r-bioc-rbgl →
1.56.0+dfsg-2 →
armhf → 2018-05-08 23:05:43
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| r-bioc-rbgl 1.56.0+dfsg-2 (armhf) Tue, 08 May 2018 22:51:57 +0000 |
+==============================================================================+
Package: r-bioc-rbgl
Version: 1.56.0+dfsg-2
Source Version: 1.56.0+dfsg-2
Distribution: buster-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/buster-staging-armhf-sbuild-3d63552d-49b5-4d59-8922-e0a712a8901f' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private buster-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private buster-staging/main Sources [10.7 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [12.5 MB]
Fetched 23.2 MB in 11s (2070 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'r-bioc-rbgl' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/r-pkg-team/r-bioc-rbgl.git
Please use:
git clone https://salsa.debian.org/r-pkg-team/r-bioc-rbgl.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 384 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main r-bioc-rbgl 1.56.0+dfsg-2 (dsc) [2126 B]
Get:2 http://172.17.0.1/private buster-staging/main r-bioc-rbgl 1.56.0+dfsg-2 (tar) [375 kB]
Get:3 http://172.17.0.1/private buster-staging/main r-bioc-rbgl 1.56.0+dfsg-2 (diff) [6704 B]
Fetched 384 kB in 0s (1528 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/r-bioc-rbgl-Af0c0A/r-bioc-rbgl-1.56.0+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-rbgl-Af0c0A' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-JGFQNo/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-JGFQNo/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-JGFQNo/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ Packages [432 B]
Fetched 2108 B in 0s (11.6 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
ca-certificates dbus dbus-user-session e2fsprogs-l10n libexpat1
libnss-systemd libpam-systemd libsasl2-modules libssl1.1 openssl
systemd-sysv
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 20 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 15689 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 11~), dh-r, r-base-dev, r-bioc-graph, libboost-dev
Filtered Build-Depends: debhelper (>= 11~), dh-r, r-base-dev, r-bioc-graph, libboost-dev
dpkg-deb: building package 'sbuild-build-depends-r-bioc-rbgl-dummy' in '/<<BUILDDIR>>/resolver-JGFQNo/apt_archive/sbuild-build-depends-r-bioc-rbgl-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-r-bioc-rbgl-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ Sources [520 B]
Get:5 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ Packages [602 B]
Fetched 2455 B in 0s (13.6 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install r-bioc-rbgl build dependencies (apt-based resolver)
-----------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
dbus dbus-user-session e2fsprogs-l10n libnss-systemd libpam-systemd
libsasl2-modules systemd-sysv
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cdbs dctrl-tools
debhelper dh-autoreconf dh-r dh-strip-nondeterminism file fontconfig
fontconfig-config fonts-dejavu-core gettext gettext-base gfortran gfortran-7
groff-base icu-devtools intltool-debian libarchive-zip-perl libblas-dev
libblas3 libboost-dev libboost1.62-dev libbsd0 libbz2-dev libcairo2
libcroco3 libcurl3 libdatrie1 libfile-stripnondeterminism-perl
libfontconfig1 libfreetype6 libfribidi0 libgfortran-7-dev libgfortran4
libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libice6
libicu-dev libicu57 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev
libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3
liblzma-dev libmagic-mgc libmagic1 libncurses-dev libncurses5-dev
libncurses6 libncursesw6 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0
libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre16-3 libpcre3-dev
libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpsl5
libreadline-dev librtmp1 libsigsegv2 libsm6 libssh2-1 libssl1.0.2 libtcl8.6
libthai-data libthai0 libtiff5 libtimedate-perl libtinfo6 libtk8.6 libtool
libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6
libxext6 libxft2 libxml2 libxmuu1 libxrender1 libxss1 libxt6 m4 man-db
pkg-config po-debconf r-base-core r-base-dev r-bioc-biocgenerics
r-bioc-graph ucf unzip x11-common xauth xdg-utils zip zlib1g zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation devscripts debtags dh-make dwz gettext-doc libasprintf-dev
libgettextpo-dev gfortran-doc gfortran-7-doc libgfortran4-dbg
libcoarrays-dev groff liblapack-doc libboost-doc libboost1.62-doc
libboost-atomic1.62-dev libboost-chrono1.62-dev libboost-context1.62-dev
libboost-coroutine1.62-dev libboost-date-time1.62-dev
libboost-exception1.62-dev libboost-fiber1.62-dev
libboost-filesystem1.62-dev libboost-graph1.62-dev
libboost-graph-parallel1.62-dev libboost-iostreams1.62-dev
libboost-locale1.62-dev libboost-log1.62-dev libboost-math1.62-dev
libboost-mpi1.62-dev libboost-mpi-python1.62-dev
libboost-program-options1.62-dev libboost-python1.62-dev
libboost-random1.62-dev libboost-regex1.62-dev
libboost-serialization1.62-dev libboost-signals1.62-dev
libboost-system1.62-dev libboost-test1.62-dev libboost-thread1.62-dev
libboost-timer1.62-dev libboost-type-erasure1.62-dev libboost-wave1.62-dev
libboost1.62-tools-dev libmpfrc++-dev libntl-dev krb5-doc krb5-user icu-doc
liblzma-doc readline-doc tcl8.6 tk8.6 libtool-doc gcj-jdk m4-doc apparmor
less www-browser libmail-box-perl ess r-doc-info | r-doc-pdf r-mathlib
r-base-html texlive-base texlive-latex-base texlive-generic-recommended
texlive-fonts-recommended texlive-fonts-extra texlive-extra-utils
texlive-latex-recommended texlive-latex-extra texinfo r-bioc-biobase
r-bioc-s4vectors r-bioc-iranges r-bioc-genomicranges r-bioc-rsamtools
r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-runit
r-cran-sparsem r-cran-xml r-bioc-rbgl r-cran-cluster
Recommended packages:
curl | wget | lynx bzip2-doc libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs krb5-locales libgpm2 libpng-tools
publicsuffix libltdl-dev libmail-sendmail-perl r-recommended r-doc-html
libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils
x11-xserver-utils
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cdbs dctrl-tools
debhelper dh-autoreconf dh-r dh-strip-nondeterminism file fontconfig
fontconfig-config fonts-dejavu-core gettext gettext-base gfortran gfortran-7
groff-base icu-devtools intltool-debian libarchive-zip-perl libblas-dev
libblas3 libboost-dev libboost1.62-dev libbsd0 libbz2-dev libcairo2
libcroco3 libcurl3 libdatrie1 libfile-stripnondeterminism-perl
libfontconfig1 libfreetype6 libfribidi0 libgfortran-7-dev libgfortran4
libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libice6
libicu-dev libicu57 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev
libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3
liblzma-dev libmagic-mgc libmagic1 libncurses-dev libncurses5-dev
libncurses6 libncursesw6 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0
libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre16-3 libpcre3-dev
libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpsl5
libreadline-dev librtmp1 libsigsegv2 libsm6 libssh2-1 libssl1.0.2 libtcl8.6
libthai-data libthai0 libtiff5 libtimedate-perl libtinfo6 libtk8.6 libtool
libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6
libxext6 libxft2 libxml2 libxmuu1 libxrender1 libxss1 libxt6 m4 man-db
pkg-config po-debconf r-base-core r-base-dev r-bioc-biocgenerics
r-bioc-graph sbuild-build-depends-r-bioc-rbgl-dummy ucf unzip x11-common
xauth xdg-utils zip zlib1g-dev
The following packages will be upgraded:
zlib1g
1 upgraded, 121 newly installed, 0 to remove and 19 not upgraded.
Need to get 61.6 MB/90.8 MB of archives.
