murasaki →
1.68.6-9+b4 →
armhf → 2020-05-30 20:18:21
sbuild (Debian sbuild) 0.73.0 (23 Dec 2016) on test2019
+==============================================================================+
| murasaki 1.68.6-9+b4 (armhf) Sat, 30 May 2020 19:51:25 +0000 |
+==============================================================================+
Package: murasaki
Version: 1.68.6-9+b4
Source Version: 1.68.6-9
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
Build Type: any
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/bullseye-staging-armhf-sbuild-49854798-64b9-4210-86e1-11af50761e40' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.7 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.8 MB]
Fetched 24.5 MB in 22s (1100 kB/s)
Reading package lists...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'murasaki' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/murasaki.git
Please use:
git clone https://salsa.debian.org/med-team/murasaki.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 320 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main murasaki 1.68.6-9 (dsc) [2237 B]
Get:2 http://172.17.0.1/private bullseye-staging/main murasaki 1.68.6-9 (tar) [308 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main murasaki 1.68.6-9 (diff) [10.3 kB]
Fetched 320 kB in 0s (1264 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/murasaki-3AaB48/murasaki-1.68.6' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/murasaki-3AaB48' 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-pgo1Dp/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-pgo1Dp/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-pgo1Dp/gpg/trustdb.gpg: trustdb created
gpg: key E70254B6505CF8F7: 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 E70254B6505CF8F7: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key E70254B6505CF8F7: 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-pgo1Dp/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Packages [431 B]
Fetched 2107 B in 1s (3565 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-pgo1Dp/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY E70254B6505CF8F7
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
libpam-cap
Use 'apt autoremove' to remove it.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 22 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-pgo1Dp/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 (29.4 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 14093 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) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), libboost-regex-dev, libboost-iostreams-dev, libboost-filesystem-dev, libterm-readkey-perl, libtext-wrapper-perl, libcrypto++-dev, libpstreams-dev, libopenmpi-dev
Filtered Build-Depends: debhelper-compat (= 12), libboost-regex-dev, libboost-iostreams-dev, libboost-filesystem-dev, libterm-readkey-perl, libtext-wrapper-perl, libcrypto++-dev, libpstreams-dev, libopenmpi-dev
dpkg-deb: building package 'sbuild-build-depends-murasaki-dummy' in '/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive/sbuild-build-depends-murasaki-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-murasaki-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-pgo1Dp/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Sources [566 B]
Get:5 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Packages [645 B]
Fetched 2544 B in 1s (4206 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-pgo1Dp/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY E70254B6505CF8F7
Reading package lists...
Install murasaki build dependencies (apt-based resolver)
--------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
libpam-cap
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cpp-9 debhelper
dh-autoreconf dh-strip-nondeterminism dwz file g++-9 gcc-9 gcc-9-base
gettext gettext-base gfortran-9 groff-base ibverbs-providers icu-devtools
intltool-debian libarchive-zip-perl libasan5 libboost-filesystem-dev
libboost-filesystem1.67-dev libboost-filesystem1.67.0 libboost-iostreams-dev
libboost-iostreams1.67-dev libboost-iostreams1.67.0 libboost-regex-dev
libboost-regex1.67-dev libboost-regex1.67.0 libboost-system1.67-dev
libboost-system1.67.0 libboost1.67-dev libbsd0 libcbor0 libcroco3
libcrypto++-dev libcrypto++6 libdebhelper-perl libedit2 libelf1
libevent-2.1-7 libevent-core-2.1-7 libevent-dev libevent-extra-2.1-7
libevent-openssl-2.1-7 libevent-pthreads-2.1-7 libfido2-1
libfile-stripnondeterminism-perl libgcc-9-dev libgfortran-9-dev libgfortran5
libglib2.0-0 libgssapi-krb5-2 libhwloc-dev libhwloc-plugins libhwloc15
libibverbs-dev libibverbs1 libicu-dev libicu63 libjs-jquery libk5crypto3
libkeyutils1 libkrb5-3 libkrb5support0 libltdl-dev libltdl7 libmagic-mgc
libmagic1 libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev
libnuma-dev libnuma1 libopenmpi-dev libopenmpi3 libpciaccess0 libpipeline1
libpmix2 libpstreams-dev librdmacm1 libsigsegv2 libssl1.1 libstdc++-9-dev
libsub-override-perl libterm-readkey-perl libtext-wrapper-perl libtinfo5
libtool libuchardet0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6
libxml2 libxnvctrl0 m4 man-db node-jquery ocl-icd-libopencl1 openmpi-bin
openmpi-common openssh-client po-debconf sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation gcc-9-locales dh-make gcc-9-doc gettext-doc libasprintf-dev
libgettextpo-dev gfortran-9-doc libcoarrays-dev groff libboost1.67-doc
libboost-atomic1.67-dev libboost-chrono1.67-dev libboost-container1.67-dev
libboost-context1.67-dev libboost-contract1.67-dev
libboost-coroutine1.67-dev libboost-date-time1.67-dev
libboost-exception1.67-dev libboost-fiber1.67-dev libboost-graph1.67-dev
libboost-graph-parallel1.67-dev libboost-locale1.67-dev libboost-log1.67-dev
libboost-math1.67-dev libboost-mpi1.67-dev libboost-mpi-python1.67-dev
libboost-numpy1.67-dev libboost-program-options1.67-dev
libboost-python1.67-dev libboost-random1.67-dev
libboost-serialization1.67-dev libboost-signals1.67-dev
libboost-stacktrace1.67-dev libboost-test1.67-dev libboost-thread1.67-dev
libboost-timer1.67-dev libboost-type-erasure1.67-dev libboost-wave1.67-dev
libboost1.67-tools-dev libmpfrc++-dev libntl-dev krb5-doc krb5-user icu-doc
libtool-doc openmpi-doc pciutils libstdc++-9-doc gcj-jdk m4-doc apparmor
less www-browser opencl-icd gfortran | fortran-compiler keychain libpam-ssh
monkeysphere ssh-askpass libmail-box-perl
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs javascript-common krb5-locales libcoarrays-openmpi-dev xauth
libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
gfortran-9 groff-base ibverbs-providers icu-devtools intltool-debian
libarchive-zip-perl libboost-filesystem-dev libboost-filesystem1.67-dev
libboost-filesystem1.67.0 libboost-iostreams-dev libboost-iostreams1.67-dev
libboost-iostreams1.67.0 libboost-regex-dev libboost-regex1.67-dev
libboost-regex1.67.0 libboost-system1.67-dev libboost-system1.67.0
libboost1.67-dev libbsd0 libcbor0 libcroco3 libcrypto++-dev libcrypto++6
libdebhelper-perl libedit2 libelf1 libevent-2.1-7 libevent-core-2.1-7
libevent-dev libevent-extra-2.1-7 libevent-openssl-2.1-7
libevent-pthreads-2.1-7 libfido2-1 libfile-stripnondeterminism-perl
libgfortran-9-dev libgfortran5 libglib2.0-0 libgssapi-krb5-2 libhwloc-dev
libhwloc-plugins libhwloc15 libibverbs-dev libibverbs1 libicu-dev libicu63
libjs-jquery libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libltdl-dev
libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-3-dev libnl-route-3-200
libnl-route-3-dev libnuma-dev libnuma1 libopenmpi-dev libopenmpi3
libpciaccess0 libpipeline1 libpmix2 libpstreams-dev librdmacm1 libsigsegv2
libssl1.1 libsub-override-perl libterm-readkey-perl libtext-wrapper-perl
libtinfo5 libtool libuchardet0 libx11-6 libx11-data libxau6 libxcb1
libxdmcp6 libxext6 libxml2 libxnvctrl0 m4 man-db node-jquery
ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client po-debconf
sbuild-build-depends-murasaki-dummy sensible-utils zlib1g-dev
The following packages will be upgraded:
cpp-9 g++-9 gcc-9 gcc-9-base libasan5 libgcc-9-dev libstdc++-9-dev
7 upgraded, 106 newly installed, 0 to remove and 15 not upgraded.
Need to get 86.3 MB of archives.
After this operation, 341 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-pgo1Dp/apt_archive ./ sbuild-build-depends-murasaki-dummy 0.invalid.0 [928 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.2-1 [318 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-5 [783 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.2-2 [29.6 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.1-1 [1262 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf g++-9 armhf 9.3.0-13+rpi1 [8225 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf gcc-9 armhf 9.3.0-13+rpi1 [7731 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf cpp-9 armhf 9.3.0-13+rpi1 [7464 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf libasan5 armhf 9.3.0-13+rpi1 [348 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf libstdc++-9-dev armhf 9.3.0-13+rpi1 [1713 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libgcc-9-dev armhf 9.3.0-13+rpi1 [639 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf gcc-9-base armhf 9.3.0-13+rpi1 [197 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-5 [262 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-5 [113 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-5 [67.0 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf libedit2 armhf 3.1-20191231-1 [79.2 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libcbor0 armhf 0.5.0+dfsg-2 [19.5 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1g-1 [1272 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libfido2-1 armhf 1.4.0-1 [43.7 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-7+rpi1 [61.5 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-7+rpi1 [112 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6.1-2 [14.5 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-7+rpi1 [318 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-7+rpi1 [135 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf openssh-client armhf 1:8.2p1-4 [781 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-1 [775 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.1 [187 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.8.1-1 [25.2 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.8.1-1 [14.9 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.64.2-1 [1158 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-3 [7987 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-5 [592 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.1 [1012 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 10.1.0-1+rpi1 [232 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libgfortran-9-dev armhf 9.3.0-13+rpi1 [278 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf gfortran-9 armhf 9.3.0-13+rpi1 [8108 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libnl-3-200 armhf 3.4.0-1 [55.0 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libnl-route-3-200 armhf 3.4.0-1 [132 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libibverbs1 armhf 29.0-1 [47.5 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf ibverbs-providers armhf 29.0-1 [24.2 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf icu-devtools armhf 63.2-3 [163 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libboost1.67-dev armhf 1.67.0-18 [8389 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libboost-system1.67.0 armhf 1.67.0-18 [229 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libboost-filesystem1.67.0 armhf 1.67.0-18 [255 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libboost-system1.67-dev armhf 1.67.0-18 [231 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libboost-filesystem1.67-dev armhf 1.67.0-18 [261 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libboost-filesystem-dev armhf 1.67.0.2+b12 [4280 B]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libboost-regex1.67.0 armhf 1.67.0-18 [452 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf libicu-dev armhf 63.2-3 [8860 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libboost-regex1.67-dev armhf 1.67.0-18 [556 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf libboost-iostreams1.67.0 armhf 1.67.0-18 [246 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf libboost-iostreams1.67-dev armhf 1.67.0-18 [254 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf libboost-iostreams-dev armhf 1.67.0.2+b12 [4236 B]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf libboost-regex-dev armhf 1.67.0.2+b12 [4512 B]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf libcrypto++6 armhf 5.6.4-9 [754 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf libcrypto++-dev armhf 5.6.4-9 [1385 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf libevent-2.1-7 armhf 2.1.11-stable-1 [165 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libevent-core-2.1-7 armhf 2.1.11-stable-1 [124 kB]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf libevent-extra-2.1-7 armhf 2.1.11-stable-1 [98.7 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf libevent-pthreads-2.1-7 armhf 2.1.11-stable-1 [54.7 kB]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf libevent-openssl-2.1-7 armhf 2.1.11-stable-1 [59.7 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf libevent-dev armhf 2.1.11-stable-1 [279 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf libhwloc15 armhf 2.2.0+dfsg-3 [113 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf libnuma1 armhf 2.0.12-1 [22.5 kB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf libnuma-dev armhf 2.0.12-1 [35.6 kB]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf libltdl7 armhf 2.4.6-14 [388 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf libltdl-dev armhf 2.4.6-14 [159 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf libhwloc-dev armhf 2.2.0+dfsg-3 [174 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf libpciaccess0 armhf 0.14-1 [51.0 kB]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf libxau6 armhf 1:1.0.8-1+b2 [19.1 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf libxcb1 armhf 1.14-2 [135 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf libx11-data all 2:1.6.9-2 [298 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf libx11-6 armhf 2:1.6.9-2 [692 kB]
Get:95 http://172.17.0.1/private bullseye-staging/main armhf libxext6 armhf 2:1.3.3-1+b2 [47.8 kB]
Get:96 http://172.17.0.1/private bullseye-staging/main armhf libxnvctrl0 armhf 440.82-1 [25.2 kB]
Get:97 http://172.17.0.1/private bullseye-staging/main armhf ocl-icd-libopencl1 armhf 2.2.12-4 [36.0 kB]
Get:98 http://172.17.0.1/private bullseye-staging/main armhf libhwloc-plugins armhf 2.2.0+dfsg-3 [19.0 kB]
Get:99 http://172.17.0.1/private bullseye-staging/main armhf libnl-3-dev armhf 3.4.0-1 [92.4 kB]
Get:100 http://172.17.0.1/private bullseye-staging/main armhf libnl-route-3-dev armhf 3.4.0-1 [145 kB]
Get:101 http://172.17.0.1/private bullseye-staging/main armhf libibverbs-dev armhf 29.0-1 [199 kB]
Get:102 http://172.17.0.1/private bullseye-staging/main armhf node-jquery all 3.5.1+dfsg-3 [309 kB]
Get:103 http://172.17.0.1/private bullseye-staging/main armhf libjs-jquery all 3.5.1+dfsg-3 [3548 B]
Get:104 http://172.17.0.1/private bullseye-staging/main armhf libpmix2 armhf 3.1.5-1 [377 kB]
Get:105 http://172.17.0.1/private bullseye-staging/main armhf librdmacm1 armhf 29.0-1 [58.2 kB]
Get:106 http://172.17.0.1/private bullseye-staging/main armhf libopenmpi3 armhf 4.0.3-6+rpi1 [1690 kB]
Get:107 http://172.17.0.1/private bullseye-staging/main armhf openmpi-common all 4.0.3-6+rpi1 [170 kB]
Get:108 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:109 http://172.17.0.1/private bullseye-staging/main armhf openmpi-bin armhf 4.0.3-6+rpi1 [185 kB]
Get:110 http://172.17.0.1/private bullseye-staging/main armhf libopenmpi-dev armhf 4.0.3-6+rpi1 [923 kB]
Get:111 http://172.17.0.1/private bullseye-staging/main armhf libpstreams-dev all 1.0.1-2 [129 kB]
Get:112 http://172.17.0.1/private bullseye-staging/main armhf libterm-readkey-perl armhf 2.38-1+b1 [26.5 kB]
Get:113 http://172.17.0.1/private bullseye-staging/main armhf libtext-wrapper-perl all 1.05-2 [11.0 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 86.3 MB in 26s (3335 kB/s)
Selecting previously unselected package libbsd0:armhf.
