get:44 http://172.17.0.1/private/ stretch-staging/main libkrb5support0 armhf 1.13.2+dfsg-3 [56.1 kB]
Get:45 http://172.17.0.1/private/ stretch-staging/main libk5crypto3 armhf 1.13.2+dfsg-3 [109 kB]
Get:46 http://172.17.0.1/private/ stretch-staging/main libkrb5-3 armhf 1.13.2+dfsg-3 [258 kB]
Get:47 http://172.17.0.1/private/ stretch-staging/main libgssapi-krb5-2 armhf 1.13.2+dfsg-3 [129 kB]
Get:48 http://172.17.0.1/private/ stretch-staging/main libidn11 armhf 1.32-3 [110 kB]
Get:49 http://172.17.0.1/private/ stretch-staging/main libsasl2-modules-db armhf 2.1.26.dfsg1-14 [65.5 kB]
Get:50 http://172.17.0.1/private/ stretch-staging/main libsasl2-2 armhf 2.1.26.dfsg1-14 [96.8 kB]
Get:51 http://172.17.0.1/private/ stretch-staging/main libldap-2.4-2 armhf 2.4.42+dfsg-2+rpi1 [197 kB]
Get:52 http://172.17.0.1/private/ stretch-staging/main openssl armhf 1.0.2d-1 [683 kB]
Get:53 http://172.17.0.1/private/ stretch-staging/main ca-certificates all 20150426 [208 kB]
Get:54 http://172.17.0.1/private/ stretch-staging/main cdbs all 0.4.130 [76.4 kB]
Get:55 http://172.17.0.1/private/ stretch-staging/main gettext armhf 0.19.6-1 [1393 kB]
Get:56 http://172.17.0.1/private/ stretch-staging/main intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:57 http://172.17.0.1/private/ stretch-staging/main po-debconf all 1.0.18 [248 kB]
Get:58 http://172.17.0.1/private/ stretch-staging/main libarchive-zip-perl all 1.53-1 [97.3 kB]
Get:59 http://172.17.0.1/private/ stretch-staging/main libfile-stripnondeterminism-perl all 0.013-1 [10.9 kB]
Get:60 http://172.17.0.1/private/ stretch-staging/main libtimedate-perl all 2.3000-2 [42.2 kB]
Get:61 http://172.17.0.1/private/ stretch-staging/main dh-strip-nondeterminism all 0.013-1 [7308 B]
Get:62 http://172.17.0.1/private/ stretch-staging/main debhelper all 9.20151005 [817 kB]
Get:63 http://172.17.0.1/private/ stretch-staging/main libgfortran3 armhf 5.2.1-23+rpi1 [154 kB]
Get:64 http://172.17.0.1/private/ stretch-staging/main libgfortran-5-dev armhf 5.2.1-23+rpi1 [183 kB]
Get:65 http://172.17.0.1/private/ stretch-staging/main gfortran-5 armhf 5.2.1-23+rpi1 [23.7 MB]
Get:66 http://172.17.0.1/private/ stretch-staging/main gfortran armhf 4:5.2.1-4+rpi2 [1364 B]
Get:67 http://172.17.0.1/private/ stretch-staging/main libblas-common armhf 1.2.20110419-10 [8494 B]
Get:68 http://172.17.0.1/private/ stretch-staging/main libblas3 armhf 1.2.20110419-10 [120 kB]
Get:69 http://172.17.0.1/private/ stretch-staging/main libblas-dev armhf 1.2.20110419-10 [117 kB]
Get:70 http://172.17.0.1/private/ stretch-staging/main libbz2-dev armhf 1.0.6-8 [27.8 kB]
Get:71 http://172.17.0.1/private/ stretch-staging/main libpixman-1-0 armhf 0.33.2-2 [444 kB]
Get:72 http://172.17.0.1/private/ stretch-staging/main libxcb-render0 armhf 1.10-3+b1 [16.9 kB]
Get:73 http://172.17.0.1/private/ stretch-staging/main libxcb-shm0 armhf 1.10-3+b1 [11.4 kB]
Get:74 http://172.17.0.1/private/ stretch-staging/main libcairo2 armhf 1.14.2-2 [672 kB]
Get:75 http://172.17.0.1/private/ stretch-staging/main libnghttp2-14 armhf 1.3.4-2 [66.8 kB]
Get:76 http://172.17.0.1/private/ stretch-staging/main librtmp1 armhf 2.4+20150115.gita107cef-1+b1 [54.5 kB]
Get:77 http://172.17.0.1/private/ stretch-staging/main libcurl3 armhf 7.45.0-1 [242 kB]
Get:78 http://172.17.0.1/private/ stretch-staging/main libdatrie1 armhf 0.2.10-1 [32.2 kB]
Get:79 http://172.17.0.1/private/ stretch-staging/main libgraphite2-3 armhf 1.3.3-1 [61.1 kB]
Get:80 http://172.17.0.1/private/ stretch-staging/main libharfbuzz0b armhf 1.0.1-1+b1 [501 kB]