After this operation, 364 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-JGFQNo/apt_archive ./ sbuild-build-depends-r-bioc-rbgl-dummy 0.invalid.0 [892 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.3-10 [1005 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.5.0-1 [24.6 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf zlib1g armhf 1:1.2.11.dfsg-1 [87.3 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.8.3-2 [1146 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf libx11-data all 2:1.6.5-1 [292 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libx11-6 armhf 2:1.6.5-1 [683 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf libssl1.0.2 armhf 1.0.2o-1 [888 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.33-2 [234 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.33-2 [106 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.33-2 [64.7 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-6 [117 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-1 [185 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.15.1-3.1 [736 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-6 [434 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf cdbs all 0.4.156 [83.1 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf dctrl-tools armhf 2.24-2 [94.4 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-2.1 [547 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 17 [16.5 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.60-1 [95.6 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 0.041-1 [19.9 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 0.041-1 [12.0 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.56.1-2 [2754 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-6 [1218 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf debhelper all 11.2.1 [1013 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf zip armhf 3.0-11 [212 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf unzip armhf 6.0-21 [149 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf libpaper1 armhf 1.1.24+nmu5 [20.8 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf libpaper-utils armhf 1.1.24+nmu5 [17.2 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf xdg-utils all 1.1.2-2 [72.8 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf libgfortran4 armhf 7.3.0-12 [191 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf libblas3 armhf 3.8.0-1 [103 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf fontconfig-config all 2.13.0-4 [280 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf libfontconfig1 armhf 2.13.0-4 [325 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf libcairo2 armhf 1.15.10-3 [575 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf libnghttp2-14 armhf 1.31.1-1 [69.4 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf libpsl5 armhf 0.20.1-1 [51.4 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf libcurl3 armhf 7.58.0-2 [276 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf liblapack3 armhf 3.8.0-1 [1518 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf fontconfig armhf 2.13.0-4 [403 kB]
Get:48 http://172.17.0.1/private buster-staging/main armhf libfribidi0 armhf 0.19.7-2 [44.1 kB]
Get:49 http://172.17.0.1/private buster-staging/main armhf libdatrie1 armhf 0.2.11-1 [34.6 kB]
Get:50 http://172.17.0.1/private buster-staging/main armhf libpango-1.0-0 armhf 1.42.0-1 [158 kB]
Get:51 http://172.17.0.1/private buster-staging/main armhf libharfbuzz0b armhf 1.7.6-1 [799 kB]
Get:52 http://172.17.0.1/private buster-staging/main armhf libpangoft2-1.0-0 armhf 1.42.0-1 [53.2 kB]
Get:53 http://172.17.0.1/private buster-staging/main armhf libpangocairo-1.0-0 armhf 1.42.0-1 [43.3 kB]
Get:54 http://172.17.0.1/private buster-staging/main armhf libtcl8.6 armhf 8.6.8+dfsg-4 [863 kB]
Get:55 http://172.17.0.1/private buster-staging/main armhf libtiff5 armhf 4.0.9-5 [224 kB]
Get:56 http://172.17.0.1/private buster-staging/main armhf libxft2 armhf 2.3.2-2 [49.3 kB]
Get:57 http://172.17.0.1/private buster-staging/main armhf libtk8.6 armhf 8.6.8-4 [657 kB]
Get:58 http://172.17.0.1/private buster-staging/main armhf r-base-core armhf 3.4.4-1 [23.0 MB]
Get:59 http://172.17.0.1/private buster-staging/main armhf libgfortran-7-dev armhf 7.3.0-12 [232 kB]
Get:60 http://172.17.0.1/private buster-staging/main armhf gfortran-7 armhf 7.3.0-12 [5454 kB]
Get:61 http://172.17.0.1/private buster-staging/main armhf gfortran armhf 4:7.2.0-1d1 [1352 B]
Get:62 http://172.17.0.1/private buster-staging/main armhf libblas-dev armhf 3.8.0-1 [111 kB]
Get:63 http://172.17.0.1/private buster-staging/main armhf liblapack-dev armhf 3.8.0-1 [1577 kB]
Get:64 http://172.17.0.1/private buster-staging/main armhf libtinfo6 armhf 6.1+20180210-2 [307 kB]
Get:65 http://172.17.0.1/private buster-staging/main armhf libncurses6 armhf 6.1+20180210-2 [78.3 kB]
Get:66 http://172.17.0.1/private buster-staging/main armhf libncursesw6 armhf 6.1+20180210-2 [103 kB]
Get:67 http://172.17.0.1/private buster-staging/main armhf libncurses-dev armhf 6.1+20180210-2 [278 kB]
Get:68 http://172.17.0.1/private buster-staging/main armhf libncurses5-dev armhf 6.1+20180210-2 [920 B]
Get:69 http://172.17.0.1/private buster-staging/main armhf libreadline-dev armhf 7.0-3 [109 kB]
Get:70 http://172.17.0.1/private buster-staging/main armhf libpcre16-3 armhf 2:8.39-9 [234 kB]
Get:71 http://172.17.0.1/private buster-staging/main armhf libpcre32-3 armhf 2:8.39-9 [226 kB]
Get:72 http://172.17.0.1/private buster-staging/main armhf libpcrecpp0v5 armhf 2:8.39-9 [150 kB]
Get:73 http://172.17.0.1/private buster-staging/main armhf libpcre3-dev armhf 2:8.39-9 [561 kB]
Get:74 http://172.17.0.1/private buster-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
Get:75 http://172.17.0.1/private buster-staging/main armhf libbz2-dev armhf 1.0.6-8.1 [26.9 kB]
Get:76 http://172.17.0.1/private buster-staging/main armhf libxmuu1 armhf 2:1.1.2-2 [23.0 kB]
Get:77 http://172.17.0.1/private buster-staging/main armhf xauth armhf 1:1.0.10-1 [36.4 kB]
Get:78 http://172.17.0.1/private buster-staging/main armhf r-base-dev all 3.4.4-1 [4488 B]
Get:79 http://172.17.0.1/private buster-staging/main armhf dh-r all 20180403 [12.3 kB]
Get:80 http://172.17.0.1/private buster-staging/main armhf libboost1.62-dev armhf 1.62.0+dfsg-5+b2 [7004 kB]
Get:81 http://172.17.0.1/private buster-staging/main armhf libboost-dev armhf 1.62.0.1+b8 [3918 B]
Get:82 http://172.17.0.1/private buster-staging/main armhf r-bioc-biocgenerics all 0.26.0-2 [582 kB]
Get:83 http://172.17.0.1/private buster-staging/main armhf r-bioc-graph armhf 1.58.0-1 [1321 kB]
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Preparing to unpack .../111-dh-r_20180403_all.deb ...
Unpacking dh-r (20180403) ...
Selecting previously unselected package libboost1.62-dev:armhf.
Preparing to unpack .../112-libboost1.62-dev_1.62.0+dfsg-5+b2_armhf.deb ...
Unpacking libboost1.62-dev:armhf (1.62.0+dfsg-5+b2) ...
Selecting previously unselected package libboost-dev:armhf.
Preparing to unpack .../113-libboost-dev_1.62.0.1+b8_armhf.deb ...
Unpacking libboost-dev:armhf (1.62.0.1+b8) ...
Selecting previously unselected package r-bioc-biocgenerics.
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Unpacking r-bioc-biocgenerics (0.26.0-2) ...
Selecting previously unselected package r-bioc-graph.
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Unpacking r-bioc-graph (1.58.0-1) ...
Selecting previously unselected package sbuild-build-depends-r-bioc-rbgl-dummy.
Preparing to unpack .../116-sbuild-build-depends-r-bioc-rbgl-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-r-bioc-rbgl-dummy (0.invalid.0) ...
Setting up cdbs (0.4.156) ...
Setting up libbz2-dev:armhf (1.0.6-8.1) ...
Setting up libjpeg62-turbo:armhf (1:1.5.2-2+b1) ...
Setting up libarchive-zip-perl (1.60-1) ...
Setting up libnghttp2-14:armhf (1.31.1-1) ...
Setting up libgfortran4:armhf (7.3.0-12) ...
Setting up libboost1.62-dev:armhf (1.62.0+dfsg-5+b2) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libjbig0:armhf (2.1-3.1+b2) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up fonts-dejavu-core (2.37-1) ...
Setting up libpsl5:armhf (0.20.1-1) ...
Setting up groff-base (1.22.3-10) ...
Setting up libglib2.0-0:armhf (2.56.1-2) ...
No schema files found: removed existing output file.
Setting up libtinfo6:armhf (6.1+20180210-2) ...
Setting up unzip (6.0-21) ...
Setting up dctrl-tools (2.24-2) ...
Setting up libdatrie1:armhf (0.2.11-1) ...
Setting up libtiff5:armhf (4.0.9-5) ...
Setting up gettext-base (0.19.8.1-6) ...
Setting up libpipeline1:armhf (1.5.0-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-1) ...
Setting up m4 (1.4.18-1) ...
Setting up libicu57:armhf (57.1-9) ...
Setting up libbsd0:armhf (0.8.7-1) ...
Setting up ucf (3.0038) ...
Setting up libxml2:armhf (2.9.4+dfsg1-6.1) ...
Setting up zip (3.0-11) ...
Setting up libfreetype6:armhf (2.8.1-2) ...
Setting up libmagic-mgc (1:5.33-2) ...
Setting up libmagic1:armhf (1:5.33-2) ...
Setting up libgraphite2-3:armhf (1.3.11-2) ...