(Reading database ... 14093 files and directories currently installed.)
Preparing to unpack .../000-libbsd0_0.10.0-1_armhf.deb ...
Unpacking libbsd0:armhf (0.10.0-1) ...
Selecting previously unselected package libtinfo5:armhf.
Preparing to unpack .../001-libtinfo5_6.2-1_armhf.deb ...
Unpacking libtinfo5:armhf (6.2-1) ...
Selecting previously unselected package bsdmainutils.
Preparing to unpack .../002-bsdmainutils_11.1.2_armhf.deb ...
Unpacking bsdmainutils (11.1.2) ...
Selecting previously unselected package libuchardet0:armhf.
Preparing to unpack .../003-libuchardet0_0.0.6-3_armhf.deb ...
Unpacking libuchardet0:armhf (0.0.6-3) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../004-groff-base_1.22.4-5_armhf.deb ...
Unpacking groff-base (1.22.4-5) ...
Selecting previously unselected package libpipeline1:armhf.
Preparing to unpack .../005-libpipeline1_1.5.2-2_armhf.deb ...
Unpacking libpipeline1:armhf (1.5.2-2) ...
Selecting previously unselected package man-db.
Preparing to unpack .../006-man-db_2.9.1-1_armhf.deb ...
Unpacking man-db (2.9.1-1) ...
Preparing to unpack .../007-g++-9_9.3.0-13+rpi1_armhf.deb ...
Unpacking g++-9 (9.3.0-13+rpi1) over (9.3.0-12+rpi1) ...
Preparing to unpack .../008-gcc-9_9.3.0-13+rpi1_armhf.deb ...
Unpacking gcc-9 (9.3.0-13+rpi1) over (9.3.0-12+rpi1) ...
Preparing to unpack .../009-cpp-9_9.3.0-13+rpi1_armhf.deb ...
Unpacking cpp-9 (9.3.0-13+rpi1) over (9.3.0-12+rpi1) ...
Preparing to unpack .../010-libasan5_9.3.0-13+rpi1_armhf.deb ...
Unpacking libasan5:armhf (9.3.0-13+rpi1) over (9.3.0-12+rpi1) ...
Preparing to unpack .../011-libstdc++-9-dev_9.3.0-13+rpi1_armhf.deb ...
Unpacking libstdc++-9-dev:armhf (9.3.0-13+rpi1) over (9.3.0-12+rpi1) ...
Preparing to unpack .../012-libgcc-9-dev_9.3.0-13+rpi1_armhf.deb ...
Unpacking libgcc-9-dev:armhf (9.3.0-13+rpi1) over (9.3.0-12+rpi1) ...
Preparing to unpack .../013-gcc-9-base_9.3.0-13+rpi1_armhf.deb ...
Unpacking gcc-9-base:armhf (9.3.0-13+rpi1) over (9.3.0-12+rpi1) ...
Selecting previously unselected package sensible-utils.
Preparing to unpack .../014-sensible-utils_0.0.12+nmu1_all.deb ...
Unpacking sensible-utils (0.0.12+nmu1) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../015-libmagic-mgc_1%3a5.38-5_armhf.deb ...
Unpacking libmagic-mgc (1:5.38-5) ...
Selecting previously unselected package libmagic1:armhf.
Preparing to unpack .../016-libmagic1_1%3a5.38-5_armhf.deb ...
Unpacking libmagic1:armhf (1:5.38-5) ...
Selecting previously unselected package file.
Preparing to unpack .../017-file_1%3a5.38-5_armhf.deb ...
Unpacking file (1:5.38-5) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../018-gettext-base_0.19.8.1-10_armhf.deb ...
Unpacking gettext-base (0.19.8.1-10) ...
Selecting previously unselected package libedit2:armhf.
Preparing to unpack .../019-libedit2_3.1-20191231-1_armhf.deb ...
Unpacking libedit2:armhf (3.1-20191231-1) ...
Selecting previously unselected package libcbor0:armhf.
Preparing to unpack .../020-libcbor0_0.5.0+dfsg-2_armhf.deb ...
Unpacking libcbor0:armhf (0.5.0+dfsg-2) ...
Selecting previously unselected package libssl1.1:armhf.
Preparing to unpack .../021-libssl1.1_1.1.1g-1_armhf.deb ...
Unpacking libssl1.1:armhf (1.1.1g-1) ...
Selecting previously unselected package libfido2-1:armhf.
Preparing to unpack .../022-libfido2-1_1.4.0-1_armhf.deb ...
Unpacking libfido2-1:armhf (1.4.0-1) ...
Selecting previously unselected package libkrb5support0:armhf.
Preparing to unpack .../023-libkrb5support0_1.17-7+rpi1_armhf.deb ...
Unpacking libkrb5support0:armhf (1.17-7+rpi1) ...
Selecting previously unselected package libk5crypto3:armhf.
Preparing to unpack .../024-libk5crypto3_1.17-7+rpi1_armhf.deb ...
Unpacking libk5crypto3:armhf (1.17-7+rpi1) ...
Selecting previously unselected package libkeyutils1:armhf.
Preparing to unpack .../025-libkeyutils1_1.6.1-2_armhf.deb ...
Unpacking libkeyutils1:armhf (1.6.1-2) ...
Selecting previously unselected package libkrb5-3:armhf.
Preparing to unpack .../026-libkrb5-3_1.17-7+rpi1_armhf.deb ...
Unpacking libkrb5-3:armhf (1.17-7+rpi1) ...
Selecting previously unselected package libgssapi-krb5-2:armhf.
Preparing to unpack .../027-libgssapi-krb5-2_1.17-7+rpi1_armhf.deb ...
Unpacking libgssapi-krb5-2:armhf (1.17-7+rpi1) ...
Selecting previously unselected package openssh-client.
Preparing to unpack .../028-openssh-client_1%3a8.2p1-4_armhf.deb ...
Unpacking openssh-client (1:8.2p1-4) ...
Selecting previously unselected package libsigsegv2:armhf.
Preparing to unpack .../029-libsigsegv2_2.12-2_armhf.deb ...
Unpacking libsigsegv2:armhf (2.12-2) ...
Selecting previously unselected package m4.
Preparing to unpack .../030-m4_1.4.18-4_armhf.deb ...
Unpacking m4 (1.4.18-4) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../031-autoconf_2.69-11.1_all.deb ...
Unpacking autoconf (2.69-11.1) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../032-autotools-dev_20180224.1_all.deb ...
Unpacking autotools-dev (20180224.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../033-automake_1%3a1.16.2-1_all.deb ...
Unpacking automake (1:1.16.2-1) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../034-autopoint_0.19.8.1-10_all.deb ...
Unpacking autopoint (0.19.8.1-10) ...
Selecting previously unselected package libtool.
Preparing to unpack .../035-libtool_2.4.6-14_all.deb ...
Unpacking libtool (2.4.6-14) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../036-dh-autoreconf_19_all.deb ...
Unpacking dh-autoreconf (19) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../037-libdebhelper-perl_13.1_all.deb ...
Unpacking libdebhelper-perl (13.1) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../038-libarchive-zip-perl_1.68-1_all.deb ...
Unpacking libarchive-zip-perl (1.68-1) ...
Selecting previously unselected package libsub-override-perl.
Preparing to unpack .../039-libsub-override-perl_0.09-2_all.deb ...
Unpacking libsub-override-perl (0.09-2) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../040-libfile-stripnondeterminism-perl_1.8.1-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.8.1-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../041-dh-strip-nondeterminism_1.8.1-1_all.deb ...
Unpacking dh-strip-nondeterminism (1.8.1-1) ...
Selecting previously unselected package libelf1:armhf.
Preparing to unpack .../042-libelf1_0.176-1.1_armhf.deb ...
Unpacking libelf1:armhf (0.176-1.1) ...
Selecting previously unselected package dwz.
Preparing to unpack .../043-dwz_0.13-5_armhf.deb ...
Unpacking dwz (0.13-5) ...
Selecting previously unselected package libglib2.0-0:armhf.
Preparing to unpack .../044-libglib2.0-0_2.64.2-1_armhf.deb ...
Unpacking libglib2.0-0:armhf (2.64.2-1) ...
Selecting previously unselected package libicu63:armhf.
Preparing to unpack .../045-libicu63_63.2-3_armhf.deb ...
Unpacking libicu63:armhf (63.2-3) ...
Selecting previously unselected package libxml2:armhf.
Preparing to unpack .../046-libxml2_2.9.10+dfsg-5_armhf.deb ...
Unpacking libxml2:armhf (2.9.10+dfsg-5) ...
Selecting previously unselected package libcroco3:armhf.
Preparing to unpack .../047-libcroco3_0.6.13-1_armhf.deb ...
Unpacking libcroco3:armhf (0.6.13-1) ...
Selecting previously unselected package gettext.
Preparing to unpack .../048-gettext_0.19.8.1-10_armhf.deb ...
Unpacking gettext (0.19.8.1-10) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../049-intltool-debian_0.35.0+20060710.5_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.5) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../050-po-debconf_1.0.21_all.deb ...
Unpacking po-debconf (1.0.21) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../051-debhelper_13.1_all.deb ...
Unpacking debhelper (13.1) ...
Selecting previously unselected package libgfortran5:armhf.
Preparing to unpack .../052-libgfortran5_10.1.0-1+rpi1_armhf.deb ...
Unpacking libgfortran5:armhf (10.1.0-1+rpi1) ...
Selecting previously unselected package libgfortran-9-dev:armhf.
Preparing to unpack .../053-libgfortran-9-dev_9.3.0-13+rpi1_armhf.deb ...
Unpacking libgfortran-9-dev:armhf (9.3.0-13+rpi1) ...
Selecting previously unselected package gfortran-9.
Preparing to unpack .../054-gfortran-9_9.3.0-13+rpi1_armhf.deb ...
Unpacking gfortran-9 (9.3.0-13+rpi1) ...
Selecting previously unselected package libnl-3-200:armhf.
Preparing to unpack .../055-libnl-3-200_3.4.0-1_armhf.deb ...
Unpacking libnl-3-200:armhf (3.4.0-1) ...
Selecting previously unselected package libnl-route-3-200:armhf.
Preparing to unpack .../056-libnl-route-3-200_3.4.0-1_armhf.deb ...
Unpacking libnl-route-3-200:armhf (3.4.0-1) ...
Selecting previously unselected package libibverbs1:armhf.
Preparing to unpack .../057-libibverbs1_29.0-1_armhf.deb ...
Unpacking libibverbs1:armhf (29.0-1) ...
Selecting previously unselected package ibverbs-providers:armhf.
Preparing to unpack .../058-ibverbs-providers_29.0-1_armhf.deb ...
Unpacking ibverbs-providers:armhf (29.0-1) ...
Selecting previously unselected package icu-devtools.
Preparing to unpack .../059-icu-devtools_63.2-3_armhf.deb ...
Unpacking icu-devtools (63.2-3) ...
Selecting previously unselected package libboost1.67-dev:armhf.
Preparing to unpack .../060-libboost1.67-dev_1.67.0-18_armhf.deb ...
Unpacking libboost1.67-dev:armhf (1.67.0-18) ...
Selecting previously unselected package libboost-system1.67.0:armhf.
Preparing to unpack .../061-libboost-system1.67.0_1.67.0-18_armhf.deb ...
Unpacking libboost-system1.67.0:armhf (1.67.0-18) ...
Selecting previously unselected package libboost-filesystem1.67.0:armhf.
Preparing to unpack .../062-libboost-filesystem1.67.0_1.67.0-18_armhf.deb ...
Unpacking libboost-filesystem1.67.0:armhf (1.67.0-18) ...
Selecting previously unselected package libboost-system1.67-dev:armhf.
Preparing to unpack .../063-libboost-system1.67-dev_1.67.0-18_armhf.deb ...
Unpacking libboost-system1.67-dev:armhf (1.67.0-18) ...
Selecting previously unselected package libboost-filesystem1.67-dev:armhf.
Preparing to unpack .../064-libboost-filesystem1.67-dev_1.67.0-18_armhf.deb ...