Get:81 http://172.17.0.1/private/ stretch-staging/main libice6 armhf 2:1.0.9-1+b1 [51.9 kB]
Get:82 http://172.17.0.1/private/ stretch-staging/main libjpeg62-turbo armhf 1:1.4.1-2 [103 kB]
Get:83 http://172.17.0.1/private/ stretch-staging/main libjpeg62-turbo-dev armhf 1:1.4.1-2 [415 kB]
Get:84 http://172.17.0.1/private/ stretch-staging/main libjpeg-dev all 1:1.4.1-2 [51.9 kB]
Get:85 http://172.17.0.1/private/ stretch-staging/main liblapack3 armhf 3.5.0-4 [1316 kB]
Get:86 http://172.17.0.1/private/ stretch-staging/main liblapack-dev armhf 3.5.0-4 [1364 kB]
Get:87 http://172.17.0.1/private/ stretch-staging/main liblzma-dev armhf 5.1.1alpha+20120614-2.1 [248 kB]
Get:88 http://172.17.0.1/private/ stretch-staging/main libtinfo-dev armhf 6.0+20150810-1 [65.8 kB]
Get:89 http://172.17.0.1/private/ stretch-staging/main libncurses5-dev armhf 6.0+20150810-1 [154 kB]
Get:90 http://172.17.0.1/private/ stretch-staging/main libthai-data all 0.1.22-3 [161 kB]
Get:91 http://172.17.0.1/private/ stretch-staging/main libthai0 armhf 0.1.22-3 [44.6 kB]
Get:92 http://172.17.0.1/private/ stretch-staging/main libpango-1.0-0 armhf 1.38.1-1 [292 kB]
Get:93 http://172.17.0.1/private/ stretch-staging/main libpangoft2-1.0-0 armhf 1.38.1-1 [229 kB]
Get:94 http://172.17.0.1/private/ stretch-staging/main libpangocairo-1.0-0 armhf 1.38.1-1 [218 kB]
Get:95 http://172.17.0.1/private/ stretch-staging/main libpaper-utils armhf 1.1.24+nmu4 [17.2 kB]
Get:96 http://172.17.0.1/private/ stretch-staging/main libpcre16-3 armhf 2:8.35-7.2 [221 kB]
Get:97 http://172.17.0.1/private/ stretch-staging/main libpcre32-3 armhf 2:8.35-7.2 [214 kB]
Get:98 http://172.17.0.1/private/ stretch-staging/main libpcre3-dev armhf 2:8.35-7.2 [546 kB]
Get:99 http://172.17.0.1/private/ stretch-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
Get:100 http://172.17.0.1/private/ stretch-staging/main libpng12-dev armhf 1.2.50-2+b2 [236 kB]
Get:101 http://172.17.0.1/private/ stretch-staging/main libreadline6-dev armhf 6.3-8+b3 [105 kB]
Get:102 http://172.17.0.1/private/ stretch-staging/main libreadline-dev armhf 6.3-8+b3 [958 B]
Get:103 http://172.17.0.1/private/ stretch-staging/main libsm6 armhf 2:1.2.2-1+b1 [31.2 kB]
Get:104 http://172.17.0.1/private/ stretch-staging/main libtiff5 armhf 4.0.5-1 [200 kB]
Get:105 http://172.17.0.1/private/ stretch-staging/main libxt6 armhf 1:1.1.5-1 [155 kB]
Get:106 http://172.17.0.1/private/ stretch-staging/main zip armhf 3.0-11 [212 kB]
Get:107 http://172.17.0.1/private/ stretch-staging/main unzip armhf 6.0-19 [142 kB]
Get:108 http://172.17.0.1/private/ stretch-staging/main xdg-utils all 1.1.1-1 [71.1 kB]
Get:109 http://172.17.0.1/private/ stretch-staging/main r-base-core armhf 3.2.2-1 [20.2 MB]
Get:110 http://172.17.0.1/private/ stretch-staging/main r-base-dev all 3.2.2-1 [4292 B]
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Setting up man-db (2.7.4-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libexpat1:armhf (2.1.0-7) ...
Setting up libfreetype6:armhf (2.6-2) ...
Setting up ucf (3.0030) ...
Setting up fonts-dejavu-core (2.35-1) ...
Setting up fontconfig-config (2.11.0-6.3) ...
Setting up libfontconfig1:armhf (2.11.0-6.3) ...
Setting up fontconfig (2.11.0-6.3) ...
Regenerating fonts cache... done.
Setting up libffi6:armhf (3.2.1-3) ...
Setting up libglib2.0-0:armhf (2.46.1-1) ...
No schema files found: doing nothing.
Setting up libicu55:armhf (55.1-5) ...
Setting up libxml2:armhf (2.9.2+zdfsg1-4) ...
Setting up libcroco3:armhf (0.6.8-3) ...
Setting up libjbig0:armhf (2.1-3.1) ...
Setting up libpaper1:armhf (1.1.24+nmu4) ...