Setting up libcroco3:armhf (0.6.12-2) ...
Setting up libssl1.0.2:armhf (1.0.2o-1) ...
Setting up pkg-config (0.29-4) ...
Setting up libpixman-1-0:armhf (0.34.0-2) ...
Setting up libblas3:armhf (3.8.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode
Setting up libssh2-1:armhf (1.8.0-1) ...
Processing triggers for libc-bin (2.27-3+rpi1) ...
Setting up autotools-dev (20180224.1) ...
Processing triggers for systemd (238-4) ...
Setting up libgfortran-7-dev:armhf (7.3.0-12) ...
Setting up libfribidi0:armhf (0.19.7-2) ...
Setting up gfortran-7 (7.3.0-12) ...
Setting up libpcrecpp0v5:armhf (2:8.39-9) ...
Setting up libpcre32-3:armhf (2:8.39-9) ...
Setting up icu-devtools (57.1-9) ...
Setting up libpcre16-3:armhf (2:8.39-9) ...
Setting up libboost-dev:armhf (1.62.0.1+b8) ...
Setting up libtcl8.6:armhf (8.6.8+dfsg-4) ...
Setting up libthai-data (0.1.27-2) ...
Setting up libjpeg62-turbo-dev:armhf (1:1.5.2-2+b1) ...
Setting up liblzma-dev:armhf (5.2.2-1.3) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up libkeyutils1:armhf (1.5.9-9.2) ...
Setting up bsdmainutils (11.1.2) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up x11-common (1:7.7+19) ...
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 restart.
Setting up xdg-utils (1.1.2-2) ...
Setting up libncurses6:armhf (6.1+20180210-2) ...
Setting up libx11-data (2:1.6.5-1) ...
Setting up libxau6:armhf (1:1.0.8-1+b2) ...
Setting up autopoint (0.19.8.1-6) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Setting up libfile-stripnondeterminism-perl (0.041-1) ...
Setting up libpaper1:armhf (1.1.24+nmu5) ...
Creating config file /etc/papersize with new version
Setting up gfortran (4:7.2.0-1d1) ...
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 libpaper-utils (1.1.24+nmu5) ...
Setting up libpcre3-dev:armhf (2:8.39-9) ...
Setting up fontconfig-config (2.13.0-4) ...
Installing new version of config file /etc/fonts/fonts.conf ...
Setting up gettext (0.19.8.1-6) ...
Setting up libblas-dev:armhf (3.8.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode
Setting up liblapack3:armhf (3.8.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up libncursesw6:armhf (6.1+20180210-2) ...
Setting up libharfbuzz0b:armhf (1.7.6-1) ...
Setting up autoconf (2.69-11) ...
Setting up libthai0:armhf (0.1.27-2) ...
Setting up libicu-dev (57.1-9) ...
Setting up file (1:5.33-2) ...
Setting up libkrb5support0:armhf (1.16-2) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up libjpeg-dev (1:1.5.2-2) ...
Setting up automake (1:1.15.1-3.1) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up libice6:armhf (2:1.0.9-2) ...
Setting up man-db (2.8.3-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libpng-dev:armhf (1.6.34-1) ...
Setting up libncurses-dev:armhf (6.1+20180210-2) ...
Setting up libxcb1:armhf (1.13-1) ...
Setting up liblapack-dev:armhf (3.8.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode
Setting up libtool (2.4.6-2.1) ...
Setting up libfontconfig1:armhf (2.13.0-4) ...
Setting up libsm6:armhf (2:1.2.2-1+b3) ...
Setting up libk5crypto3:armhf (1.16-2) ...
Setting up libxcb-render0:armhf (1.13-1) ...
Setting up po-debconf (1.0.20) ...
Setting up libx11-6:armhf (2:1.6.5-1) ...
Setting up libxmuu1:armhf (2:1.1.2-2) ...
Setting up libncurses5-dev:armhf (6.1+20180210-2) ...
Setting up libreadline-dev:armhf (7.0-3) ...
Setting up libxcb-shm0:armhf (1.13-1) ...
Setting up libxt6:armhf (1:1.1.5-1) ...
Setting up libxrender1:armhf (1:0.9.10-1) ...
Setting up libkrb5-3:armhf (1.16-2) ...
Setting up libxft2:armhf (2.3.2-2) ...
Setting up fontconfig (2.13.0-4) ...
Regenerating fonts cache... done.
Setting up libxext6:armhf (2:1.3.3-1+b2) ...
Setting up libxss1:armhf (1:1.2.2-1) ...
Setting up libgssapi-krb5-2:armhf (1.16-2) ...
Setting up xauth (1:1.0.10-1) ...
Setting up libpango-1.0-0:armhf (1.42.0-1) ...
Setting up libcairo2:armhf (1.15.10-3) ...
Setting up libcurl3:armhf (7.58.0-2) ...
Setting up libtk8.6:armhf (8.6.8-4) ...
Setting up libpangoft2-1.0-0:armhf (1.42.0-1) ...
Setting up libpangocairo-1.0-0:armhf (1.42.0-1) ...
Setting up r-base-core (3.4.4-1) ...
Creating config file /etc/R/Renviron with new version
Setting up r-base-dev (3.4.4-1) ...
Setting up r-bioc-biocgenerics (0.26.0-2) ...
Setting up r-bioc-graph (1.58.0-1) ...
Setting up dh-autoreconf (17) ...
Setting up dh-strip-nondeterminism (0.041-1) ...
Setting up debhelper (11.2.1) ...
Setting up dh-r (20180403) ...
Setting up sbuild-build-depends-r-bioc-rbgl-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.27-3+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.4.0-119-generic armhf (armv8l)
Toolchain package versions: binutils_2.30-15+rpi1 dpkg-dev_1.19.0.5 g++-7_7.3.0-12 gcc-7_7.3.0-12 libc6-dev_2.27-3+rpi1 libstdc++-7-dev_7.3.0-12 libstdc++6_8-20180414-1+rpi1 linux-libc-dev_4.15.17-1+rpi1
Package versions: adduser_3.117 apt_1.6.1 autoconf_2.69-11 automake_1:1.15.1-3.1 autopoint_0.19.8.1-6 autotools-dev_20180224.1 base-files_10.1+rpi1 base-passwd_3.5.45 bash_4.4.18-2+b1 binutils_2.30-15+rpi1 binutils-arm-linux-gnueabihf_2.30-15+rpi1 binutils-common_2.30-15+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.31.1-0.5 build-essential_12.4+b1 bzip2_1.0.6-8.1 ca-certificates_20170717 cdbs_0.4.156 coreutils_8.28-1 cpio_2.12+dfsg-6 cpp_4:7.2.0-1d1 cpp-7_7.3.0-12 dash_0.5.8-2.10 dbus_1.12.6-2 dbus-user-session_1.12.6-2 dctrl-tools_2.24-2 debconf_1.5.66 debhelper_11.2.1 debianutils_4.8.4 dh-autoreconf_17 dh-r_20180403 dh-strip-nondeterminism_0.041-1 diffutils_1:3.6-1 dirmngr_2.2.5-1 dmsetup_2:1.02.145-4.1 dpkg_1.19.0.5 dpkg-dev_1.19.0.5 e2fslibs_1.44.1-2 e2fsprogs_1.44.1-2 e2fsprogs-l10n_1.44.1-2 fakeroot_1.22-2 fdisk_2.31.1-0.5 file_1:5.33-2 findutils_4.6.0+git+20171230-2 fontconfig_2.13.0-4 fontconfig-config_2.13.0-4 fonts-dejavu-core_2.37-1 g++_4:7.2.0-1d1 g++-7_7.3.0-12 gcc_4:7.2.0-1d1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.4-2+rpi1 gcc-5-base_5.5.0-8 gcc-7_7.3.0-12 gcc-7-base_7.3.0-12 gcc-8-base_8-20180414-1+rpi1 gettext_0.19.8.1-6 gettext-base_0.19.8.1-6 gfortran_4:7.2.0-1d1 gfortran-7_7.3.0-12 gnupg_2.2.5-1 gnupg-agent_2.2.5-1 gnupg-l10n_2.2.5-1 gnupg-utils_2.2.5-1 gpg_2.2.5-1 gpg-agent_2.2.5-1 gpg-wks-client_2.2.5-1 gpg-wks-server_2.2.5-1 gpgconf_2.2.5-1 gpgsm_2.2.5-1 gpgv_2.2.5-1 grep_3.1-2 groff-base_1.22.3-10 gzip_1.6-5 hostname_3.20 icu-devtools_57.1-9 inetutils-ping_2:1.9.4-3 init-system-helpers_1.51 initramfs-tools_0.130 initramfs-tools-core_0.130 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-11+rpi1 kmod_25-1 libacl1_2.2.52-3 libapparmor1_2.12-4 libapt-pkg5.0_1.6.1 libarchive-zip-perl_1.60-1 libargon2-0_0~20161029-2 libasan4_7.3.0-12 libassuan0_2.5.1-2 libatomic1_8-20180414-1+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.8.2-1 