Unpacking libboost-filesystem1.67-dev:armhf (1.67.0-18) ...
Selecting previously unselected package libboost-filesystem-dev:armhf.
Preparing to unpack .../065-libboost-filesystem-dev_1.67.0.2+b12_armhf.deb ...
Unpacking libboost-filesystem-dev:armhf (1.67.0.2+b12) ...
Selecting previously unselected package libboost-regex1.67.0:armhf.
Preparing to unpack .../066-libboost-regex1.67.0_1.67.0-18_armhf.deb ...
Unpacking libboost-regex1.67.0:armhf (1.67.0-18) ...
Selecting previously unselected package libicu-dev:armhf.
Preparing to unpack .../067-libicu-dev_63.2-3_armhf.deb ...
Unpacking libicu-dev:armhf (63.2-3) ...
Selecting previously unselected package libboost-regex1.67-dev:armhf.
Preparing to unpack .../068-libboost-regex1.67-dev_1.67.0-18_armhf.deb ...
Unpacking libboost-regex1.67-dev:armhf (1.67.0-18) ...
Selecting previously unselected package libboost-iostreams1.67.0:armhf.
Preparing to unpack .../069-libboost-iostreams1.67.0_1.67.0-18_armhf.deb ...
Unpacking libboost-iostreams1.67.0:armhf (1.67.0-18) ...
Selecting previously unselected package libboost-iostreams1.67-dev:armhf.
Preparing to unpack .../070-libboost-iostreams1.67-dev_1.67.0-18_armhf.deb ...
Unpacking libboost-iostreams1.67-dev:armhf (1.67.0-18) ...
Selecting previously unselected package libboost-iostreams-dev:armhf.
Preparing to unpack .../071-libboost-iostreams-dev_1.67.0.2+b12_armhf.deb ...
Unpacking libboost-iostreams-dev:armhf (1.67.0.2+b12) ...
Selecting previously unselected package libboost-regex-dev:armhf.
Preparing to unpack .../072-libboost-regex-dev_1.67.0.2+b12_armhf.deb ...
Unpacking libboost-regex-dev:armhf (1.67.0.2+b12) ...
Selecting previously unselected package libcrypto++6.
Preparing to unpack .../073-libcrypto++6_5.6.4-9_armhf.deb ...
Unpacking libcrypto++6 (5.6.4-9) ...
Selecting previously unselected package libcrypto++-dev.
Preparing to unpack .../074-libcrypto++-dev_5.6.4-9_armhf.deb ...
Unpacking libcrypto++-dev (5.6.4-9) ...
Selecting previously unselected package libevent-2.1-7:armhf.
Preparing to unpack .../075-libevent-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libevent-core-2.1-7:armhf.
Preparing to unpack .../076-libevent-core-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-core-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libevent-extra-2.1-7:armhf.
Preparing to unpack .../077-libevent-extra-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-extra-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libevent-pthreads-2.1-7:armhf.
Preparing to unpack .../078-libevent-pthreads-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-pthreads-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libevent-openssl-2.1-7:armhf.
Preparing to unpack .../079-libevent-openssl-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-openssl-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libevent-dev.
Preparing to unpack .../080-libevent-dev_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-dev (2.1.11-stable-1) ...
Selecting previously unselected package libhwloc15:armhf.
Preparing to unpack .../081-libhwloc15_2.2.0+dfsg-3_armhf.deb ...
Unpacking libhwloc15:armhf (2.2.0+dfsg-3) ...
Selecting previously unselected package libnuma1:armhf.
Preparing to unpack .../082-libnuma1_2.0.12-1_armhf.deb ...
Unpacking libnuma1:armhf (2.0.12-1) ...
Selecting previously unselected package libnuma-dev:armhf.
Preparing to unpack .../083-libnuma-dev_2.0.12-1_armhf.deb ...
Unpacking libnuma-dev:armhf (2.0.12-1) ...
Selecting previously unselected package libltdl7:armhf.
Preparing to unpack .../084-libltdl7_2.4.6-14_armhf.deb ...
Unpacking libltdl7:armhf (2.4.6-14) ...
Selecting previously unselected package libltdl-dev:armhf.
Preparing to unpack .../085-libltdl-dev_2.4.6-14_armhf.deb ...
Unpacking libltdl-dev:armhf (2.4.6-14) ...
Selecting previously unselected package libhwloc-dev:armhf.
Preparing to unpack .../086-libhwloc-dev_2.2.0+dfsg-3_armhf.deb ...
Unpacking libhwloc-dev:armhf (2.2.0+dfsg-3) ...
Selecting previously unselected package libpciaccess0:armhf.
Preparing to unpack .../087-libpciaccess0_0.14-1_armhf.deb ...
Unpacking libpciaccess0:armhf (0.14-1) ...
Selecting previously unselected package libxau6:armhf.
Preparing to unpack .../088-libxau6_1%3a1.0.8-1+b2_armhf.deb ...
Unpacking libxau6:armhf (1:1.0.8-1+b2) ...
Selecting previously unselected package libxdmcp6:armhf.
Preparing to unpack .../089-libxdmcp6_1%3a1.1.2-3_armhf.deb ...
Unpacking libxdmcp6:armhf (1:1.1.2-3) ...
Selecting previously unselected package libxcb1:armhf.
Preparing to unpack .../090-libxcb1_1.14-2_armhf.deb ...
Unpacking libxcb1:armhf (1.14-2) ...
Selecting previously unselected package libx11-data.
Preparing to unpack .../091-libx11-data_2%3a1.6.9-2_all.deb ...
Unpacking libx11-data (2:1.6.9-2) ...
Selecting previously unselected package libx11-6:armhf.
Preparing to unpack .../092-libx11-6_2%3a1.6.9-2_armhf.deb ...
Unpacking libx11-6:armhf (2:1.6.9-2) ...
Selecting previously unselected package libxext6:armhf.
Preparing to unpack .../093-libxext6_2%3a1.3.3-1+b2_armhf.deb ...
Unpacking libxext6:armhf (2:1.3.3-1+b2) ...
Selecting previously unselected package libxnvctrl0:armhf.
Preparing to unpack .../094-libxnvctrl0_440.82-1_armhf.deb ...
Unpacking libxnvctrl0:armhf (440.82-1) ...
Selecting previously unselected package ocl-icd-libopencl1:armhf.
Preparing to unpack .../095-ocl-icd-libopencl1_2.2.12-4_armhf.deb ...
Unpacking ocl-icd-libopencl1:armhf (2.2.12-4) ...
Selecting previously unselected package libhwloc-plugins:armhf.
Preparing to unpack .../096-libhwloc-plugins_2.2.0+dfsg-3_armhf.deb ...
Unpacking libhwloc-plugins:armhf (2.2.0+dfsg-3) ...
Selecting previously unselected package libnl-3-dev:armhf.
Preparing to unpack .../097-libnl-3-dev_3.4.0-1_armhf.deb ...
Unpacking libnl-3-dev:armhf (3.4.0-1) ...
Selecting previously unselected package libnl-route-3-dev:armhf.
Preparing to unpack .../098-libnl-route-3-dev_3.4.0-1_armhf.deb ...
Unpacking libnl-route-3-dev:armhf (3.4.0-1) ...
Selecting previously unselected package libibverbs-dev:armhf.
Preparing to unpack .../099-libibverbs-dev_29.0-1_armhf.deb ...
Unpacking libibverbs-dev:armhf (29.0-1) ...
Selecting previously unselected package node-jquery.
Preparing to unpack .../100-node-jquery_3.5.1+dfsg-3_all.deb ...
Unpacking node-jquery (3.5.1+dfsg-3) ...
Selecting previously unselected package libjs-jquery.
Preparing to unpack .../101-libjs-jquery_3.5.1+dfsg-3_all.deb ...
Unpacking libjs-jquery (3.5.1+dfsg-3) ...
Selecting previously unselected package libpmix2:armhf.
Preparing to unpack .../102-libpmix2_3.1.5-1_armhf.deb ...
Unpacking libpmix2:armhf (3.1.5-1) ...
Selecting previously unselected package librdmacm1:armhf.
Preparing to unpack .../103-librdmacm1_29.0-1_armhf.deb ...
Unpacking librdmacm1:armhf (29.0-1) ...
Selecting previously unselected package libopenmpi3:armhf.
Preparing to unpack .../104-libopenmpi3_4.0.3-6+rpi1_armhf.deb ...
Unpacking libopenmpi3:armhf (4.0.3-6+rpi1) ...
Selecting previously unselected package openmpi-common.
Preparing to unpack .../105-openmpi-common_4.0.3-6+rpi1_all.deb ...
Unpacking openmpi-common (4.0.3-6+rpi1) ...
Selecting previously unselected package zlib1g-dev:armhf.
Preparing to unpack .../106-zlib1g-dev_1%3a1.2.11.dfsg-2_armhf.deb ...
Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Selecting previously unselected package openmpi-bin.
Preparing to unpack .../107-openmpi-bin_4.0.3-6+rpi1_armhf.deb ...
Unpacking openmpi-bin (4.0.3-6+rpi1) ...
Selecting previously unselected package libopenmpi-dev:armhf.
Preparing to unpack .../108-libopenmpi-dev_4.0.3-6+rpi1_armhf.deb ...
Unpacking libopenmpi-dev:armhf (4.0.3-6+rpi1) ...
Selecting previously unselected package libpstreams-dev.
Preparing to unpack .../109-libpstreams-dev_1.0.1-2_all.deb ...
Unpacking libpstreams-dev (1.0.1-2) ...
Selecting previously unselected package libterm-readkey-perl.
Preparing to unpack .../110-libterm-readkey-perl_2.38-1+b1_armhf.deb ...
Unpacking libterm-readkey-perl (2.38-1+b1) ...
Selecting previously unselected package libtext-wrapper-perl.
Preparing to unpack .../111-libtext-wrapper-perl_1.05-2_all.deb ...
Unpacking libtext-wrapper-perl (1.05-2) ...
Selecting previously unselected package sbuild-build-depends-murasaki-dummy.
Preparing to unpack .../112-sbuild-build-depends-murasaki-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-murasaki-dummy (0.invalid.0) ...
Setting up libpipeline1:armhf (1.5.2-2) ...
Setting up libpciaccess0:armhf (0.14-1) ...
Setting up libxau6:armhf (1:1.0.8-1+b2) ...
Setting up libkeyutils1:armhf (1.6.1-2) ...
Setting up libmagic-mgc (1:5.38-5) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libglib2.0-0:armhf (2.64.2-1) ...
No schema files found: doing nothing.
Setting up libssl1.1:armhf (1.1.1g-1) ...
Setting up libdebhelper-perl (13.1) ...
Setting up libcbor0:armhf (0.5.0+dfsg-2) ...
Setting up libmagic1:armhf (1:5.38-5) ...
Setting up gettext-base (0.19.8.1-10) ...
Setting up file (1:5.38-5) ...
Setting up libtext-wrapper-perl (1.05-2) ...
Setting up libicu63:armhf (63.2-3) ...
Setting up libkrb5support0:armhf (1.17-7+rpi1) ...
Setting up autotools-dev (20180224.1) ...
Setting up libx11-data (2:1.6.9-2) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up libhwloc15:armhf (2.2.0+dfsg-3) ...
Setting up libevent-core-2.1-7:armhf (2.1.11-stable-1) ...
Setting up libevent-2.1-7:armhf (2.1.11-stable-1) ...
Setting up autopoint (0.19.8.1-10) ...
Setting up icu-devtools (63.2-3) ...
Setting up libboost-iostreams1.67.0:armhf (1.67.0-18) ...
Setting up libk5crypto3:armhf (1.17-7+rpi1) ...
Setting up libltdl7:armhf (2.4.6-14) ...
Setting up libgfortran5:armhf (10.1.0-1+rpi1) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Setting up libnuma1:armhf (2.0.12-1) ...
Setting up sensible-utils (0.0.12+nmu1) ...
Setting up ocl-icd-libopencl1:armhf (2.2.12-4) ...
Setting up libuchardet0:armhf (0.0.6-3) ...
Setting up libnl-3-200:armhf (3.4.0-1) ...
Setting up openmpi-common (4.0.3-6+rpi1) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libkrb5-3:armhf (1.17-7+rpi1) ...
Setting up libboost-system1.67.0:armhf (1.67.0-18) ...
Setting up libterm-readkey-perl (2.38-1+b1) ...
Setting up libfido2-1:armhf (1.4.0-1) ...
Setting up libbsd0:armhf (0.10.0-1) ...
Setting up libtinfo5:armhf (6.2-1) ...
Setting up libelf1:armhf (0.176-1.1) ...
Setting up libicu-dev:armhf (63.2-3) ...
Setting up libxml2:armhf (2.9.10+dfsg-5) ...
Setting up node-jquery (3.5.1+dfsg-3) ...
Setting up gcc-9-base:armhf (9.3.0-13+rpi1) ...
Setting up libevent-pthreads-2.1-7:armhf (2.1.11-stable-1) ...
Setting up libcrypto++6 (5.6.4-9) ...
Setting up libfile-stripnondeterminism-perl (1.8.1-1) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up libevent-extra-2.1-7:armhf (2.1.11-stable-1) ...
Setting up libxcb1:armhf (1.14-2) ...
Setting up libboost-regex1.67.0:armhf (1.67.0-18) ...
Setting up libtool (2.4.6-14) ...