Creating config file /etc/papersize with new version
Setting up libpcrecpp0v5:armhf (2:8.35-7.2) ...
Setting up libssh2-1:armhf (1.5.0-2) ...
Setting up libtcl8.6:armhf (8.6.4+dfsg-2) ...
Setting up libxau6:armhf (1:1.0.8-1) ...
Setting up libxdmcp6:armhf (1:1.1.2-1) ...
Setting up libxcb1:armhf (1.10-3+b1) ...
Setting up libx11-data (2:1.6.3-1) ...
Setting up libx11-6:armhf (2:1.6.3-1) ...
Setting up libxext6:armhf (2:1.3.3-1) ...
Setting up libxrender1:armhf (1:0.9.9-2) ...
Setting up libxft2:armhf (2.3.2-1) ...
Setting up x11-common (1:7.7+12) ...
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 libtk8.6:armhf (8.6.4+dfsg-2) ...
Setting up libunistring0:armhf (0.9.3-5.2) ...
Setting up libssl1.0.0:armhf (1.0.2d-1) ...
Setting up libmagic1:armhf (1:5.25-2) ...
Setting up file (1:5.25-2) ...
Setting up gettext-base (0.19.6-1) ...
Setting up libnettle6:armhf (3.1.1-4) ...
Setting up libhogweed4:armhf (3.1.1-4) ...
Setting up libp11-kit0:armhf (0.23.1-3) ...
Setting up libtasn1-6:armhf (4.7-2) ...
Setting up libgnutls-deb0-28:armhf (3.3.18-1) ...
Setting up libkeyutils1:armhf (1.5.9-8) ...
Setting up libkrb5support0:armhf (1.13.2+dfsg-3) ...
Setting up libk5crypto3:armhf (1.13.2+dfsg-3) ...
Setting up libkrb5-3:armhf (1.13.2+dfsg-3) ...
Setting up libgssapi-krb5-2:armhf (1.13.2+dfsg-3) ...
Setting up libidn11:armhf (1.32-3) ...
Setting up libsasl2-modules-db:armhf (2.1.26.dfsg1-14) ...
Setting up libsasl2-2:armhf (2.1.26.dfsg1-14) ...
Setting up libldap-2.4-2:armhf (2.4.42+dfsg-2+rpi1) ...
Setting up openssl (1.0.2d-1) ...
Setting up ca-certificates (20150426) ...
Setting up cdbs (0.4.130) ...
Setting up gettext (0.19.6-1) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up po-debconf (1.0.18) ...
Setting up libarchive-zip-perl (1.53-1) ...
Setting up libfile-stripnondeterminism-perl (0.013-1) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libgfortran3:armhf (5.2.1-23+rpi1) ...
Setting up libgfortran-5-dev:armhf (5.2.1-23+rpi1) ...
Setting up gfortran-5 (5.2.1-23+rpi1) ...
Setting up gfortran (4:5.2.1-4+rpi2) ...
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 (1.2.20110419-10) ...
Setting up libblas3 (1.2.20110419-10) ...
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 (1.2.20110419-10) ...
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 (0.33.2-2) ...
Setting up libxcb-render0:armhf (1.10-3+b1) ...
Setting up libxcb-shm0:armhf (1.10-3+b1) ...
Setting up libcairo2:armhf (1.14.2-2) ...
Setting up libnghttp2-14:armhf (1.3.4-2) ...
Setting up librtmp1:armhf (2.4+20150115.gita107cef-1+b1) ...
Setting up libcurl3:armhf (7.45.0-1) ...
Setting up libdatrie1:armhf (0.2.10-1) ...
Setting up libgraphite2-3:armhf (1.3.3-1) ...
Setting up libharfbuzz0b:armhf (1.0.1-1+b1) ...
Setting up libice6:armhf (2:1.0.9-1+b1) ...
Setting up libjpeg62-turbo:armhf (1:1.4.1-2) ...
Setting up libjpeg62-turbo-dev:armhf (1:1.4.1-2) ...
Setting up libjpeg-dev (1:1.4.1-2) ...
Setting up liblapack3 (3.5.0-4) ...
update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up liblapack-dev (3.5.0-4) ...
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+20150810-1) ...
Setting up libncurses5-dev:armhf (6.0+20150810-1) ...
Setting up libthai-data (0.1.22-3) ...
Setting up libthai0:armhf (0.1.22-3) ...
Setting up libpango-1.0-0:armhf (1.38.1-1) ...
Setting up libpangoft2-1.0-0:armhf (1.38.1-1) ...
Setting up libpangocairo-1.0-0:armhf (1.38.1-1) ...
Setting up libpaper-utils (1.1.24+nmu4) ...
Setting up libpcre16-3:armhf (2:8.35-7.2) ...
Setting up libpcre32-3:armhf (2:8.35-7.2) ...
Setting up libpcre3-dev:armhf (2:8.35-7.2) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-2+b1) ...
Setting up libpng12-dev:armhf (1.2.50-2+b2) ...
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 libtiff5:armhf (4.0.5-1) ...
Setting up libxt6:armhf (1:1.1.5-1) ...
Setting up zip (3.0-11) ...
Setting up unzip (6.0-19) ...
Setting up xdg-utils (1.1.1-1) ...
Setting up r-base-core (3.2.2-1) ...