libaudit1_1:2.8.2-1 libbinutils_2.30-15+rpi1 libblas-dev_3.8.0-1 libblas3_3.8.0-1 libblkid1_2.31.1-0.5 libboost-dev_1.62.0.1+b8 libboost1.62-dev_1.62.0+dfsg-5+b2 libbsd0_0.8.7-1 libbz2-1.0_1.0.6-8.1 libbz2-dev_1.0.6-8.1 libc-bin_2.27-3+rpi1 libc-dev-bin_2.27-3+rpi1 libc6_2.27-3+rpi1 libc6-dev_2.27-3+rpi1 libcairo2_1.15.10-3 libcap-ng0_0.7.7-3.1+b1 libcap2_1:2.25-1.2 libcc1-0_8-20180414-1+rpi1 libcilkrts5_7.3.0-12 libcom-err2_1.44.1-2 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.2-1 libcryptsetup4_2:1.7.5-1 libcurl3_7.58.0-2 libdatrie1_0.2.11-1 libdb5.3_5.3.28-13.1 libdbus-1-3_1.12.6-2 libdebconfclient0_0.243 libdevmapper1.02.1_2:1.02.145-4.1 libdpkg-perl_1.19.0.5 libdrm-common_2.4.91-2+rpi1 libdrm2_2.4.91-2+rpi1 libexpat1_2.2.5-3 libext2fs2_1.44.1-2 libfakeroot_1.22-2 libfdisk1_2.31.1-0.5 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.041-1 libfontconfig1_2.13.0-4 libfreetype6_2.8.1-2 libfribidi0_0.19.7-2 libgcc-7-dev_7.3.0-12 libgcc1_1:8-20180414-1+rpi1 libgcrypt20_1.8.2-2 libgdbm-compat4_1.14.1-6 libgdbm3_1.8.3-14 libgdbm5_1.14.1-6 libgfortran-7-dev_7.3.0-12 libgfortran4_7.3.0-12 libglib2.0-0_2.56.1-2 libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.5.18-1 libgomp1_8-20180414-1+rpi1 libgpg-error0_1.29-4 libgraphite2-3_1.3.11-2 libgssapi-krb5-2_1.16-2 libharfbuzz0b_1.7.6-1 libhogweed4_3.4-1 libice6_2:1.0.9-2 libicu-dev_57.1-9 libicu57_57.1-9 libidn11_1.33-2.2 libidn2-0_2.0.4-1.1 libip4tc0_1.6.2-1 libisl15_0.18-4 libjbig0_2.1-3.1+b2 libjpeg-dev_1:1.5.2-2 libjpeg62-turbo_1:1.5.2-2+b1 libjpeg62-turbo-dev_1:1.5.2-2+b1 libjson-c3_0.12.1-1.3 libk5crypto3_1.16-2 libkeyutils1_1.5.9-9.2 libklibc_2.0.4-11+rpi1 libkmod2_25-1 libkrb5-3_1.16-2 libkrb5support0_1.16-2 libksba8_1.3.5-2 liblapack-dev_3.8.0-1 liblapack3_3.8.0-1 libldap-2.4-2_2.4.45+dfsg-1 libldap-common_2.4.45+dfsg-1 liblz4-1_1.8.1.2-1+rpi1 liblzma-dev_5.2.2-1.3 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.33-2 libmagic1_1:5.33-2 libmount1_2.31.1-0.5 libmpc3_1.1.0-1 libmpfr6_4.0.1-1 libncurses-dev_6.1+20180210-2 libncurses5_6.1-1 libncurses5-dev_6.1+20180210-2 libncurses6_6.1+20180210-2 libncursesw5_6.1-1 libncursesw6_6.1+20180210-2 libnettle6_3.4-1 libnghttp2-14_1.31.1-1 libnpth0_1.5-3 libnss-systemd_238-4 libp11-kit0_0.23.10-2 libpam-modules_1.1.8-3.7 libpam-modules-bin_1.1.8-3.7 libpam-runtime_1.1.8-3.7 libpam-systemd_238-4 libpam0g_1.1.8-3.7 libpango-1.0-0_1.42.0-1 libpangocairo-1.0-0_1.42.0-1 libpangoft2-1.0-0_1.42.0-1 libpaper-utils_1.1.24+nmu5 libpaper1_1.1.24+nmu5 libpcre16-3_2:8.39-9 libpcre3_2:8.39-9 libpcre3-dev_2:8.39-9 libpcre32-3_2:8.39-9 libpcrecpp0v5_2:8.39-9 libperl5.24_5.24.1-7 libperl5.26_5.26.2-2 libpipeline1_1.5.0-1 libpixman-1-0_0.34.0-2 libplymouth4_0.9.3-2 libpng-dev_1.6.34-1 libpng16-16_1.6.34-1 libprocps6_2:3.3.14-1 libpsl5_0.20.1-1 libreadline-dev_7.0-3 libreadline7_7.0-3 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3.1 libseccomp2_2.3.3-1 libselinux1_2.7-2 libsemanage-common_2.7-2 libsemanage1_2.7-2 libsepol1_2.7-1 libsigsegv2_2.12-2 libsm6_2:1.2.2-1+b3 libsmartcols1_2.31.1-0.5 libsqlite3-0_3.23.1-1 libss2_1.44.1-2 libssh2-1_1.8.0-1 libssl1.0.2_1.0.2o-1 libssl1.1_1.1.0h-2 libstdc++-7-dev_7.3.0-12 libstdc++6_8-20180414-1+rpi1 libsystemd0_238-4 libtasn1-6_4.13-2 libtcl8.6_8.6.8+dfsg-4 libthai-data_0.1.27-2 libthai0_0.1.27-2 libtiff5_4.0.9-5 libtimedate-perl_2.3000-2 libtinfo5_6.1-1 libtinfo6_6.1+20180210-2 libtk8.6_8.6.8-4 libtool_2.4.6-2.1 libubsan0_7.3.0-12 libudev1_238-4 libunistring2_0.9.8-1 libustr-1.0-1_1.0.4-6 libuuid1_2.31.1-0.5 libx11-6_2:1.6.5-1 libx11-data_2:1.6.5-1 libxau6_1:1.0.8-1+b2 libxcb-render0_1.13-1 libxcb-shm0_1.13-1 libxcb1_1.13-1 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1+b2 libxft2_2.3.2-2 libxml2_2.9.4+dfsg1-6.1 libxmuu1_2:1.1.2-2 libxrender1_1:0.9.10-1 libxss1_1:1.2.2-1 libxt6_1:1.1.5-1 libzstd1_1.3.3+dfsg-2+rpi1 linux-base_4.5 linux-libc-dev_4.15.17-1+rpi1 login_1:4.5-1 lsb-base_9.20170808+rpi1 m4_1.4.18-1 make_4.1-9.1 makedev_2.3.1-93 man-db_2.8.3-2 mawk_1.3.3-17 mount_2.31.1-0.5 multiarch-support_2.27-3+rpi1 nano_2.9.5-1 ncurses-base_6.1-1 ncurses-bin_6.1-1 netbase_5.4 openssl_1.1.0h-2 passwd_1:4.5-1 patch_2.7.6-2 perl_5.26.2-2 perl-base_5.26.2-2 perl-modules-5.24_5.24.1-7 perl-modules-5.26_5.26.2-3 pinentry-curses_1.1.0-1 pkg-config_0.29-4 plymouth_0.9.3-2 po-debconf_1.0.20 procps_2:3.3.14-1 r-base-core_3.4.4-1 r-base-dev_3.4.4-1 r-bioc-biocgenerics_0.26.0-2 r-bioc-graph_1.58.0-1 raspbian-archive-keyring_20120528.2 readline-common_7.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-rbgl-dummy_0.invalid.0 sed_4.4-2 sensible-utils_0.0.12 systemd_238-4 systemd-sysv_238-4 sysvinit-utils_2.88dsf-59.10 tar_1.29b-2 tzdata_2018d-1 ucf_3.0038 udev_238-4 unzip_6.0-21 util-linux_2.31.1-0.5 x11-common_1:7.7+19 xauth_1:1.0.10-1 xdg-utils_1.1.2-2 xz-utils_5.2.2-1.3 zip_3.0-11 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Sun May 6 06:13:10 2018 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./r-bioc-rbgl_1.56.0+dfsg-2.dsc
dpkg-source: info: extracting r-bioc-rbgl in /<<BUILDDIR>>/r-bioc-rbgl-1.56.0+dfsg
dpkg-source: info: unpacking r-bioc-rbgl_1.56.0+dfsg.orig.tar.xz
dpkg-source: info: unpacking r-bioc-rbgl_1.56.0+dfsg-2.debian.tar.xz
dpkg-source: info: applying boost-1.61.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-3d63552d-49b5-4d59-8922-e0a712a8901f
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package r-bioc-rbgl
dpkg-buildpackage: info: source version 1.56.0+dfsg-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build r-bioc-rbgl-1.56.0+dfsg
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --buildsystem R
dh_testdir -O--buildsystem=R
dh_auto_clean -O--buildsystem=R
dh_autoreconf_clean -O--buildsystem=R
dh_clean -O--buildsystem=R
debian/rules build-arch
dh build-arch --buildsystem R
dh_testdir -a -O--buildsystem=R
dh_update_autotools_config -a -O--buildsystem=R
dh_autoreconf -a -O--buildsystem=R
dh_auto_configure -a -O--buildsystem=R
dh_auto_build -a -O--buildsystem=R
dh_auto_test -a -O--buildsystem=R
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch --buildsystem R
dh_testroot -a -O--buildsystem=R
dh_prep -a -O--buildsystem=R
dh_installdirs -a -O--buildsystem=R
dh_auto_install -a -O--buildsystem=R
I: R Package: RBGL Version: 1.56.0
I: Building using R version 3.4.4-1
I: R API version: r-api-3.4
I: Using built-time from d/changelog: Sun, 06 May 2018 07:51:39 +0200
mkdir -p /<<BUILDDIR>>/r-bioc-rbgl-1.56.0\+dfsg/debian/r-bioc-rbgl/usr/lib/R/site-library
R CMD INSTALL -l /<<BUILDDIR>>/r-bioc-rbgl-1.56.0\+dfsg/debian/r-bioc-rbgl/usr/lib/R/site-library --clean . "--built-timestamp='Sun, 06 May 2018 07:51:39 +0200'"
* installing *source* package 'RBGL' ...