Setting up libedit2:armhf (3.1-20191231-1) ...
Setting up libcrypto++-dev (5.6.4-9) ...
Setting up libevent-openssl-2.1-7:armhf (2.1.11-stable-1) ...
Setting up m4 (1.4.18-4) ...
Setting up libnuma-dev:armhf (2.0.12-1) ...
Setting up libnl-route-3-200:armhf (3.4.0-1) ...
Setting up libasan5:armhf (9.3.0-13+rpi1) ...
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 libevent-dev (2.1.11-stable-1) ...
Setting up libgssapi-krb5-2:armhf (1.17-7+rpi1) ...
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up autoconf (2.69-11.1) ...
Setting up dh-strip-nondeterminism (1.8.1-1) ...
Setting up dwz (0.13-5) ...
Setting up libnl-3-dev:armhf (3.4.0-1) ...
Setting up groff-base (1.22.4-5) ...
Setting up cpp-9 (9.3.0-13+rpi1) ...
Setting up libx11-6:armhf (2:1.6.9-2) ...
Setting up libboost-filesystem1.67.0:armhf (1.67.0-18) ...
Setting up libjs-jquery (3.5.1+dfsg-3) ...
Setting up automake (1:1.16.2-1) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libibverbs1:armhf (29.0-1) ...
Setting up gettext (0.19.8.1-10) ...
Setting up ibverbs-providers:armhf (29.0-1) ...
Setting up openssh-client (1:8.2p1-4) ...
Setting up libxext6:armhf (2:1.3.3-1+b2) ...
Setting up man-db (2.9.1-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libxnvctrl0:armhf (440.82-1) ...
Setting up libgcc-9-dev:armhf (9.3.0-13+rpi1) ...
Setting up libnl-route-3-dev:armhf (3.4.0-1) ...
Setting up libltdl-dev:armhf (2.4.6-14) ...
Setting up libpstreams-dev (1.0.1-2) ...
Setting up libhwloc-dev:armhf (2.2.0+dfsg-3) ...
Setting up librdmacm1:armhf (29.0-1) ...
Setting up gcc-9 (9.3.0-13+rpi1) ...
Setting up libstdc++-9-dev:armhf (9.3.0-13+rpi1) ...
Setting up po-debconf (1.0.21) ...
Setting up libgfortran-9-dev:armhf (9.3.0-13+rpi1) ...
Setting up libibverbs-dev:armhf (29.0-1) ...
Setting up libhwloc-plugins:armhf (2.2.0+dfsg-3) ...
Setting up g++-9 (9.3.0-13+rpi1) ...
Setting up libboost1.67-dev:armhf (1.67.0-18) ...
Setting up gfortran-9 (9.3.0-13+rpi1) ...
Setting up libpmix2:armhf (3.1.5-1) ...
Setting up libboost-regex1.67-dev:armhf (1.67.0-18) ...
Setting up libopenmpi3:armhf (4.0.3-6+rpi1) ...
Setting up libboost-system1.67-dev:armhf (1.67.0-18) ...
Setting up libboost-regex-dev:armhf (1.67.0.2+b12) ...
Setting up libboost-iostreams1.67-dev:armhf (1.67.0-18) ...
Setting up openmpi-bin (4.0.3-6+rpi1) ...
update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode
update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode
Setting up libboost-filesystem1.67-dev:armhf (1.67.0-18) ...
Setting up libboost-iostreams-dev:armhf (1.67.0.2+b12) ...
Setting up libopenmpi-dev:armhf (4.0.3-6+rpi1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/openmpi/include to provide /usr/include/arm-linux-gnueabihf/mpi (mpi-arm-linux-gnueabihf) in auto mode
Setting up libboost-filesystem-dev:armhf (1.67.0.2+b12) ...
Setting up debhelper (13.1) ...
Setting up dh-autoreconf (19) ...
Setting up sbuild-build-depends-murasaki-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.30-8+rpi1) ...
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.19.20-v7+ armhf (armv7l)
Toolchain package versions: binutils_2.34-8+rpi1 dpkg-dev_1.19.7 g++-9_9.3.0-13+rpi1 gcc-9_9.3.0-13+rpi1 libc6-dev_2.30-8+rpi1 libstdc++-9-dev_9.3.0-13+rpi1 libstdc++6_10.1.0-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_2.1.4 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-8+rpi1 binutils-arm-linux-gnueabihf_2.34-8+rpi1 binutils-common_2.34-8+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.35.1-5 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3 cpp_4:9.2.1-3.1+rpi1 cpp-9_9.3.0-13+rpi1 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13.1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.8.1-1 diffutils_1:3.7-3 dirmngr_2.2.20-1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.1-5 file_1:5.38-5 findutils_4.7.0-1 g++_4:9.2.1-3.1+rpi1 g++-9_9.3.0-13+rpi1 gcc_4:9.2.1-3.1+rpi1 gcc-10-base_10.1.0-1+rpi1 gcc-9_9.3.0-13+rpi1 gcc-9-base_9.3.0-13+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gfortran-9_9.3.0-13+rpi1 gnupg_2.2.20-1 gnupg-l10n_2.2.20-1 gnupg-utils_2.2.20-1 gpg_2.2.20-1 gpg-agent_2.2.20-1 gpg-wks-client_2.2.20-1 gpg-wks-server_2.2.20-1 gpgconf_2.2.20-1 gpgsm_2.2.20-1 gpgv_2.2.20-1 grep_3.4-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 ibverbs-providers_29.0-1 icu-devtools_63.2-3 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20190709-3 libacl1_2.2.53-8 libapt-pkg6.0_2.1.4 libarchive-zip-perl_1.68-1 libasan5_9.3.0-13+rpi1 libassuan0_2.5.3-7 libatomic1_10.1.0-1+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3 libbinutils_2.34-8+rpi1 libblkid1_2.35.1-5 libboost-filesystem-dev_1.67.0.2+b12 libboost-filesystem1.67-dev_1.67.0-18 libboost-filesystem1.67.0_1.67.0-18 libboost-iostreams-dev_1.67.0.2+b12 libboost-iostreams1.67-dev_1.67.0-18 libboost-iostreams1.67.0_1.67.0-18 libboost-regex-dev_1.67.0.2+b12 libboost-regex1.67-dev_1.67.0-18 libboost-regex1.67.0_1.67.0-18 libboost-system1.67-dev_1.67.0-18 libboost-system1.67.0_1.67.0-18 libboost1.67-dev_1.67.0-18 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.30-8+rpi1 libc-dev-bin_2.30-8+rpi1 libc6_2.30-8+rpi1 libc6-dev_2.30-8+rpi1 libcap-ng0_0.7.9-2.1+b1 libcap2_1:2.34-2 libcap2-bin_1:2.34-2 libcbor0_0.5.0+dfsg-2 libcc1-0_10.1.0-1+rpi1 libcom-err2_1.45.6-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.16-1 libcrypt1_1:4.4.16-1 libcrypto++-dev_5.6.4-9 libcrypto++6_5.6.4-9 libctf-nobfd0_2.34-8+rpi1 libctf0_2.34-8+rpi1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.252 libdebhelper-perl_13.1 libdpkg-perl_1.19.7 libedit2_3.1-20191231-1 libelf1_0.176-1.1 libevent-2.1-7_2.1.11-stable-1 libevent-core-2.1-7_2.1.11-stable-1 libevent-dev_2.1.11-stable-1 libevent-extra-2.1-7_2.1.11-stable-1 libevent-openssl-2.1-7_2.1.11-stable-1 libevent-pthreads-2.1-7_2.1.11-stable-1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libfdisk1_2.35.1-5 libffi7_3.3-4 libfido2-1_1.4.0-1 libfile-stripnondeterminism-perl_1.8.1-1 libgcc-9-dev_9.3.0-13+rpi1 libgcc-s1_10.1.0-1+rpi1 libgcc1_1:10.1.0-1+rpi1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran-9-dev_9.3.0-13+rpi1 libgfortran5_10.1.0-1+rpi1 libglib2.0-0_2.64.2-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2 libgomp1_10.1.0-1+rpi1 libgpg-error0_1.37-1 libgssapi-krb5-2_1.17-7+rpi1 libhogweed5_3.5.1+really3.5.1-2 libhwloc-dev_2.2.0+dfsg-3 libhwloc-plugins_2.2.0+dfsg-3 libhwloc15_2.2.0+dfsg-3 libibverbs-dev_29.0-1 libibverbs1_29.0-1 libicu-dev_63.2-3 libicu63_63.2-3 libidn2-0_2.3.0-1 libisl22_0.22.1-1 libjs-jquery_3.5.1+dfsg-3 libk5crypto3_1.17-7+rpi1 libkeyutils1_1.6.1-2 libkrb5-3_1.17-7+rpi1 libkrb5support0_1.17-7+rpi1 libksba8_1.3.5-2 libldap-2.4-2_2.4.50+dfsg-1 libldap-common_2.4.50+dfsg-1 libltdl-dev_2.4.6-14 libltdl7_2.4.6-14 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.35.1-5 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncursesw6_6.2-1 libnettle7_3.5.1+really3.5.1-2 libnl-3-200_3.4.0-1 libnl-3-dev_3.4.0-1 libnl-route-3-200_3.4.0-1 libnl-route-3-dev_3.4.0-1 libnpth0_1.6-1 libnuma-dev_2.0.12-1 libnuma1_2.0.12-1 libopenmpi-dev_4.0.3-6+rpi1 libopenmpi3_4.0.3-6+rpi1 libp11-kit0_0.23.20-1 libpam-cap_1:2.34-2 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpciaccess0_0.14-1 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.28_5.28.1-6 libperl5.30_5.30.0-10 libpipeline1_1.5.2-2 libpmix2_3.1.5-1 libpstreams-dev_1.0.1-2 librdmacm1_29.0-1 libreadline7_7.0-5 libreadline8_8.0-4 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.3-1+rpi1 libselinux1_3.0-1+b1 libsemanage-common_3.0-1 libsemanage1_3.0-1+b1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.35.1-5 libsqlite3-0_3.31.1-5 libss2_1.45.6-1 libssl1.1_1.1.1g-1 libstdc++-9-dev_9.3.0-13+rpi1 libstdc++6_10.1.0-1+rpi1 libsub-override-perl_0.09-2 libsystemd0_245.5-3+rpi1 libtasn1-6_4.16.0-2 libterm-readkey-perl_2.38-1+b1 libtext-wrapper-perl_1.05-2 libtinfo5_6.2-1 libtinfo6_6.2-1 libtool_2.4.6-14 libubsan1_10.1.0-1+rpi1 libuchardet0_0.0.6-3 libudev1_245.5-3+rpi1 libunistring2_0.9.10-2 libuuid1_2.35.1-5 libx11-6_2:1.6.9-2 libx11-data_2:1.6.9-2 libxau6_1:1.0.8-1+b2 libxcb1_1.14-2 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1+b2 libxml2_2.9.10+dfsg-5 libxnvctrl0_440.82-1 libzstd1_1.4.4+dfsg-3+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-2 man-db_2.9.1-1 mawk_1.3.4.20200120-2 mount_2.35.1-5 ncurses-base_6.2-1 ncurses-bin_6.2-1 node-jquery_3.5.1+dfsg-3 ocl-icd-libopencl1_2.2.12-4 openmpi-bin_4.0.3-6+rpi1 openmpi-common_4.0.3-6+rpi1 openssh-client_1:8.2p1-4 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.0-10 perl-base_5.30.0-10 perl-modules-5.28_5.28.1-6 perl-modules-5.30_5.30.0-10 pinentry-curses_1.1.0-4 po-debconf_1.0.21 raspbian-archive-keyring_20120528.2 readline-common_8.0-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-murasaki-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-3 tar_1.30+dfsg-7 tzdata_2020a-1 util-linux_2.35.1-5 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Thu Feb 20 18:05:10 2020 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tillea@rki.de"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./murasaki_1.68.6-9.dsc
dpkg-source: info: extracting murasaki in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking murasaki_1.68.6.orig.tar.gz
dpkg-source: info: unpacking murasaki_1.68.6-9.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying use_proper_libboost_names.patch
dpkg-source: info: applying include_libpstream.patch
dpkg-source: info: applying hardening.patch
dpkg-source: info: applying spelling.patch
dpkg-source: info: applying man_syntax.patch
dpkg-source: info: applying freebsd.patch
dpkg-source: info: applying gcc-6.patch
dpkg-source: info: applying fix_mpi.patch
Check disk space
----------------
Sufficient free space for build
Hack binNMU version
-------------------
Created changelog entry for binNMU version 1.68.6-9+b4
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DBUS_SESSION_BUS_ADDRESS=unix:path=/run/user/112/bus
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
INVOCATION_ID=d540cc9aba1e46398de3fa2f71b5e534
JOURNAL_STREAM=8:18935
LANG=en_GB.UTF-8
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=116
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-49854798-64b9-4210-86e1-11af50761e40
SCHROOT_UID=112
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
XDG_RUNTIME_DIR=/run/user/112
XDG_SESSION_ID=c20927
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package murasaki
dpkg-buildpackage: info: source version 1.68.6-9+b4
dpkg-buildpackage: info: source distribution bullseye-staging
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
rm -rf *.o *~ .*~ core
make -C src clean
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
rm -rf *.o *~ .*~ core ../murasaki ../cgr-image ../cgr-compare ../cgr-random ../cgr-sample ../testeco ../align-compare ../align-or ../geneparse ../align-and ../align-best ../align-coverage ../getsegments ../mbfa
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_clean
debian/rules binary-arch
dh binary-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_build -- USE_MPI=YES
make -j4 "INSTALL=install --strip-program=true" USE_MPI=YES
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make -C src all
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c murasaki.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c timing.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c dinkymath.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c sequence.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c msethash.cc
dinkymath.cc: In function 'std::string littleEndianStr(unsigned int, int)':
dinkymath.cc:40:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
40 | int last=0;
| ^~~~
dinkymath.cc: In function 'std::string littleEndianPat(unsigned int, int)':
dinkymath.cc:53:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
53 | int last=0;
| ^~~~
sequence.cc: In destructor 'Sequence::~Sequence()':
sequence.cc:377:123: warning: throw will always call terminate() [-Wterminate]
377 | throw MurasakiException("Couldn't mark System V IPC shared memory region for deletion for sequence "+name+strerror(errno));
| ^
sequence.cc:377:123: note: in C++11 destructors default to noexcept
sequence.cc: In member function 'void BitSequence::loadBinary(const SequenceBinary&)':
sequence.cc:1113:136: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'ShmVector<std::pair<long int, long int> >::val_type' {aka 'struct std::pair<long int, long int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
1113 | memcpy(&matchRegions.front(),binseq.regions[srcMatchRegionsIdx],sizeof(SequenceBinary::Region)*binseq.regionSizes[srcMatchRegionsIdx]);
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/stl_tree.h:63,
from /usr/include/c++/9/set:60,
from cmultiset.h:33,
from sequence.h:30,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: 'ShmVector<std::pair<long int, long int> >::val_type' {aka 'struct std::pair<long int, long int>'} declared here
208 | struct pair
| ^~~~
sequence.cc:1114:97: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'ShmVector<std::pair<long int, long int> >::val_type' {aka 'struct std::pair<long int, long int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
1114 | memcpy(&subSeqs.front(),binseq.regions[0],sizeof(SequenceBinary::Region)*binseq.regionSizes[0]);
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/stl_tree.h:63,
from /usr/include/c++/9/set:60,
from cmultiset.h:33,
from sequence.h:30,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: 'ShmVector<std::pair<long int, long int> >::val_type' {aka 'struct std::pair<long int, long int>'} declared here
208 | struct pair
| ^~~~
sequence.cc: In destructor 'BitSequence::~BitSequence()':
sequence.cc:1394:133: warning: throw will always call terminate() [-Wterminate]
1394 | throw MurasakiException("Couldn't detach System V shared memory region for "+(seq ? seq->filename:string("(anon)"))+strerror(errno));
| ^
sequence.cc:1394:133: note: in C++11 destructors default to noexcept
sequence.cc: In member function 'std::pair<double, long int> IntervalSet::entropy() const':
sequence.cc:3332:10: warning: variable 'shortest' set but not used [-Wunused-but-set-variable]
3332 | SeqPos shortest=0,shortlen=length(spaces[0]);
| ^~~~~~~~
In file included from sequence.h:44,
from murasaki.h:24,
from sequence.cc:28:
shmvector.hh: In instantiation of 'void ShmVector<T>::shmRealloc(size_t) [with T = std::pair<long int, long int>; size_t = unsigned int]':
shmvector.hh:282:5: required from 'void ShmVector<T>::resize(size_t) [with T = std::pair<long int, long int>; size_t = unsigned int]'
sequence.cc:1110:39: required from here