Creating config file /etc/R/Renviron with new version
Setting up r-base-dev (3.2.2-1) ...
Setting up debhelper (9.20151005) ...
Setting up sbuild-build-depends-r-bioc-affyio-dummy (0.invalid.0) ...
Setting up dh-strip-nondeterminism (0.013-1) ...
Processing triggers for libc-bin (2.19-22) ...
Processing triggers for systemd (227-2) ...
Processing triggers for ca-certificates (20150426) ...
Updating certificates in /etc/ssl/certs...
180 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.

┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment                                                            │
└──────────────────────────────────────────────────────────────────────────────┘

Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.25.1-7 dpkg-dev_1.18.3 g++-5_5.2.1-23+rpi1 gcc-5_5.2.1-23+rpi1 libc6-dev_2.19-22 libstdc++-5-dev_5.2.1-23+rpi1 libstdc++6_5.2.1-23+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.113+nmu3 apt_1.0.10.2 base-files_9.4+rpi1 base-passwd_3.5.38 bash_4.3-14 binutils_2.25.1-7 bsdmainutils_9.0.6 bsdutils_1:2.27-3 build-essential_11.7 bzip2_1.0.6-8 ca-certificates_20150426 cdbs_0.4.130 coreutils_8.23-4 cpio_2.11+dfsg-4.1 cpp_4:5.2.1-4+rpi2 cpp-5_5.2.1-23+rpi1 dash_0.5.7-4 debconf_1.5.57 debconf-i18n_1.5.57 debfoster_2.7-2 debhelper_9.20151005 debianutils_4.5.1 dh-strip-nondeterminism_0.013-1 diffutils_1:3.3-2 dmsetup_2:1.02.104-1 dpkg_1.18.3 dpkg-dev_1.18.3 e2fslibs_1.42.13-1 e2fsprogs_1.42.13-1 fakeroot_1.20.2-1 file_1:5.25-2 findutils_4.4.2-9 fontconfig_2.11.0-6.3 fontconfig-config_2.11.0-6.3 fonts-dejavu-core_2.35-1 g++_4:5.2.1-4+rpi2 g++-5_5.2.1-23+rpi1 gcc_4:5.2.1-4+rpi2 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-1 gcc-4.9-base_4.9.3-5 gcc-5_5.2.1-23+rpi1 gcc-5-base_5.2.1-23+rpi1 gettext_0.19.6-1 gettext-base_0.19.6-1 gfortran_4:5.2.1-4+rpi2 gfortran-5_5.2.1-23+rpi1 gnupg_1.4.19-6 gpgv_1.4.19-6 grep_2.21-2 groff-base_1.22.3-1 gzip_1.6-4 hostname_3.16 init_1.24 init-system-helpers_1.24 initramfs-tools_0.120 initscripts_2.88dsf-59.2 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-2+rpi1 kmod_21-1 libacl1_2.2.52-2 libapparmor1_2.10-2 libapt-pkg4.16_1.0.10.2 libarchive-zip-perl_1.53-1 libasan2_5.2.1-23+rpi1 libatomic1_5.2.1-23+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.4.4-4 