** libs
make[1]: Entering directory '/<<BUILDDIR>>/r-bioc-rbgl-1.56.0+dfsg/src'
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bbc.cpp -o bbc.o
In file included from bbc.cpp:2:0:
/usr/include/boost/graph/betweenness_centrality.hpp: In function 'void boost::detail::graph::brandes_betweenness_centrality_impl(const Graph&, CentralityMap, EdgeCentralityMap, IncomingMap, DistanceMap, DependencyMap, PathCountMap, VertexIndexMap, ShortestPaths) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >; CentralityMap = boost::dummy_property_map; EdgeCentralityMap = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>; IncomingMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >*, std::vector<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::allocator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > > > > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >&>; DistanceMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>; DependencyMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>; PathCountMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int, std::allocator<unsigned int> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, unsigned int, unsigned int&>; VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>; ShortestPaths = boost::detail::graph::brandes_unweighted_shortest_paths]':
/usr/include/boost/graph/betweenness_centrality.hpp:288:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>' changed in GCC 7.1
brandes_betweenness_centrality_impl(const Graph& g,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/betweenness_centrality.hpp:288:3: note: parameter passing for argument of type 'boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp:288:3: note: parameter passing for argument of type 'boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp: In function 'void boost::detail::graph::brandes_betweenness_centrality_dispatch2(const Graph&, CentralityMap, EdgeCentralityMap, VertexIndexMap) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >; CentralityMap = boost::dummy_property_map; EdgeCentralityMap = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>; VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>]':
/usr/include/boost/graph/betweenness_centrality.hpp:452:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>' changed in GCC 7.1
brandes_betweenness_centrality_dispatch2(const Graph& g,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/betweenness_centrality.hpp:377:53: note: parameter passing for argument of type 'boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>' changed in GCC 7.1
detail::graph::brandes_betweenness_centrality_impl(g, centrality,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~
edge_centrality_map,
~~~~~~~~~~~~~~~~~~~~
incoming, distance,
~~~~~~~~~~~~~~~~~~~
dependency, path_count,
~~~~~~~~~~~~~~~~~~~~~~~
vertex_index,
~~~~~~~~~~~~~
shortest_paths);
~~~~~~~~~~~~~~~
/usr/include/boost/graph/betweenness_centrality.hpp:377:53: note: parameter passing for argument of type 'boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>' changed in GCC 7.1
In file included from bbc.cpp:3:0:
/usr/include/boost/graph/bc_clustering.hpp: In function 'void boost::betweenness_centrality_clustering(MutableGraph&, Done, EdgeCentralityMap, VertexIndexMap) [with MutableGraph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >; Done = clustering_threshold; EdgeCentralityMap = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>; VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>]':
/usr/include/boost/graph/bc_clustering.hpp:109:1: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>' changed in GCC 7.1
betweenness_centrality_clustering(MutableGraph& g, Done done,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/bc_clustering.hpp: In function 'SEXPREC* BGL_betweenness_centrality_clustering(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
/usr/include/boost/graph/bc_clustering.hpp:144:36: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>' changed in GCC 7.1
betweenness_centrality_clustering(g, done, edge_centrality,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
get(vertex_index, g));
~~~~~~~~~~~~~~~~~~~~~
In file included from bbc.cpp:2:0:
/usr/include/boost/graph/betweenness_centrality.hpp: In function 'void boost::detail::graph::brandes_betweenness_centrality_impl(const Graph&, CentralityMap, EdgeCentralityMap, IncomingMap, DistanceMap, DependencyMap, PathCountMap, VertexIndexMap, ShortestPaths) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >; CentralityMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >*, double, double&, boost::vertex_centrality_t>; EdgeCentralityMap = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>; IncomingMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >*, std::vector<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::allocator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > > > > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >&>; DistanceMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>; DependencyMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>; PathCountMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int, std::allocator<unsigned int> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, unsigned int, unsigned int&>; VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>; ShortestPaths = boost::detail::graph::brandes_dijkstra_shortest_paths<boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_weight_t> >]':
/usr/include/boost/graph/betweenness_centrality.hpp:288:3: note: parameter passing for argument of type 'boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >*, double, double&, boost::vertex_centrality_t>' changed in GCC 7.1
brandes_betweenness_centrality_impl(const Graph& g,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/betweenness_centrality.hpp:288:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp:288:3: note: parameter passing for argument of type 'boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp:288:3: note: parameter passing for argument of type 'boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp: In function 'void boost::detail::graph::brandes_betweenness_centrality_dispatch2(const Graph&, CentralityMap, EdgeCentralityMap, WeightMap, VertexIndexMap) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >; CentralityMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >*, double, double&, boost::vertex_centrality_t>; EdgeCentralityMap = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>; WeightMap = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_weight_t>; VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>]':
/usr/include/boost/graph/betweenness_centrality.hpp:416:3: note: parameter passing for argument of type 'boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >*, double, double&, boost::vertex_centrality_t>' changed in GCC 7.1
brandes_betweenness_centrality_dispatch2(const Graph& g,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/betweenness_centrality.hpp:416:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp:416:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_weight_t>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp:404:53: note: parameter passing for argument of type 'boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >*, double, double&, boost::vertex_centrality_t>' changed in GCC 7.1
detail::graph::brandes_betweenness_centrality_impl(g, centrality,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~
edge_centrality_map,
~~~~~~~~~~~~~~~~~~~~
incoming, distance,
~~~~~~~~~~~~~~~~~~~
dependency, path_count,
~~~~~~~~~~~~~~~~~~~~~~~
vertex_index,
~~~~~~~~~~~~~
shortest_paths);
~~~~~~~~~~~~~~~
/usr/include/boost/graph/betweenness_centrality.hpp:404:53: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp:404:53: note: parameter passing for argument of type 'boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp:404:53: note: parameter passing for argument of type 'boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, unsigned int>, double, double&>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp: In function 'SEXPREC* BGL_brandes_betweenness_centrality(SEXP, SEXP, SEXP, SEXP)':
/usr/include/boost/graph/betweenness_centrality.hpp:492:47: note: parameter passing for argument of type 'boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> > >*, double, double&, boost::vertex_centrality_t>' changed in GCC 7.1
brandes_betweenness_centrality_dispatch2(g, centrality, edge_centrality_map,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
weight_map, vertex_index);
~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/betweenness_centrality.hpp:492:47: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_centrality_t>' changed in GCC 7.1
/usr/include/boost/graph/betweenness_centrality.hpp:492:47: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double> >, boost::edge_weight_t>' changed in GCC 7.1
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cliques.cpp -o cliques.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c clusteringCoef.cpp -o clusteringCoef.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dominatorTree.cpp -o dominatorTree.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c edmonds_optimum_branching.cpp -o edmonds_optimum_branching.o
In file included from /usr/include/c++/7/vector:69:0,
from RBGL.hpp:12,
from edmonds_optimum_branching.cpp:1:
/usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode}; _Tp = detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode; _Alloc = std::allocator<detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode>]':
/usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector<detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode, std::allocator<detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode> >::iterator {aka __gnu_cxx::__normal_iterator<detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode*, std::vector<detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode, std::allocator<detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode> > >}' changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/7/bits/vector.tcc: In member function 'void detail::OptimumBranching<TOptimumIsMaximum, TAttemptToSpan, TGraphIsDense, TEdgeListGraph, TVertexIndexMap, TWeightMap, TInputIterator, TOutputIterator>::operator()() [with bool TOptimumIsMaximum = true; bool TAttemptToSpan = false; bool TGraphIsDense = false; TEdgeListGraph = R_adjacency_list<boost::directedS, double>; TVertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>; TWeightMap = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>; TInputIterator = unsigned int*; TOutputIterator = std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > >]':
/usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode*, std::vector<detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode, std::allocator<detail::OptimumBranching<true, false, false, R_adjacency_list<boost::directedS, double>, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, unsigned int*, std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >::EdgeNode> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c hcs.cpp -o hcs.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c incrConnComp.cpp -o incrConnComp.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c interfaces.cpp -o interfaces.o
In file included from interfaces.cpp:8:0:
/usr/include/boost/graph/biconnected_components.hpp: In function 'std::pair<unsigned int, OutputIterator> boost::detail::biconnected_components_impl(const Graph&, ComponentMap, OutputIterator, VertexIndexMap, DiscoverTimeMap, LowPointMap, PredecessorMap, DFSVisitor) [with Graph = R_adjacency_list<boost::undirectedS, double>; ComponentMap = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>; OutputIterator = boost::graph_detail::dummy_output_iterator; VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>; DiscoverTimeMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, unsigned int, unsigned int&>; LowPointMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, unsigned int, unsigned int&>; PredecessorMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, unsigned int, unsigned int&>; DFSVisitor = boost::dfs_visitor<>]':
/usr/include/boost/graph/biconnected_components.hpp:162:5: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
biconnected_components_impl(const Graph & g, ComponentMap comp,
^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/biconnected_components.hpp: In function 'std::size_t boost::biconnected_components(const Graph&, ComponentMap) [with Graph = R_adjacency_list<boost::undirectedS, double>; ComponentMap = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>]':
/usr/include/boost/graph/biconnected_components.hpp:391:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
biconnected_components(const Graph& g, ComponentMap comp)
^~~~~~~~~~~~~~~~~~~~~~
interfaces.cpp: In function 'SEXPREC* BGL_biconnected_components_U(SEXP, SEXP, SEXP, SEXP)':
interfaces.cpp:264:47: note: parameter passing for argument of type 'boost::detail::adj_list_any_edge_pmap::bind_<R_adjacency_list<boost::undirectedS, double>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>::type {aka boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>}' changed in GCC 7.1
int num_comps = biconnected_components(g, component);
~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c minST.cpp -o minST.o
In file included from minST.cpp:2:0:
/usr/include/boost/graph/kruskal_min_spanning_tree.hpp: In function 'void boost::detail::kruskal_mst_impl(const Graph&, OutputIterator, Rank, Parent, Weight) [with Graph = R_adjacency_list<boost::directedS, double>; OutputIterator = std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > >; Rank = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, unsigned int, unsigned int&>; Parent = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, unsigned int, unsigned int&>; Weight = boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>]':
/usr/include/boost/graph/kruskal_min_spanning_tree.hpp:48:5: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
kruskal_mst_impl(const Graph& G,
^~~~~~~~~~~~~~~~
/usr/include/boost/graph/kruskal_min_spanning_tree.hpp: In function 'void boost::detail::kruskal_mst_impl(const Graph&, OutputIterator, Rank, Parent, Weight) [with Graph = R_adjacency_list<boost::undirectedS, double>; OutputIterator = std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >; Rank = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, unsigned int, unsigned int&>; Parent = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>, unsigned int, unsigned int&>; Weight = boost::adj_list_edge_property_map<boost::undirected_tag, double, const double&, unsigned int, const boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>]':
/usr/include/boost/graph/kruskal_min_spanning_tree.hpp:48:5: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, const double&, unsigned int, const boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
/usr/include/boost/graph/kruskal_min_spanning_tree.hpp: In function 'SEXPREC* BGL_KMST_D(SEXP, SEXP, SEXP, SEXP)':
/usr/include/boost/graph/kruskal_min_spanning_tree.hpp:112:7: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
detail::kruskal_mst_impl
~~~~~~~~~~~~~~~~~~~~~~~~
(g, spanning_tree_edges,
^~~~~~~~~~~~~~~~~~~~~~~~
make_iterator_property_map(rank_map.begin(), get(vertex_index, g), rank_map[0]),
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
make_iterator_property_map(pred_map.begin(), get(vertex_index, g), pred_map[0]),
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
get(edge_weight, g));
~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/kruskal_min_spanning_tree.hpp: In function 'SEXPREC* BGL_KMST_U(SEXP, SEXP, SEXP, SEXP)':
/usr/include/boost/graph/kruskal_min_spanning_tree.hpp:112:7: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, const double&, unsigned int, const boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
detail::kruskal_mst_impl
~~~~~~~~~~~~~~~~~~~~~~~~
(g, spanning_tree_edges,
^~~~~~~~~~~~~~~~~~~~~~~~
make_iterator_property_map(rank_map.begin(), get(vertex_index, g), rank_map[0]),
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
make_iterator_property_map(pred_map.begin(), get(vertex_index, g), pred_map[0]),
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
get(edge_weight, g));
~~~~~~~~~~~~~~~~~~~~
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mincut.cpp -o mincut.o
In file included from mincut.cpp:4:0:
/usr/include/boost/graph/push_relabel_max_flow.hpp: In constructor 'boost::detail::push_relabel<Graph, EdgeCapacityMap, ResidualCapacityEdgeMap, ReverseEdgeMap, VertexIndexMap, FlowValue>::push_relabel(Graph&, EdgeCapacityMap, ResidualCapacityEdgeMap, ReverseEdgeMap, boost::detail::push_relabel<Graph, EdgeCapacityMap, ResidualCapacityEdgeMap, ReverseEdgeMap, VertexIndexMap, FlowValue>::vertex_descriptor, boost::detail::push_relabel<Graph, EdgeCapacityMap, ResidualCapacityEdgeMap, ReverseEdgeMap, VertexIndexMap, FlowValue>::vertex_descriptor, VertexIndexMap) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > > >; EdgeCapacityMap = boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_capacity_t>; ResidualCapacityEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_residual_capacity_t>; ReverseEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, const boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_reverse_t>; VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::no_property, unsigned int>; FlowValue = double]':
/usr/include/boost/graph/push_relabel_max_flow.hpp:114:7: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_capacity_t>' changed in GCC 7.1
push_relabel(Graph& g_,
^~~~~~~~~~~~
/usr/include/boost/graph/push_relabel_max_flow.hpp:114:7: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_residual_capacity_t>' changed in GCC 7.1
In file included from /usr/include/boost/graph/edge_connectivity.hpp:19:0,
from mincut.hpp:4,
from mincut.cpp:2:
/usr/include/boost/graph/edmonds_karp_max_flow.hpp: In function 'typename boost::property_traits<IndexMap>::value_type boost::edmonds_karp_max_flow(Graph&, typename boost::graph_traits<Graph>::vertex_descriptor, typename boost::graph_traits<Graph>::vertex_descriptor, CapacityEdgeMap, ResidualCapacityEdgeMap, ReverseEdgeMap, ColorMap, PredEdgeMap) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > > >; CapacityEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_capacity_t>; ResidualCapacityEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_residual_capacity_t>; ReverseEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, const boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_reverse_t>; ColorMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<boost::default_color_type*, std::vector<boost::default_color_type> >, boost::vec_adj_list_vertex_id_map<boost::no_property, unsigned int>, boost::default_color_type, boost::default_color_type&>; PredEdgeMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>*, std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::vec_adj_list_vertex_id_map<boost::no_property, unsigned int>, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>&>]':