shmvector.hh:225:13: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'struct std::pair<long int, long int>' with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
225 | memcpy(_data,old_data,(oldByteCapacity<_byteCapacity ? oldByteCapacity:_byteCapacity));
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/stl_tree.h:63,
from /usr/include/c++/9/set:60,
from cmultiset.h:33,
from sequence.h:30,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: 'struct std::pair<long int, long int>' declared here
208 | struct pair
| ^~~~
murasaki.cc: In function 'void procLocs(LocList&, std::__cxx11::list<Location>&, int, int)':
murasaki.cc:1008:8: warning: variable 'revZero' set but not used [-Wunused-but-set-variable]
1008 | bool revZero=false;
| ^~~~~~~
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c options.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c ecohash.cc
In file included from /usr/include/c++/9/vector:72,
from murasaki.cc:31:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c ecolist.cc
In file included from /usr/include/c++/9/vector:67,
from murasaki.cc:31:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void MurasakiRuntime::prep()':
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c murasaki_mpi.cc
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const HashMethod&}; _Tp = HashMethod; _Alloc = std::allocator<HashMethod>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<HashMethod>::iterator' {aka '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {HashMethod}; _Tp = HashMethod; _Alloc = std::allocator<HashMethod>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<HashMethod>::iterator' {aka '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >'} changed in GCC 7.1
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c arrayhash.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c seqread.cc
In file included from /usr/include/c++/9/vector:67,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_vector.h: In member function 'double HashMethod::fitnessCheck()':
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
murasaki_mpi.cc: In function 'void mpi_hasher_client_mode(BitSequence*)':
murasaki_mpi.cc:561:9: warning: variable 'send_done' set but not used [-Wunused-but-set-variable]
561 | int send_done;
| ^~~~~~~~~
murasaki_mpi.cc: In function 'word mpi_extract_checkSentQueue(std::vector<std::__cxx11::list<AnchorBlock*> >&, std::vector<std::_Rb_tree_iterator<std::pair<const int, int> > >&, std::multimap<int, int>&)':
murasaki_mpi.cc:1025:18: warning: use of an operand of type 'bool' in 'operator++' is deprecated [-Wdeprecated]
1025 | packetsLeft++;
| ^~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1839 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Compare = __gnu_cxx::__ops::_Val_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1820 | __unguarded_linear_insert(_RandomAccessIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/bits/stl_algo.h:61,
from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Distance = int; _Tp = HashMethod; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
326 | __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last,
| ^~~~~~~~~~~
/usr/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__pop_heap(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:243:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
243 | __pop_heap(_RandomAccessIterator __first, _RandomAccessIterator __last,
| ^~~~~~~~~~
/usr/include/c++/9/bits/stl_heap.h:243:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_heap.h:243:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1939 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
In file included from /usr/include/c++/9/bits/stl_algo.h:61,
from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_heap.h:408:19: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
408 | std::__pop_heap(__first, __last, __last, __comp);
| ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1671 | std::__make_heap(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/vector.tcc: In member function 'void BitSequence::compileHashFunc()':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c scoring.cc
In file included from /usr/include/c++/9/vector:72,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from murasaki_mpi.cc:33:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from murasaki_mpi.cc:33:
/usr/include/c++/9/bits/stl_vector.h: In function 'void mpi_types_init()':
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c openhash.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c genopts.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c binseq.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr-image.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr.cc
binseq.cc: In member function 'bool SequenceBinary::save(std::string)':
binseq.cc:70:28: warning: catching polymorphic type 'class std::ios_base::failure' by value [-Wcatch-value=]
70 | }catch(ofstream::failure e){
| ^
binseq.cc: In member function 'void SequenceBinary::fillCopyVectors()':
binseq.cc:158:67: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
158 | memcpy(&subSeqs.front(),regions[0],regionSizes[0]*sizeof(Region));
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/istream:38,
from /usr/include/c++/9/fstream:38,
from seqread.h:30,
from binseq.hh:31,
from binseq.cc:21:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} declared here
208 | struct pair
| ^~~~
binseq.cc:160:75: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
160 | memcpy(&readableRegions.front(),regions[1],regionSizes[1]*sizeof(Region));
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/istream:38,
from /usr/include/c++/9/fstream:38,
from seqread.h:30,
from binseq.hh:31,
from binseq.cc:21:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} declared here
208 | struct pair
| ^~~~
binseq.cc:162:75: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
162 | memcpy(&unmaskedRegions.front(),regions[2],regionSizes[2]*sizeof(Region));
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/istream:38,
from /usr/include/c++/9/fstream:38,
from seqread.h:30,
from binseq.hh:31,
from binseq.cc:21:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} declared here
208 | struct pair
| ^~~~
cgr.cc: In member function 'void Cgr::merge(Cgr&)':
cgr.cc:140:7: warning: variable 'redist' set but not used [-Wunused-but-set-variable]
140 | int redist=(unsigned long)(rez*rez)<=seedcount;
| ^~~~~~
cgr.cc: In member function 'bool Cgr::savePNG(std::string)':
cgr.cc:288:7: warning: variable 'res' set but not used [-Wunused-but-set-variable]
288 | int res;
| ^~~
cgr.cc: In member function 'int PgmBuffer::loadPGM(std::string)':
cgr.cc:435:7: warning: variable 'wordwidth' set but not used [-Wunused-but-set-variable]
435 | int wordwidth=1;
| ^~~~~~~~~
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr-compare.cc
cgr.cc: In member function 'int PgmBuffer::loadBinaryPGM(std::string)':
cgr.cc:557:31: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized]
557 | if(data.size()<(uint)(height*width))
| ~~~~~~~^~~~~~~
cgr.cc:557:31: warning: 'width' may be used uninitialized in this function [-Wmaybe-uninitialized]
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr-random.cc
cgr.cc: In member function 'int PgmBuffer::loadPGM(std::string)':
cgr.cc:485:31: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized]
485 | if(data.size()<(uint)(height*width))
| ~~~~~~~^~~~~~~
cgr.cc:485:31: warning: 'width' may be used uninitialized in this function [-Wmaybe-uninitialized]
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c cgr-sample.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c testeco.cc
In file included from /usr/include/c++/9/map:60,
from cgr-compare.cc:30:
/usr/include/c++/9/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&>, std::tuple<>}; _Key = std::__cxx11::basic_string<char>; _Val = std::pair<const std::__cxx11::basic_string<char>, double>; _KeyOfValue = std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::__cxx11::basic_string<char>, double> >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from cgr-compare.cc:30:
/usr/include/c++/9/bits/stl_map.h: In function 'void setCmp(CgrSet&)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::__cxx11::basic_string<char>, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-compare.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c alignments.cc
cgr-sample.cc: In function 'int main(int, char**)':
cgr-sample.cc:54:8: warning: variable 'repeatmask' set but not used [-Wunused-but-set-variable]
54 | bool repeatmask=false,save=false;
| ^~~~~~~~~~
testeco.cc: In function 'long int bigrand()':
testeco.cc:29:43: warning: left shift count >= width of type [-Wshift-count-overflow]
29 | return (long)(((unsigned long)(rand())<<32) + ((unsigned long)(rand())));
| ^~
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-or.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c geneparse.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-and.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-best.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c align-coverage.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c getsegments.cc
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -c mbfa.cc
getsegments.cc: In function 'size_t getSubSeqs(SequenceFileReader&, std::__cxx11::list<std::pair<unsigned int, std::__cxx11::basic_string<char> > >&, std::string)':
getsegments.cc:153:29: warning: catching polymorphic type 'class boost::bad_lexical_cast' by value [-Wcatch-value=]
153 | }catch(bad_lexical_cast e){
| ^
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../murasaki murasaki.o timing.o dinkymath.o sequence.o msethash.o options.o ecohash.o ecolist.o murasaki_mpi.o arrayhash.o seqread.o scoring.o openhash.o genopts.o binseq.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
align-coverage.cc: In function 'int main(int, char**)':
align-coverage.cc:148:10: warning: variable 'seqStats' set but not used [-Wunused-but-set-variable]
148 | bool seqStats=true;
| ^~~~~~~~
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../cgr-image cgr-image.o cgr.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../cgr-compare cgr-compare.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../cgr-random cgr-random.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../cgr-sample cgr.o cgr-sample.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../testeco testeco.o ecolist.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-compare align-compare.o dinkymath.o alignments.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-or align-or.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../geneparse geneparse.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-and align-and.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-best align-best.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../align-coverage align-coverage.o alignments.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../mbfa mbfa.o dinkymath.o timing.o seqread.o binseq.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -o ../getsegments getsegments.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
for bin in geneparse mbfa murasaki cgr-* testeco align-* ; do \
mv ${bin} ${bin}-mpi ; \
done
make clean
make[2]: Entering directory '/<<PKGBUILDDIR>>'
rm -rf *.o *~ .*~ core
make -C src clean
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
rm -rf *.o *~ .*~ core ../murasaki ../cgr-image ../cgr-compare ../cgr-random ../cgr-sample ../testeco ../align-compare ../align-or ../geneparse ../align-and ../align-best ../align-coverage ../getsegments ../mbfa
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build -- USE_MPI=NO
make -j4 "INSTALL=install --strip-program=true" USE_MPI=NO
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make -C src all
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c murasaki.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c timing.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c dinkymath.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c sequence.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c msethash.cc
dinkymath.cc: In function 'std::string littleEndianStr(unsigned int, int)':
dinkymath.cc:40:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
40 | int last=0;
| ^~~~
dinkymath.cc: In function 'std::string littleEndianPat(unsigned int, int)':
dinkymath.cc:53:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
53 | int last=0;
| ^~~~
sequence.cc: In member function 'void BitSequence::loadBinary(const SequenceBinary&)':
sequence.cc:1113:136: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'ShmVector<std::pair<long int, long int> >::val_type' {aka 'struct std::pair<long int, long int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
1113 | memcpy(&matchRegions.front(),binseq.regions[srcMatchRegionsIdx],sizeof(SequenceBinary::Region)*binseq.regionSizes[srcMatchRegionsIdx]);
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/stl_tree.h:63,
from /usr/include/c++/9/set:60,
from cmultiset.h:33,
from sequence.h:30,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: 'ShmVector<std::pair<long int, long int> >::val_type' {aka 'struct std::pair<long int, long int>'} declared here
208 | struct pair
| ^~~~
sequence.cc:1114:97: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'ShmVector<std::pair<long int, long int> >::val_type' {aka 'struct std::pair<long int, long int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
1114 | memcpy(&subSeqs.front(),binseq.regions[0],sizeof(SequenceBinary::Region)*binseq.regionSizes[0]);
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/stl_tree.h:63,
from /usr/include/c++/9/set:60,
from cmultiset.h:33,
from sequence.h:30,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: 'ShmVector<std::pair<long int, long int> >::val_type' {aka 'struct std::pair<long int, long int>'} declared here
208 | struct pair
| ^~~~
sequence.cc: In member function 'std::pair<double, long int> IntervalSet::entropy() const':
sequence.cc:3332:10: warning: variable 'shortest' set but not used [-Wunused-but-set-variable]
3332 | SeqPos shortest=0,shortlen=length(spaces[0]);
| ^~~~~~~~
In file included from sequence.h:44,
from murasaki.h:24,
from sequence.cc:28:
shmvector.hh: In instantiation of 'void ShmVector<T>::shmRealloc(size_t) [with T = std::pair<long int, long int>; size_t = unsigned int]':
shmvector.hh:282:5: required from 'void ShmVector<T>::resize(size_t) [with T = std::pair<long int, long int>; size_t = unsigned int]'
sequence.cc:1110:39: required from here
shmvector.hh:225:13: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'struct std::pair<long int, long int>' with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