libaudit1_1:2.4.4-4 libblas-common_1.2.20110419-10 libblas-dev_1.2.20110419-10 libblas3_1.2.20110419-10 libblkid1_2.27-3 libbz2-1.0_1.0.6-8 libbz2-dev_1.0.6-8 libc-bin_2.19-22 libc-dev-bin_2.19-22 libc6_2.19-22 libc6-dev_2.19-22 libcairo2_1.14.2-2 libcap2_1:2.24-12 libcap2-bin_1:2.24-12 libcc1-0_5.2.1-23+rpi1 libcomerr2_1.42.13-1 libcroco3_0.6.8-3 libcryptsetup4_2:1.6.6-5 libcurl3_7.45.0-1 libdatrie1_0.2.10-1 libdb5.3_5.3.28-11 libdbus-1-3_1.10.2-1 libdebconfclient0_0.195 libdevmapper1.02.1_2:1.02.104-1 libdpkg-perl_1.18.3 libdrm2_2.4.65-3 libexpat1_2.1.0-7 libfakeroot_1.20.2-1 libfdisk1_2.27-3 libffi6_3.2.1-3 libfile-stripnondeterminism-perl_0.013-1 libfontconfig1_2.11.0-6.3 libfreetype6_2.6-2 libgc1c2_1:7.4.2-7 libgcc-5-dev_5.2.1-23+rpi1 libgcc1_1:5.2.1-23+rpi1 libgcrypt20_1.6.4-3 libgdbm3_1.8.3-13.1 libgfortran-5-dev_5.2.1-23+rpi1 libgfortran3_5.2.1-23+rpi1 libglib2.0-0_2.46.1-1 libgmp10_2:6.0.0+dfsg-7+rpi1 libgnutls-deb0-28_3.3.18-1 libgomp1_5.2.1-23+rpi1 libgpg-error0_1.20-1 libgraphite2-3_1.3.3-1 libgssapi-krb5-2_1.13.2+dfsg-3 libharfbuzz0b_1.0.1-1+b1 libhogweed4_3.1.1-4 libice6_2:1.0.9-1+b1 libicu55_55.1-5 libidn11_1.32-3 libisl13_0.14-2 libjbig0_2.1-3.1 libjpeg-dev_1:1.4.1-2 libjpeg62-turbo_1:1.4.1-2 libjpeg62-turbo-dev_1:1.4.1-2 libk5crypto3_1.13.2+dfsg-3 libkeyutils1_1.5.9-8 libklibc_2.0.4-2+rpi1 libkmod2_21-1 libkrb5-3_1.13.2+dfsg-3 libkrb5support0_1.13.2+dfsg-3 liblapack-dev_3.5.0-4 liblapack3_3.5.0-4 libldap-2.4-2_2.4.42+dfsg-2+rpi1 liblocale-gettext-perl_1.07-1 liblzma-dev_5.1.1alpha+20120614-2.1 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.25-2 libmount1_2.27-3 libmpc3_1.0.3-1 libmpfr4_3.1.3-1 libncurses5_6.0+20150810-1 libncurses5-dev_6.0+20150810-1 libncursesw5_6.0+20150810-1 libnettle6_3.1.1-4 libnghttp2-14_1.3.4-2 libnih-dbus1_1.0.3-4.3 libnih1_1.0.3-4.3 libp11-kit0_0.23.1-3 libpam-modules_1.1.8-3.1 libpam-modules-bin_1.1.8-3.1 libpam-runtime_1.1.8-3.1 libpam0g_1.1.8-3.1 libpango-1.0-0_1.38.1-1 libpangocairo-1.0-0_1.38.1-1 libpangoft2-1.0-0_1.38.1-1 libpaper-utils_1.1.24+nmu4 libpaper1_1.1.24+nmu4 libpcre16-3_2:8.35-7.2 libpcre3_2:8.35-7.2 libpcre3-dev_2:8.35-7.2 libpcre32-3_2:8.35-7.2 libpcrecpp0v5_2:8.35-7.2 libpipeline1_1.4.1-1 libpixman-1-0_0.33.2-2 