/usr/include/boost/graph/edmonds_karp_max_flow.hpp:79:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_capacity_t>' changed in GCC 7.1
edmonds_karp_max_flow
^~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/edmonds_karp_max_flow.hpp:79:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_residual_capacity_t>' changed in GCC 7.1
In file included from mincut.cpp:4:0:
/usr/include/boost/graph/push_relabel_max_flow.hpp: In function 'SEXPREC* BGL_max_flow_internal(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, E_MF_METHOD)':
/usr/include/boost/graph/push_relabel_max_flow.hpp:700:7: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_residual_capacity_t>' changed in GCC 7.1
algo(g, cap, res, rev, src, sink, index_map);
^~~~
In file included from /usr/include/boost/graph/edge_connectivity.hpp:19:0,
from mincut.hpp:4,
from mincut.cpp:2:
/usr/include/boost/graph/edmonds_karp_max_flow.hpp:167:16: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_capacity_t>' changed in GCC 7.1
pred);
^
/usr/include/boost/graph/edmonds_karp_max_flow.hpp:167:16: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_residual_capacity_t>' changed in GCC 7.1
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ordering.cpp -o ordering.o
In file included from /usr/include/c++/7/list:64:0,
from /usr/include/boost/graph/adjacency_list.hpp:18,
from RBGL.hpp:40,
from ordering.cpp:1:
/usr/include/c++/7/bits/list.tcc: In member function 'void std::__cxx11::list<_Tp, _Alloc>::merge(std::__cxx11::list<_Tp, _Alloc>&&, _StrictWeakOrdering) [with _StrictWeakOrdering = boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>, std::greater<double> >; _Tp = unsigned int; _Alloc = std::allocator<unsigned int>]':
/usr/include/c++/7/bits/list.tcc:419:7: note: parameter passing for argument of type 'boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>, std::greater<double> >' changed in GCC 7.1
list<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~
/usr/include/c++/7/bits/list.tcc: In member function 'void std::__cxx11::list<_Tp, _Alloc>::sort(_StrictWeakOrdering) [with _StrictWeakOrdering = boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>, std::greater<double> >; _Tp = unsigned int; _Alloc = std::allocator<unsigned int>]':
/usr/include/c++/7/bits/list.tcc:552:7: note: parameter passing for argument of type 'boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>, std::greater<double> >' changed in GCC 7.1
list<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/7/list:63:0,
from /usr/include/boost/graph/adjacency_list.hpp:18,
from RBGL.hpp:40,
from ordering.cpp:1:
/usr/include/c++/7/bits/stl_list.h:1675:9: note: parameter passing for argument of type 'boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>, std::greater<double> >' changed in GCC 7.1
{ merge(std::move(__x), __comp); }
~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/7/bits/stl_list.h:1675:9: note: parameter passing for argument of type 'boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>, std::greater<double> >' changed in GCC 7.1
{ merge(std::move(__x), __comp); }
~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
In file included from ordering.cpp:8:0:
/usr/include/boost/graph/sloan_ordering.hpp: In function 'OutputIterator boost::sloan_ordering(Graph&, typename boost::graph_traits<Graph>::vertex_descriptor, typename boost::graph_traits<Graph>::vertex_descriptor, OutputIterator, ColorMap, DegreeMap, PriorityMap, Weight, Weight) [with Graph = boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >; OutputIterator = __gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int> >; ColorMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, boost::default_color_type, boost::default_color_type&, boost::vertex_color_t>; DegreeMap = boost::degree_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > > >; PriorityMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>; Weight = int]':
/usr/include/boost/graph/sloan_ordering.hpp:257:3: note: parameter passing for argument of type 'boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>' changed in GCC 7.1
sloan_ordering(Graph& g,
^~~~~~~~~~~~~~
/usr/include/boost/graph/sloan_ordering.hpp:318:7: note: parameter passing for argument of type 'Compare {aka boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>, std::greater<double> >}' changed in GCC 7.1
priority_list.sort(comp); //Orders the elements in the priority list in an ascending manner
^~~~~~~~~~~~~
/usr/include/boost/graph/sloan_ordering.hpp: In function 'SEXPREC* BGL_sloan_ordering(SEXP, SEXP, SEXP, SEXP, SEXP)':
/usr/include/boost/graph/sloan_ordering.hpp:427:80: note: parameter passing for argument of type 'boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >, boost::adjacency_list<boost::setS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::property<boost::vertex_degree_t, int, boost::property<boost::vertex_priority_t, double> > > >*, double, double&, boost::vertex_priority_t>' changed in GCC 7.1
return sloan_ordering(G, s, e, permutation, color, degree, priority, W1, W2);
^
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c planar.cpp -o planar.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c shortestPath.cpp -o shortestPath.o
In file included from /usr/include/boost/graph/johnson_all_pairs_shortest.hpp:28:0,
from shortestPath.cpp:4:
/usr/include/boost/graph/bellman_ford_shortest_paths.hpp: In function 'bool boost::bellman_ford_shortest_paths(EdgeListGraph&, Size, WeightMap, PredecessorMap, DistanceMap, BinaryFunction, BinaryPredicate, BellmanFordVisitor) [with EdgeListGraph = boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property<boost::edge_weight_t, double, boost::no_property> >; Size = int; WeightMap = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>; PredecessorMap = unsigned int*; DistanceMap = double*; BinaryFunction = boost::closed_plus<double>; BinaryPredicate = std::less<double>; BellmanFordVisitor = boost::bellman_visitor<>]':
/usr/include/boost/graph/bellman_ford_shortest_paths.hpp:91:8: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
bool bellman_ford_shortest_paths(EdgeListGraph& g, Size N,
^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/bellman_ford_shortest_paths.hpp: In function 'bool boost::bellman_ford_shortest_paths(EdgeListGraph&, Size, WeightMap, PredecessorMap, DistanceMap, BinaryFunction, BinaryPredicate, BellmanFordVisitor) [with EdgeListGraph = boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::no_property, boost::listS>; Size = unsigned int; WeightMap = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::edge_weight_t>; PredecessorMap = boost::dummy_property_map; DistanceMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>; BinaryFunction = boost::closed_plus<double>; BinaryPredicate = std::less<double>; BellmanFordVisitor = boost::bellman_visitor<>]':
/usr/include/boost/graph/bellman_ford_shortest_paths.hpp:91:8: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::edge_weight_t>' changed in GCC 7.1
/usr/include/boost/graph/bellman_ford_shortest_paths.hpp:91:8: note: parameter passing for argument of type 'boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>' changed in GCC 7.1
In file included from shortestPath.cpp:4:0:
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp: In function 'bool boost::johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph&, DistanceMatrix&, VertexID, Weight, const BinaryPredicate&, const BinaryFunction&, const Infinity&, DistanceZero) [with VertexAndEdgeListGraph = R_adjacency_list<boost::directedS, double>; DistanceMatrix = Basic2DMatrix<double>; VertexID = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>; Weight = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>; BinaryPredicate = std::less<double>; BinaryFunction = boost::closed_plus<double>; Infinity = double; DistanceZero = double]':
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp:40:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph& g1,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp:109:9: note: parameter passing for argument of type 'boost::vec_adj_list_any_vertex_pa::bind_<boost::vertex_distance_t, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::no_property, boost::listS>, boost::property<boost::vertex_distance_t, double, boost::no_property> >::type {aka boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>}' changed in GCC 7.1
if (bellman_ford_shortest_paths
~~~~~~~~~~~~~~~~~~~~~~~~~~~
(g2, num_vertices(g2), w, pred, d, combine, compare, bvis)) {
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp: In function 'SEXPREC* BGL_johnson_all_pairs_shortest_paths_D(SEXP, SEXP, SEXP, SEXP)':
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp:169:67: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
choose_param(get_param(params, distance_zero_t()), WT()) );
^
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sna.cpp -o sna.o
In file included from /usr/include/boost/graph/johnson_all_pairs_shortest.hpp:28:0,
from sna.cpp:3:
/usr/include/boost/graph/bellman_ford_shortest_paths.hpp: In function 'bool boost::bellman_ford_shortest_paths(EdgeListGraph&, Size, WeightMap, PredecessorMap, DistanceMap, BinaryFunction, BinaryPredicate, BellmanFordVisitor) [with EdgeListGraph = boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>; Size = unsigned int; WeightMap = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::edge_weight_t>; PredecessorMap = boost::dummy_property_map; DistanceMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>; BinaryFunction = boost::closed_plus<double>; BinaryPredicate = std::less<double>; BellmanFordVisitor = boost::bellman_visitor<>]':
/usr/include/boost/graph/bellman_ford_shortest_paths.hpp:91:8: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::edge_weight_t>' changed in GCC 7.1
bool bellman_ford_shortest_paths(EdgeListGraph& g, Size N,
^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/bellman_ford_shortest_paths.hpp:91:8: note: parameter passing for argument of type 'boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>' changed in GCC 7.1
In file included from sna.cpp:4:0:
/usr/include/boost/graph/edmonds_karp_max_flow.hpp: In function 'typename boost::property_traits<IndexMap>::value_type boost::edmonds_karp_max_flow(Graph&, typename boost::graph_traits<Graph>::vertex_descriptor, typename boost::graph_traits<Graph>::vertex_descriptor, CapacityEdgeMap, ResidualCapacityEdgeMap, ReverseEdgeMap, ColorMap, PredEdgeMap) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > > >; CapacityEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_capacity_t>; ResidualCapacityEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_residual_capacity_t>; ReverseEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, const boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_reverse_t>; ColorMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<boost::default_color_type*, std::vector<boost::default_color_type> >, boost::vec_adj_list_vertex_id_map<boost::no_property, unsigned int>, boost::default_color_type, boost::default_color_type&>; PredEdgeMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>*, std::vector<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::vec_adj_list_vertex_id_map<boost::no_property, unsigned int>, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>&>]':
/usr/include/boost/graph/edmonds_karp_max_flow.hpp:79:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_capacity_t>' changed in GCC 7.1
edmonds_karp_max_flow
^~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/edmonds_karp_max_flow.hpp:79:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_residual_capacity_t>' changed in GCC 7.1
/usr/include/boost/graph/edmonds_karp_max_flow.hpp: In function 'SEXPREC* lambdaSets(SEXP, SEXP, SEXP, SEXP)':
/usr/include/boost/graph/edmonds_karp_max_flow.hpp:167:16: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_capacity_t>' changed in GCC 7.1
pred);
^
/usr/include/boost/graph/edmonds_karp_max_flow.hpp:167:16: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int> > > >, boost::edge_residual_capacity_t>' changed in GCC 7.1
In file included from sna.cpp:3:0:
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp: In function 'bool boost::johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph&, DistanceMatrix&, VertexID, Weight, const BinaryPredicate&, const BinaryFunction&, const Infinity&, DistanceZero) [with VertexAndEdgeListGraph = R_adjacency_list<boost::undirectedS, double>; DistanceMatrix = Basic2DMatrix<double>; VertexID = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, unsigned int>; Weight = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>; BinaryPredicate = std::less<double>; BinaryFunction = boost::closed_plus<double>; Infinity = double; DistanceZero = double]':
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp:40:3: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph& g1,
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp:109:9: note: parameter passing for argument of type 'boost::vec_adj_list_any_vertex_pa::bind_<boost::vertex_distance_t, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::property<boost::vertex_distance_t, double, boost::no_property> >::type {aka boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>}' changed in GCC 7.1
if (bellman_ford_shortest_paths
~~~~~~~~~~~~~~~~~~~~~~~~~~~
(g2, num_vertices(g2), w, pred, d, combine, compare, bvis)) {
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp: In function 'SEXPREC* kCliques(SEXP, SEXP, SEXP, SEXP)':
/usr/include/boost/graph/johnson_all_pairs_shortest.hpp:169:67: note: parameter passing for argument of type 'boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>' changed in GCC 7.1
choose_param(get_param(params, distance_zero_t()), WT()) );
^
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c transitive_closure.cpp -o transitive_closure.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c wavefront.cpp -o wavefront.o
g++ -shared -L/usr/lib/R/lib -Wl,-z,relro -o RBGL.so bbc.o cliques.o clusteringCoef.o dominatorTree.o edmonds_optimum_branching.o hcs.o incrConnComp.o interfaces.o minST.o mincut.o ordering.o planar.o shortestPath.o sna.o transitive_closure.o wavefront.o -L/usr/lib/R/lib -lR
make[1]: Leaving directory '/<<BUILDDIR>>/r-bioc-rbgl-1.56.0+dfsg/src'
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installing to /<<BUILDDIR>>/r-bioc-rbgl-1.56.0+dfsg/debian/r-bioc-rbgl/usr/lib/R/site-library/RBGL/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (RBGL)
Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 290.
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I: Using r-bioc-graph for Depends:graph
W: Cannot find a debian package for Suggests:Rgraphviz
I: Using r-cran-xml for Suggests:XML
I: Using r-cran-runit for Suggests:RUnit
I: Using r-bioc-biocgenerics for Suggests:BiocGenerics
dh_install -a -O--buildsystem=R
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debian/rules override_dh_fixperms
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dh_fixperms
find debian -name "*.dot" -exec chmod -x \{\} \;
find debian -name simpleExample.gxl -exec chmod -x \{\} \;
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dh_missing -a -O--buildsystem=R
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dpkg-deb: building package 'r-bioc-rbgl' in '../r-bioc-rbgl_1.56.0+dfsg-2_armhf.deb'.
dpkg-deb: building package 'r-bioc-rbgl-dbgsym' in '../r-bioc-rbgl-dbgsym_1.56.0+dfsg-2_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../r-bioc-rbgl_1.56.0+dfsg-2_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build r-bioc-rbgl-1.56.0+dfsg
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2018-05-08T23:05:36Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
r-bioc-rbgl_1.56.0+dfsg-2_armhf.changes:
----------------------------------------
Format: 1.8
Date: Sun, 06 May 2018 07:51:39 +0200
Source: r-bioc-rbgl
Binary: r-bioc-rbgl
Architecture: armhf
Version: 1.56.0+dfsg-2
Distribution: buster-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
r-bioc-rbgl - R interface to the graph algorithms contained in the BOOST librar
Changes:
r-bioc-rbgl (1.56.0+dfsg-2) unstable; urgency=medium
.
* Team upload.
* Fix Maintainer and Vcs-fields
* Add comment that libboost-dev is really needed
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Files:
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+------------------------------------------------------------------------------+
| Package contents |
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r-bioc-rbgl-dbgsym_1.56.0+dfsg-2_armhf.deb
------------------------------------------
new Debian package, version 2.0.
size 4870992 bytes: control archive=540 bytes.
393 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: r-bioc-rbgl-dbgsym
Source: r-bioc-rbgl
Version: 1.56.0+dfsg-2
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Installed-Size: 4971
Depends: r-bioc-rbgl (= 1.56.0+dfsg-2)
Section: debug
Priority: optional
Description: debug symbols for r-bioc-rbgl
Build-Ids: 3a1042fe4f19a91862f719c2e70435cd765b9368
drwxr-xr-x root/root 0 2018-05-06 05:51 ./
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r-bioc-rbgl_1.56.0+dfsg-2_armhf.deb
-----------------------------------
new Debian package, version 2.0.
size 688064 bytes: control archive=2728 bytes.
664 bytes, 14 lines control
5872 bytes, 75 lines md5sums
Package: r-bioc-rbgl
Version: 1.56.0+dfsg-2
Architecture: armhf
Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Installed-Size: 1479
Depends: r-base-core (>= 3.4.4-1), r-api-3.4, r-bioc-graph, libc6 (>= 2.4), libgcc1 (>= 1:3.5), libstdc++6 (>= 5.2)
Suggests: r-cran-xml, r-cran-runit, r-bioc-biocgenerics
Section: gnu-r
Priority: optional
Homepage: https://bioconductor.org/packages/RBGL/
Description: R interface to the graph algorithms contained in the BOOST library
RBGL is part of the BioConductor GNU R suite. It is a fairly extensive and
comprehensive interface to the graph algorithms contained in the BOOST C++
libraries.
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Purging /<<BUILDDIR>>
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| Summary |
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Build Architecture: armhf
Build-Space: 13652
Build-Time: 293
Distribution: buster-staging
Host Architecture: armhf
Install-Time: 507
Job: r-bioc-rbgl_1.56.0+dfsg-2
Machine Architecture: armhf
Package: r-bioc-rbgl
Package-Time: 819
Source-Version: 1.56.0+dfsg-2
Space: 13652
Status: successful
Version: 1.56.0+dfsg-2
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Finished at 2018-05-08T23:05:36Z
Build needed 00:13:39, 13652k disk space