225 | memcpy(_data,old_data,(oldByteCapacity<_byteCapacity ? oldByteCapacity:_byteCapacity));
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/stl_tree.h:63,
from /usr/include/c++/9/set:60,
from cmultiset.h:33,
from sequence.h:30,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: 'struct std::pair<long int, long int>' declared here
208 | struct pair
| ^~~~
murasaki.cc: In function 'void procLocs(LocList&, std::__cxx11::list<Location>&, int, int)':
murasaki.cc:1008:8: warning: variable 'revZero' set but not used [-Wunused-but-set-variable]
1008 | bool revZero=false;
| ^~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c options.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c ecohash.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c ecolist.cc
In file included from /usr/include/c++/9/vector:72,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const HashMethod&}; _Tp = HashMethod; _Alloc = std::allocator<HashMethod>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<HashMethod>::iterator' {aka '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c murasaki_mpi.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c arrayhash.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c seqread.cc
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {HashMethod}; _Tp = HashMethod; _Alloc = std::allocator<HashMethod>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<HashMethod>::iterator' {aka '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >'} changed in GCC 7.1
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c scoring.cc
In file included from /usr/include/c++/9/vector:67,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_vector.h: In member function 'double HashMethod::fitnessCheck()':
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1839 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Compare = __gnu_cxx::__ops::_Val_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1820 | __unguarded_linear_insert(_RandomAccessIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/bits/stl_algo.h:61,
from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Distance = int; _Tp = HashMethod; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
326 | __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last,
| ^~~~~~~~~~~
/usr/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__pop_heap(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:243:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
243 | __pop_heap(_RandomAccessIterator __first, _RandomAccessIterator __last,
| ^~~~~~~~~~
/usr/include/c++/9/bits/stl_heap.h:243:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_heap.h:243:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1939 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
In file included from /usr/include/c++/9/bits/stl_algo.h:61,
from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_heap.h:408:19: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
408 | std::__pop_heap(__first, __last, __last, __comp);
| ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1671 | std::__make_heap(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c openhash.cc
In file included from /usr/include/c++/9/vector:72,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/vector.tcc: In member function 'void BitSequence::compileHashFunc()':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from scoring.h:27,
from sequence.h:31,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/boost/regex/v4/regex_workaround.hpp:33,
from /usr/include/boost/regex/v4/regex.hpp:32,
from /usr/include/boost/regex.hpp:31,
from seqread.h:33,
from binseq.hh:31,
from sequence.h:32,
from murasaki.h:24,
from sequence.cc:28:
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<HashMethod*, std::vector<HashMethod> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c genopts.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c binseq.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr-image.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr.cc
cgr.cc: In member function 'void Cgr::merge(Cgr&)':
cgr.cc:140:7: warning: variable 'redist' set but not used [-Wunused-but-set-variable]
140 | int redist=(unsigned long)(rez*rez)<=seedcount;
| ^~~~~~
cgr.cc: In member function 'bool Cgr::savePNG(std::string)':
cgr.cc:288:7: warning: variable 'res' set but not used [-Wunused-but-set-variable]
288 | int res;
| ^~~
cgr.cc: In member function 'int PgmBuffer::loadPGM(std::string)':
cgr.cc:435:7: warning: variable 'wordwidth' set but not used [-Wunused-but-set-variable]
435 | int wordwidth=1;
| ^~~~~~~~~
binseq.cc: In member function 'bool SequenceBinary::save(std::string)':
binseq.cc:70:28: warning: catching polymorphic type 'class std::ios_base::failure' by value [-Wcatch-value=]
70 | }catch(ofstream::failure e){
| ^
binseq.cc: In member function 'void SequenceBinary::fillCopyVectors()':
binseq.cc:158:67: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
158 | memcpy(&subSeqs.front(),regions[0],regionSizes[0]*sizeof(Region));
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/istream:38,
from /usr/include/c++/9/fstream:38,
from seqread.h:30,
from binseq.hh:31,
from binseq.cc:21:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} declared here
208 | struct pair
| ^~~~
binseq.cc:160:75: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
160 | memcpy(&readableRegions.front(),regions[1],regionSizes[1]*sizeof(Region));
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/istream:38,
from /usr/include/c++/9/fstream:38,
from seqread.h:30,
from binseq.hh:31,
from binseq.cc:21:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} declared here
208 | struct pair
| ^~~~
binseq.cc:162:75: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
162 | memcpy(&unmaskedRegions.front(),regions[2],regionSizes[2]*sizeof(Region));
| ^
In file included from /usr/include/c++/9/bits/stl_algobase.h:64,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/istream:38,
from /usr/include/c++/9/fstream:38,
from seqread.h:30,
from binseq.hh:31,
from binseq.cc:21:
/usr/include/c++/9/bits/stl_pair.h:208:12: note: '__gnu_cxx::__alloc_traits<std::allocator<std::pair<unsigned int, unsigned int> >, std::pair<unsigned int, unsigned int> >::value_type' {aka 'struct std::pair<unsigned int, unsigned int>'} declared here
208 | struct pair
| ^~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr-compare.cc
cgr.cc: In member function 'int PgmBuffer::loadBinaryPGM(std::string)':
cgr.cc:557:31: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized]
557 | if(data.size()<(uint)(height*width))
| ~~~~~~~^~~~~~~
cgr.cc:557:31: warning: 'width' may be used uninitialized in this function [-Wmaybe-uninitialized]
cgr.cc: In member function 'int PgmBuffer::loadPGM(std::string)':
cgr.cc:485:31: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized]
485 | if(data.size()<(uint)(height*width))
| ~~~~~~~^~~~~~~
cgr.cc:485:31: warning: 'width' may be used uninitialized in this function [-Wmaybe-uninitialized]
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr-random.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c cgr-sample.cc
In file included from /usr/include/c++/9/map:60,
from cgr-compare.cc:30:
/usr/include/c++/9/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&>, std::tuple<>}; _Key = std::__cxx11::basic_string<char>; _Val = std::pair<const std::__cxx11::basic_string<char>, double>; _KeyOfValue = std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::__cxx11::basic_string<char>, double> >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from cgr-compare.cc:30:
/usr/include/c++/9/bits/stl_map.h: In function 'void setCmp(CgrSet&)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::__cxx11::basic_string<char>, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c testeco.cc
cgr-sample.cc: In function 'int main(int, char**)':
cgr-sample.cc:54:8: warning: variable 'repeatmask' set but not used [-Wunused-but-set-variable]
54 | bool repeatmask=false,save=false;
| ^~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-compare.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c alignments.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-or.cc
testeco.cc: In function 'long int bigrand()':
testeco.cc:29:43: warning: left shift count >= width of type [-Wshift-count-overflow]
29 | return (long)(((unsigned long)(rand())<<32) + ((unsigned long)(rand())));
| ^~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c geneparse.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-and.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-best.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c align-coverage.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c getsegments.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -c mbfa.cc
getsegments.cc: In function 'size_t getSubSeqs(SequenceFileReader&, std::__cxx11::list<std::pair<unsigned int, std::__cxx11::basic_string<char> > >&, std::string)':
getsegments.cc:153:29: warning: catching polymorphic type 'class boost::bad_lexical_cast' by value [-Wcatch-value=]
153 | }catch(bad_lexical_cast e){
| ^
align-coverage.cc: In function 'int main(int, char**)':
align-coverage.cc:148:10: warning: variable 'seqStats' set but not used [-Wunused-but-set-variable]
148 | bool seqStats=true;
| ^~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../murasaki murasaki.o timing.o dinkymath.o sequence.o msethash.o options.o ecohash.o ecolist.o murasaki_mpi.o arrayhash.o seqread.o scoring.o openhash.o genopts.o binseq.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../cgr-image cgr-image.o cgr.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../cgr-compare cgr-compare.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../cgr-random cgr-random.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../cgr-sample cgr.o cgr-sample.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../testeco testeco.o ecolist.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-compare align-compare.o dinkymath.o alignments.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-or align-or.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../geneparse geneparse.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-and align-and.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-best align-best.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../align-coverage align-coverage.o alignments.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../mbfa mbfa.o dinkymath.o timing.o seqread.o binseq.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -o ../getsegments getsegments.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -Wl,-z,now
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a
create-stamp debian/debhelper-build-stamp
dh_testroot -a
dh_prep -a
dh_auto_install -a
debian/rules override_dh_install-arch
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_install -a
# using wildcards in install files is practical but it duplicates some files
find debian/murasaki/usr -name "*-mpi" -delete
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installman-arch
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_installman -a
mkdir -p debian/murasaki-mpi/usr/share/man/man1
for man in debian/murasaki/usr/share/man/man1/*.1 ; do \
cp -a ${man} debian/murasaki-mpi/usr/share/man/man1/`basename ${man} .1`-mpi.1 ; \
done
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -a
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/testeco-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/cgr-random contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-or contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/testeco contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-best contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/cgr-image-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/bin/mbfa contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-and contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/bin/murasaki-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/bin/geneparse contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/bin/mbfa-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/bin/murasaki contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-and-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/cgr-compare contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-best-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/cgr-sample contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-or-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-compare contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-compare-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/cgr-compare-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/cgr-image contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/bin/geneparse-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-coverage contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-coverage-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/cgr-random-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/cgr-sample-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: package murasaki-mpi: substitution variable ${perl:Depends} unused, but is defined
dpkg-gencontrol: warning: package murasaki-mpi: substitution variable ${perl:Depends} unused, but is defined
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'murasaki' in '../murasaki_1.68.6-9+b4_armhf.deb'.
dpkg-deb: building package 'murasaki-mpi' in '../murasaki-mpi_1.68.6-9+b4_armhf.deb'.
dpkg-deb: building package 'murasaki-mpi-dbgsym' in '../murasaki-mpi-dbgsym_1.68.6-9+b4_armhf.deb'.
dpkg-deb: building package 'murasaki-dbgsym' in '../murasaki-dbgsym_1.68.6-9+b4_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian 2019 test autobuilder <root@raspbian.org> >../murasaki_1.68.6-9+b4_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2020-05-30T20:17:56Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
murasaki_1.68.6-9+b4_armhf.changes:
-----------------------------------
Format: 1.8
Date: Sat, 30 May 2020 20:03:38 +0000
Source: murasaki (1.68.6-9)
Binary: murasaki murasaki-dbgsym murasaki-mpi murasaki-mpi-dbgsym
Binary-Only: yes
Architecture: armhf
Version: 1.68.6-9+b4
Distribution: bullseye-staging
Urgency: low
Maintainer: Raspbian 2019 test autobuilder <root@raspbian.org>
Changed-By: Raspbian 2019 test autobuilder <root@raspbian.org>
Description:
murasaki - homology detection tool across multiple large genomes
murasaki-mpi - homology detection tool across multiple large genomes (MPI-versio
Changes:
murasaki (1.68.6-9+b4) bullseye-staging; urgency=low, binary-only=yes
.
* Binary-only non-maintainer upload for armhf; no source changes.