libpng12-0_1.2.50-2+b2 libpng12-dev_1.2.50-2+b2 libprocps4_2:3.3.10-2 libreadline-dev_6.3-8+b3 libreadline6_6.3-8+b3 libreadline6-dev_6.3-8+b3 librtmp1_2.4+20150115.gita107cef-1+b1 libsasl2-2_2.1.26.dfsg1-14 libsasl2-modules-db_2.1.26.dfsg1-14 libseccomp2_2.2.3-2 libselinux1_2.3-2 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-2 libsm6_2:1.2.2-1+b1 libsmartcols1_2.27-3 libss2_1.42.13-1 libssh2-1_1.5.0-2 libssl1.0.0_1.0.2d-1 libstdc++-5-dev_5.2.1-23+rpi1 libstdc++6_5.2.1-23+rpi1 libsystemd0_227-2 libtasn1-6_4.7-2 libtcl8.6_8.6.4+dfsg-2 libtext-charwidth-perl_0.04-7+b4 libtext-iconv-perl_1.7-5+b5 libtext-wrapi18n-perl_0.06-7.1 libthai-data_0.1.22-3 libthai0_0.1.22-3 libtiff5_4.0.5-1 libtimedate-perl_2.3000-2 libtinfo-dev_6.0+20150810-1 libtinfo5_6.0+20150810-1 libtk8.6_8.6.4+dfsg-2 libubsan0_5.2.1-23+rpi1 libudev1_227-2 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-27 libustr-1.0-1_1.0.4-5 libuuid1_2.27-3 libx11-6_2:1.6.3-1 libx11-data_2:1.6.3-1 libxau6_1:1.0.8-1 libxcb-render0_1.10-3+b1 libxcb-shm0_1.10-3+b1 libxcb1_1.10-3+b1 libxdmcp6_1:1.1.2-1 libxext6_2:1.3.3-1 libxft2_2.3.2-1 libxml2_2.9.2+zdfsg1-4 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 lsb-base_4.1+Debian13+rpi1+nmu1 make_4.0-8.2 makedev_2.3.1-93 man-db_2.7.4-1 mawk_1.3.3-17 mount_2.27-3 multiarch-support_2.19-22 nano_2.4.2-1 ncurses-base_6.0+20150810-1 ncurses-bin_6.0+20150810-1 openssl_1.0.2d-1 passwd_1:4.2-3 patch_2.7.5-1 perl_5.20.2-6 perl-base_5.20.2-6 perl-modules_5.20.2-6 po-debconf_1.0.18 procps_2:3.3.10-2 r-base-core_3.2.2-1 r-base-dev_3.2.2-1 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_4.2.2-6.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_227-2 systemd-sysv_227-2 sysv-rc_2.88dsf-59.2 sysvinit-utils_2.88dsf-59.2 tar_1.28-1 tzdata_2015g-1 ucf_3.0030 udev_227-2 unzip_6.0-19 util-linux_2.27-3 x11-common_1:7.7+12 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 Thu Oct 29 21:38:03 2015 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_1.40.0-1.dsc
dpkg-source: info: extracting r-bioc-affyio in r-bioc-affyio-1.40.0
dpkg-source: info: unpacking r-bioc-affyio_1.40.0.orig.tar.gz
dpkg-source: info: unpacking r-bioc-affyio_1.40.0-1.debian.tar.xz
dpkg-source: info: applying use_debian_packaged_zlib.patch