* rebuild due to debcheck failure
Checksums-Sha1:
cb6657dd0452def547e0c7078955345a7bf84d6e 9574080 murasaki-dbgsym_1.68.6-9+b4_armhf.deb
dd71a91c6f7cd40d38da941d9b39a74bdedbfdf2 10205016 murasaki-mpi-dbgsym_1.68.6-9+b4_armhf.deb
f15c370799522979549b41c5f0adfcb2b24bd69d 414660 murasaki-mpi_1.68.6-9+b4_armhf.deb
a47b0f253a2f7d25770209b32db2fa9c8e7fc9e6 7905 murasaki_1.68.6-9+b4_armhf.buildinfo
a382e4922187b73a7d1cdd73a9fe0d8f1ee29989 377656 murasaki_1.68.6-9+b4_armhf.deb
Checksums-Sha256:
16486fe2680877744eea3e3ff5e45094204729f803fa0dd1d86c370f17b4642b 9574080 murasaki-dbgsym_1.68.6-9+b4_armhf.deb
dc76339cd35687cf1995aed0268d144658bb2d1db19927770df0398fbfa8f897 10205016 murasaki-mpi-dbgsym_1.68.6-9+b4_armhf.deb
533b8161cb86955ef8c2b29ad98f0a82f166785b7dc109b4be3a7414363d657a 414660 murasaki-mpi_1.68.6-9+b4_armhf.deb
0561f01717e28ab6c90dfb4b8890790263fa4f16f0ad70f7870a69ba15f69ad0 7905 murasaki_1.68.6-9+b4_armhf.buildinfo
99a4e69d121247056cf877f8dbe6bfd7e32441f62d10bdfe40d9f8dc34b2fc28 377656 murasaki_1.68.6-9+b4_armhf.deb
Files:
068b198dbc3166ffa8d1c6013dc013c4 9574080 debug optional murasaki-dbgsym_1.68.6-9+b4_armhf.deb
5731554be16fae701e569745a2a5966f 10205016 debug optional murasaki-mpi-dbgsym_1.68.6-9+b4_armhf.deb
498c92d02c0be652aad89fc05ba24dae 414660 science optional murasaki-mpi_1.68.6-9+b4_armhf.deb
93e84aee0d92abf518eef3824475952e 7905 science optional murasaki_1.68.6-9+b4_armhf.buildinfo
eb7541acce096a71d543fc94375d1224 377656 science optional murasaki_1.68.6-9+b4_armhf.deb
+------------------------------------------------------------------------------+
| Buildinfo |
+------------------------------------------------------------------------------+
Format: 1.0
Source: murasaki (1.68.6-9)
Binary: murasaki murasaki-mpi murasaki-common
Architecture: armhf
Version: 1.68.6-9+b4
Binary-Only-Changes:
murasaki (1.68.6-9+b4) bullseye-staging; urgency=low, binary-only=yes
.
* Binary-only non-maintainer upload for armhf; no source changes.
* rebuild due to debcheck failure
.
-- Raspbian 2019 test autobuilder <root@raspbian.org> Sat, 30 May 2020 20:03:38 +0000
Checksums-Md5:
068b198dbc3166ffa8d1c6013dc013c4 9574080 murasaki-dbgsym_1.68.6-9+b4_armhf.deb
5731554be16fae701e569745a2a5966f 10205016 murasaki-mpi-dbgsym_1.68.6-9+b4_armhf.deb
498c92d02c0be652aad89fc05ba24dae 414660 murasaki-mpi_1.68.6-9+b4_armhf.deb
eb7541acce096a71d543fc94375d1224 377656 murasaki_1.68.6-9+b4_armhf.deb
Checksums-Sha1:
cb6657dd0452def547e0c7078955345a7bf84d6e 9574080 murasaki-dbgsym_1.68.6-9+b4_armhf.deb
dd71a91c6f7cd40d38da941d9b39a74bdedbfdf2 10205016 murasaki-mpi-dbgsym_1.68.6-9+b4_armhf.deb
f15c370799522979549b41c5f0adfcb2b24bd69d 414660 murasaki-mpi_1.68.6-9+b4_armhf.deb
a382e4922187b73a7d1cdd73a9fe0d8f1ee29989 377656 murasaki_1.68.6-9+b4_armhf.deb
Checksums-Sha256:
16486fe2680877744eea3e3ff5e45094204729f803fa0dd1d86c370f17b4642b 9574080 murasaki-dbgsym_1.68.6-9+b4_armhf.deb
dc76339cd35687cf1995aed0268d144658bb2d1db19927770df0398fbfa8f897 10205016 murasaki-mpi-dbgsym_1.68.6-9+b4_armhf.deb
533b8161cb86955ef8c2b29ad98f0a82f166785b7dc109b4be3a7414363d657a 414660 murasaki-mpi_1.68.6-9+b4_armhf.deb
99a4e69d121247056cf877f8dbe6bfd7e32441f62d10bdfe40d9f8dc34b2fc28 377656 murasaki_1.68.6-9+b4_armhf.deb
Build-Origin: Raspbian
Build-Architecture: armhf
Build-Date: Sat, 30 May 2020 20:17:52 +0000
Build-Path: /<<PKGBUILDDIR>>
Installed-Build-Depends:
adduser (= 3.118),
autoconf (= 2.69-11.1),
automake (= 1:1.16.2-1),
autopoint (= 0.19.8.1-10),
autotools-dev (= 20180224.1),
base-files (= 11+rpi1),
base-passwd (= 3.5.47),
bash (= 5.0-6),
binutils (= 2.34-8+rpi1),
binutils-arm-linux-gnueabihf (= 2.34-8+rpi1),
binutils-common (= 2.34-8+rpi1),
bsdmainutils (= 11.1.2),
bsdutils (= 1:2.35.1-5),
build-essential (= 12.8),
bzip2 (= 1.0.8-2),
coreutils (= 8.30-3),
cpp (= 4:9.2.1-3.1+rpi1),
cpp-9 (= 9.3.0-13+rpi1),
dash (= 0.5.10.2-7),
debconf (= 1.5.74),
debhelper (= 13.1),
debianutils (= 4.9.1),
dh-autoreconf (= 19),
dh-strip-nondeterminism (= 1.8.1-1),
diffutils (= 1:3.7-3),
dpkg (= 1.19.7),
dpkg-dev (= 1.19.7),
dwz (= 0.13-5),
file (= 1:5.38-5),
findutils (= 4.7.0-1),
g++ (= 4:9.2.1-3.1+rpi1),
g++-9 (= 9.3.0-13+rpi1),
gcc (= 4:9.2.1-3.1+rpi1),
gcc-10-base (= 10.1.0-1+rpi1),
gcc-9 (= 9.3.0-13+rpi1),
gcc-9-base (= 9.3.0-13+rpi1),
gettext (= 0.19.8.1-10),
gettext-base (= 0.19.8.1-10),
gfortran-9 (= 9.3.0-13+rpi1),
grep (= 3.4-1),
groff-base (= 1.22.4-5),
gzip (= 1.10-2),
hostname (= 3.23),
ibverbs-providers (= 29.0-1),
icu-devtools (= 63.2-3),
init-system-helpers (= 1.57),
intltool-debian (= 0.35.0+20060710.5),
libacl1 (= 2.2.53-8),
libarchive-zip-perl (= 1.68-1),
libasan5 (= 9.3.0-13+rpi1),
libatomic1 (= 10.1.0-1+rpi1),
libattr1 (= 1:2.4.48-5),
libaudit-common (= 1:2.8.5-3),
libaudit1 (= 1:2.8.5-3),
libbinutils (= 2.34-8+rpi1),
libblkid1 (= 2.35.1-5),
libboost-filesystem-dev (= 1.67.0.2+b12),
libboost-filesystem1.67-dev (= 1.67.0-18),
libboost-filesystem1.67.0 (= 1.67.0-18),
libboost-iostreams-dev (= 1.67.0.2+b12),
libboost-iostreams1.67-dev (= 1.67.0-18),
libboost-iostreams1.67.0 (= 1.67.0-18),
libboost-regex-dev (= 1.67.0.2+b12),
libboost-regex1.67-dev (= 1.67.0-18),
libboost-regex1.67.0 (= 1.67.0-18),
libboost-system1.67-dev (= 1.67.0-18),
libboost-system1.67.0 (= 1.67.0-18),
libboost1.67-dev (= 1.67.0-18),
libbsd0 (= 0.10.0-1),
libbz2-1.0 (= 1.0.8-2),
libc-bin (= 2.30-8+rpi1),
libc-dev-bin (= 2.30-8+rpi1),
libc6 (= 2.30-8+rpi1),
libc6-dev (= 2.30-8+rpi1),
libcap-ng0 (= 0.7.9-2.1+b1),
libcbor0 (= 0.5.0+dfsg-2),
libcc1-0 (= 10.1.0-1+rpi1),
libcom-err2 (= 1.45.6-1),
libcroco3 (= 0.6.13-1),
libcrypt-dev (= 1:4.4.16-1),
libcrypt1 (= 1:4.4.16-1),
libcrypto++-dev (= 5.6.4-9),
libcrypto++6 (= 5.6.4-9),
libctf-nobfd0 (= 2.34-8+rpi1),
libctf0 (= 2.34-8+rpi1),
libdb5.3 (= 5.3.28+dfsg1-0.6),
libdebconfclient0 (= 0.252),
libdebhelper-perl (= 13.1),
libdpkg-perl (= 1.19.7),
libedit2 (= 3.1-20191231-1),
libelf1 (= 0.176-1.1),
libevent-2.1-7 (= 2.1.11-stable-1),
libevent-core-2.1-7 (= 2.1.11-stable-1),
libevent-dev (= 2.1.11-stable-1),
libevent-extra-2.1-7 (= 2.1.11-stable-1),
libevent-openssl-2.1-7 (= 2.1.11-stable-1),
libevent-pthreads-2.1-7 (= 2.1.11-stable-1),
libffi7 (= 3.3-4),
libfido2-1 (= 1.4.0-1),
libfile-stripnondeterminism-perl (= 1.8.1-1),
libgcc-9-dev (= 9.3.0-13+rpi1),
libgcc-s1 (= 10.1.0-1+rpi1),
libgcc1 (= 1:10.1.0-1+rpi1),
libgcrypt20 (= 1.8.5-5),
libgdbm-compat4 (= 1.18.1-5),
libgdbm6 (= 1.18.1-5),
libgfortran-9-dev (= 9.3.0-13+rpi1),
libgfortran5 (= 10.1.0-1+rpi1),
libglib2.0-0 (= 2.64.2-1),
libgmp10 (= 2:6.2.0+dfsg-4),
libgomp1 (= 10.1.0-1+rpi1),
libgpg-error0 (= 1.37-1),
libgssapi-krb5-2 (= 1.17-7+rpi1),
libhwloc-dev (= 2.2.0+dfsg-3),
libhwloc-plugins (= 2.2.0+dfsg-3),
libhwloc15 (= 2.2.0+dfsg-3),
libibverbs-dev (= 29.0-1),
libibverbs1 (= 29.0-1),
libicu-dev (= 63.2-3),
libicu63 (= 63.2-3),
libisl22 (= 0.22.1-1),
libjs-jquery (= 3.5.1+dfsg-3),
libk5crypto3 (= 1.17-7+rpi1),
libkeyutils1 (= 1.6.1-2),
libkrb5-3 (= 1.17-7+rpi1),
libkrb5support0 (= 1.17-7+rpi1),
libltdl-dev (= 2.4.6-14),
libltdl7 (= 2.4.6-14),
liblz4-1 (= 1.9.2-2),
liblzma5 (= 5.2.4-1),
libmagic-mgc (= 1:5.38-5),
libmagic1 (= 1:5.38-5),
libmount1 (= 2.35.1-5),
libmpc3 (= 1.1.0-1),
libmpfr6 (= 4.0.2-1),
libnl-3-200 (= 3.4.0-1),
libnl-3-dev (= 3.4.0-1),
libnl-route-3-200 (= 3.4.0-1),
libnl-route-3-dev (= 3.4.0-1),
libnuma-dev (= 2.0.12-1),
libnuma1 (= 2.0.12-1),
libopenmpi-dev (= 4.0.3-6+rpi1),
libopenmpi3 (= 4.0.3-6+rpi1),
libpam-modules (= 1.3.1-5),
libpam-modules-bin (= 1.3.1-5),
libpam-runtime (= 1.3.1-5),
libpam0g (= 1.3.1-5),
libpciaccess0 (= 0.14-1),
libpcre2-8-0 (= 10.34-7),
libpcre3 (= 2:8.39-12),
libperl5.30 (= 5.30.0-10),
libpipeline1 (= 1.5.2-2),
libpmix2 (= 3.1.5-1),
libpstreams-dev (= 1.0.1-2),
librdmacm1 (= 29.0-1),
libseccomp2 (= 2.4.3-1+rpi1),
libselinux1 (= 3.0-1+b1),
libsemanage-common (= 3.0-1),
libsemanage1 (= 3.0-1+b1),
libsepol1 (= 3.0-1),
libsigsegv2 (= 2.12-2),
libsmartcols1 (= 2.35.1-5),
libssl1.1 (= 1.1.1g-1),
libstdc++-9-dev (= 9.3.0-13+rpi1),
libstdc++6 (= 10.1.0-1+rpi1),
libsub-override-perl (= 0.09-2),
libsystemd0 (= 245.5-3+rpi1),
libterm-readkey-perl (= 2.38-1+b1),
libtext-wrapper-perl (= 1.05-2),
libtinfo5 (= 6.2-1),
libtinfo6 (= 6.2-1),
libtool (= 2.4.6-14),
libubsan1 (= 10.1.0-1+rpi1),
libuchardet0 (= 0.0.6-3),
libudev1 (= 245.5-3+rpi1),
libunistring2 (= 0.9.10-2),
libuuid1 (= 2.35.1-5),
libx11-6 (= 2:1.6.9-2),
libx11-data (= 2:1.6.9-2),
libxau6 (= 1:1.0.8-1+b2),
libxcb1 (= 1.14-2),
libxdmcp6 (= 1:1.1.2-3),
libxext6 (= 2:1.3.3-1+b2),
libxml2 (= 2.9.10+dfsg-5),
libxnvctrl0 (= 440.82-1),
linux-libc-dev (= 5.2.17-1+rpi1+b2),
login (= 1:4.8.1-1),
lsb-base (= 11.1.0+rpi1),
m4 (= 1.4.18-4),
make (= 4.2.1-2),
man-db (= 2.9.1-1),
mawk (= 1.3.4.20200120-2),
ncurses-base (= 6.2-1),
ncurses-bin (= 6.2-1),
node-jquery (= 3.5.1+dfsg-3),
ocl-icd-libopencl1 (= 2.2.12-4),
openmpi-bin (= 4.0.3-6+rpi1),
openmpi-common (= 4.0.3-6+rpi1),
openssh-client (= 1:8.2p1-4),
passwd (= 1:4.8.1-1),
patch (= 2.7.6-6),
perl (= 5.30.0-10),
perl-base (= 5.30.0-10),
perl-modules-5.30 (= 5.30.0-10),
po-debconf (= 1.0.21),
sed (= 4.7-1),
sensible-utils (= 0.0.12+nmu1),
sysvinit-utils (= 2.96-3),
tar (= 1.30+dfsg-7),
util-linux (= 2.35.1-5),
xz-utils (= 5.2.4-1),
zlib1g (= 1:1.2.11.dfsg-2),
zlib1g-dev (= 1:1.2.11.dfsg-2)
Environment:
DEB_BUILD_OPTIONS="parallel=4"
LANG="en_GB.UTF-8"
LC_ALL="POSIX"
SOURCE_DATE_EPOCH="1590869018"
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
murasaki-dbgsym_1.68.6-9+b4_armhf.deb
-------------------------------------
new Debian package, version 2.0.
size 9574080 bytes: control archive=1196 bytes.