Check disc space
────────────────

Sufficient free space for build

User Environment
────────────────

DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
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-a1ea6cba-bc5f-49ba-af66-ea68d7155b63
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 1.40.0-1
dpkg-buildpackage: source distribution unstable
 dpkg-source --before-build r-bioc-affyio-1.40.0
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 (>= 3.2.2-1), 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=\"Thu, 29 Oct 2015 22:36:23 +0100\""   	        \
				;                               \
	else							\
		 R CMD INSTALL -l /«PKGBUILDDIR»/debian/r-bioc-affyio/usr/lib/R/site-library 	\
				--clean  .  \
				"--built-timestamp=\"Thu, 29 Oct 2015 22:36:23 +0100\""   	        \
				;                               \
	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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -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
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
dh_md5sums -pr-bioc-affyio 
dh_builddeb -pr-bioc-affyio 
dpkg-deb: building package 'r-bioc-affyio' in '../r-bioc-affyio_1.40.0-1_armhf.deb'.
 dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-affyio_1.40.0-1_armhf.changes
dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included)
 dpkg-source --after-build r-bioc-affyio-1.40.0
dpkg-buildpackage: binary-only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20151104-1338

Finished
────────

I: Built successfully

┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build Chroot                                                            │
└──────────────────────────────────────────────────────────────────────────────┘


┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes                                                                      │
└──────────────────────────────────────────────────────────────────────────────┘


r-bioc-affyio_1.40.0-1_armhf.changes:
─────────────────────────────────────

Format: 1.8
Date: Thu, 29 Oct 2015 22:36:23 +0100
Source: r-bioc-affyio
Binary: r-bioc-affyio
Architecture: armhf
Version: 1.40.0-1
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 (1.40.0-1) unstable; urgency=medium
 .
   * New upstream version
Checksums-Sha1:
 ed41870396cf0061333c92248838fde1d56cecac 66354 r-bioc-affyio_1.40.0-1_armhf.deb
Checksums-Sha256:
 cc0abb985efb556334cbaaef5fa747e134f0ef497f6623febec098378f416352 66354 r-bioc-affyio_1.40.0-1_armhf.deb
Files:
 13b24e940d4699188fb6adce9ebba42b 66354 gnu-r optional r-bioc-affyio_1.40.0-1_armhf.deb

┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents                                                             │
└──────────────────────────────────────────────────────────────────────────────┘


r-bioc-affyio_1.40.0-1_armhf.deb
────────────────────────────────

 new debian package, version 2.0.
 size 66354 bytes: control archive=1246 bytes.
     596 bytes,    13 lines      control              
    1780 bytes,    23 lines      md5sums              
 Package: r-bioc-affyio
 Version: 1.40.0-1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 208
 Depends: r-base-core (>= 3.2.2-1), 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.

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drwxr-xr-x root/root         0 2015-11-04 13:38 ./usr/share/doc/
drwxr-xr-x root/root         0 2015-11-04 13:38 ./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       337 2015-10-29 21:36 ./usr/share/doc/r-bioc-affyio/changelog.Debian.gz
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-rw-r--r-- root/root       560 2013-10-18 08:57 ./usr/share/doc/r-bioc-affyio/copyright


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│ Post Build                                                                   │
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup                                                                      │
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Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use

┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary                                                                      │
└──────────────────────────────────────────────────────────────────────────────┘

Build Architecture: armhf
Build-Space: 1244
Build-Time: 104
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 464
Job: r-bioc-affyio_1.40.0-1
Machine Architecture: armhf
Package: r-bioc-affyio
Package-Time: 627
Source-Version: 1.40.0-1
Space: 1244
Status: successful
Version: 1.40.0-1
────────────────────────────────────────────────────────────────────────────────
Finished at 20151104-1338
Build needed 00:10:27, 1244k disc space