887 bytes, 12 lines control
1466 bytes, 14 lines md5sums
Package: murasaki-dbgsym
Source: murasaki (1.68.6-9)
Version: 1.68.6-9+b4
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 10530
Depends: murasaki (= 1.68.6-9+b4)
Section: debug
Priority: optional
Description: debug symbols for murasaki
Build-Ids: 08a8e75d284087ef4902e2df6b62fb9571e3063f 17fbbb84fe88bf2b00e82f84af67f0f67aca30c5 20be8a13b68b023b5b49ede6ff65d436efb5e368 2923cca5ef2c36891d7106ad9020fb29e727c28b 32b30f5e0823dd7ed0745939b1c201a9c7ccbf14 43518f55a7f4ca89ec42f432894548a7197fb752 4b6ae628fce9d3b6a7a51ebfa1766d4f6d5975af 6a32ec632ac3a0c6a8f762c762dd6e61094cf9d9 78254c6c4682b76f715583b4c978291f0393cf09 8aa740521d02b3d6487366be4a9c1408d1de6433 90febf6f4cf73d590446b68042cd888af99c154a 9aaa58cd752ea39c7ece3d24d486069618661303 caf2e9ddece3caa22724e2bdf3d36f3db4c5ac3e
drwxr-xr-x root/root 0 2020-05-30 20:03 ./
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/08/
-rw-r--r-- root/root 298040 2020-05-30 20:03 ./usr/lib/debug/.build-id/08/a8e75d284087ef4902e2df6b62fb9571e3063f.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/17/
-rw-r--r-- root/root 492760 2020-05-30 20:03 ./usr/lib/debug/.build-id/17/fbbb84fe88bf2b00e82f84af67f0f67aca30c5.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/20/
-rw-r--r-- root/root 744376 2020-05-30 20:03 ./usr/lib/debug/.build-id/20/be8a13b68b023b5b49ede6ff65d436efb5e368.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/29/
-rw-r--r-- root/root 212612 2020-05-30 20:03 ./usr/lib/debug/.build-id/29/23cca5ef2c36891d7106ad9020fb29e727c28b.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/32/
-rw-r--r-- root/root 796712 2020-05-30 20:03 ./usr/lib/debug/.build-id/32/b30f5e0823dd7ed0745939b1c201a9c7ccbf14.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/43/
-rw-r--r-- root/root 788008 2020-05-30 20:03 ./usr/lib/debug/.build-id/43/518f55a7f4ca89ec42f432894548a7197fb752.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/4b/
-rw-r--r-- root/root 631416 2020-05-30 20:03 ./usr/lib/debug/.build-id/4b/6ae628fce9d3b6a7a51ebfa1766d4f6d5975af.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/6a/
-rw-r--r-- root/root 334588 2020-05-30 20:03 ./usr/lib/debug/.build-id/6a/32ec632ac3a0c6a8f762c762dd6e61094cf9d9.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/78/
-rw-r--r-- root/root 2809968 2020-05-30 20:03 ./usr/lib/debug/.build-id/78/254c6c4682b76f715583b4c978291f0393cf09.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/8a/
-rw-r--r-- root/root 1035892 2020-05-30 20:03 ./usr/lib/debug/.build-id/8a/a740521d02b3d6487366be4a9c1408d1de6433.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/90/
-rw-r--r-- root/root 474052 2020-05-30 20:03 ./usr/lib/debug/.build-id/90/febf6f4cf73d590446b68042cd888af99c154a.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/9a/
-rw-r--r-- root/root 821852 2020-05-30 20:03 ./usr/lib/debug/.build-id/9a/aa58cd752ea39c7ece3d24d486069618661303.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/ca/
-rw-r--r-- root/root 549820 2020-05-30 20:03 ./usr/lib/debug/.build-id/ca/f2e9ddece3caa22724e2bdf3d36f3db4c5ac3e.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 761496 2020-05-30 20:03 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/murasaki.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-05-30 20:03 ./usr/share/doc/murasaki-dbgsym -> murasaki
murasaki-mpi-dbgsym_1.68.6-9+b4_armhf.deb
-----------------------------------------
new Debian package, version 2.0.
size 10205016 bytes: control archive=1208 bytes.
899 bytes, 12 lines control
1470 bytes, 14 lines md5sums
Package: murasaki-mpi-dbgsym
Source: murasaki (1.68.6-9)
Version: 1.68.6-9+b4
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 11159
Depends: murasaki-mpi (= 1.68.6-9+b4)
Section: debug
Priority: optional
Description: debug symbols for murasaki-mpi
Build-Ids: 16aae121fbc52e432d75d6b660045057e579e08d 19c4232b9040b9a3439997e36cb1fe7417ce04a1 36d317c379541f78f62217fa35afed336fa4f51d 43518f55a7f4ca89ec42f432894548a7197fb752 4b6ae628fce9d3b6a7a51ebfa1766d4f6d5975af 588458ba399fc621884070ef8a3476b3ca8dfb87 6f384ebf04837c8b99e0a8cef24d6fdfb90c273b 82b4ddcbdf5bf1d7850c190e300bb73cc87e9ff8 9aaa5feb921d525122af5490c94f889b08573557 b1978a6013c20a5a9a0c19cd9635d91ec94cdfbf d0be43b1207d9d06836a825974bd53781e281e12 fa3cffcca8d095da62463fd721bbb56810ab4219 fc98acb89810d4cfbfcafade3cc58900084377fb
drwxr-xr-x root/root 0 2020-05-30 20:03 ./
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/16/
-rw-r--r-- root/root 549972 2020-05-30 20:03 ./usr/lib/debug/.build-id/16/aae121fbc52e432d75d6b660045057e579e08d.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/19/
-rw-r--r-- root/root 474280 2020-05-30 20:03 ./usr/lib/debug/.build-id/19/c4232b9040b9a3439997e36cb1fe7417ce04a1.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/36/
-rw-r--r-- root/root 492956 2020-05-30 20:03 ./usr/lib/debug/.build-id/36/d317c379541f78f62217fa35afed336fa4f51d.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/43/
-rw-r--r-- root/root 787964 2020-05-30 20:03 ./usr/lib/debug/.build-id/43/518f55a7f4ca89ec42f432894548a7197fb752.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/4b/
-rw-r--r-- root/root 631492 2020-05-30 20:03 ./usr/lib/debug/.build-id/4b/6ae628fce9d3b6a7a51ebfa1766d4f6d5975af.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/58/
-rw-r--r-- root/root 3431212 2020-05-30 20:03 ./usr/lib/debug/.build-id/58/8458ba399fc621884070ef8a3476b3ca8dfb87.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/6f/
-rw-r--r-- root/root 1036164 2020-05-30 20:03 ./usr/lib/debug/.build-id/6f/384ebf04837c8b99e0a8cef24d6fdfb90c273b.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/82/
-rw-r--r-- root/root 334712 2020-05-30 20:03 ./usr/lib/debug/.build-id/82/b4ddcbdf5bf1d7850c190e300bb73cc87e9ff8.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/9a/
-rw-r--r-- root/root 744576 2020-05-30 20:03 ./usr/lib/debug/.build-id/9a/aa5feb921d525122af5490c94f889b08573557.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/b1/
-rw-r--r-- root/root 822108 2020-05-30 20:03 ./usr/lib/debug/.build-id/b1/978a6013c20a5a9a0c19cd9635d91ec94cdfbf.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/d0/
-rw-r--r-- root/root 213140 2020-05-30 20:03 ./usr/lib/debug/.build-id/d0/be43b1207d9d06836a825974bd53781e281e12.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/fa/
-rw-r--r-- root/root 796844 2020-05-30 20:03 ./usr/lib/debug/.build-id/fa/3cffcca8d095da62463fd721bbb56810ab4219.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.build-id/fc/
-rw-r--r-- root/root 298260 2020-05-30 20:03 ./usr/lib/debug/.build-id/fc/98acb89810d4cfbfcafade3cc58900084377fb.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 780784 2020-05-30 20:03 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/murasaki-mpi.debug
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-05-30 20:03 ./usr/share/doc/murasaki-mpi-dbgsym -> murasaki-mpi
murasaki-mpi_1.68.6-9+b4_armhf.deb
----------------------------------
new Debian package, version 2.0.
size 414660 bytes: control archive=1640 bytes.
1371 bytes, 28 lines control
1413 bytes, 21 lines md5sums
Package: murasaki-mpi
Source: murasaki (1.68.6-9)
Version: 1.68.6-9+b4
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2633
Depends: murasaki-common, libboost-filesystem1.67.0, libboost-iostreams1.67.0, libboost-regex1.67.0-icu63, libc6 (>= 2.29), libgcc-s1 (>= 3.5), libopenmpi3 (>= 4.0.3), libstdc++6 (>= 5.2)
Section: science
Priority: optional
Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/
Description: homology detection tool across multiple large genomes (MPI-version)
Murasaki is a scalable and fast, language theory-based homology
detection tool across multiple large genomes. It enable whole-genome
scale multiple genome global alignments. Supports unlimited length
gapped-seed patterns and unique TF-IDF based filtering.
.
Murasaki is an anchor alignment software, which is
* exteremely fast (17 CPU hours for whole Human x Mouse genome (with
40 nodes: 52 wall minutes))
* scalable (Arbitrarily parallelizable across multiple nodes using MPI.
Even a single node with 16GB of ram can handle over 1Gbp of sequence.)
* unlimited pattern length
* repeat tolerant
* intelligent noise reduction
.
This package provides the MPI-enabled binary for murasaki. While this
will speed up operation on multi-processor machines it will slow down
on a single processor.
drwxr-xr-x root/root 0 2020-05-30 20:03 ./
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/bin/
-rwxr-xr-x root/root 202580 2020-05-30 20:03 ./usr/bin/geneparse-mpi
-rwxr-xr-x root/root 235284 2020-05-30 20:03 ./usr/bin/mbfa-mpi
-rwxr-xr-x root/root 600996 2020-05-30 20:03 ./usr/bin/murasaki-mpi
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/murasaki/
-rwxr-xr-x root/root 161524 2020-05-30 20:03 ./usr/lib/murasaki/align-and-mpi
-rwxr-xr-x root/root 165636 2020-05-30 20:03 ./usr/lib/murasaki/align-best-mpi
-rwxr-xr-x root/root 186140 2020-05-30 20:03 ./usr/lib/murasaki/align-compare-mpi
-rwxr-xr-x root/root 255764 2020-05-30 20:03 ./usr/lib/murasaki/align-coverage-mpi
-rwxr-xr-x root/root 157412 2020-05-30 20:03 ./usr/lib/murasaki/align-or-mpi
-rwxr-xr-x root/root 71380 2020-05-30 20:03 ./usr/lib/murasaki/cgr-compare-mpi
-rwxr-xr-x root/root 247632 2020-05-30 20:03 ./usr/lib/murasaki/cgr-image-mpi
-rwxr-xr-x root/root 7138 2010-08-24 14:18 ./usr/lib/murasaki/cgr-image.pl-mpi
-rwxr-xr-x root/root 79592 2020-05-30 20:03 ./usr/lib/murasaki/cgr-random-mpi
-rwxr-xr-x root/root 239416 2020-05-30 20:03 ./usr/lib/murasaki/cgr-sample-mpi
-rwxr-xr-x root/root 46744 2020-05-30 20:03 ./usr/lib/murasaki/testeco-mpi
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/doc/murasaki-mpi/
-rw-r--r-- root/root 249 2020-02-20 15:41 ./usr/share/doc/murasaki-mpi/README.test
-rw-r--r-- root/root 218 2020-05-30 20:03 ./usr/share/doc/murasaki-mpi/changelog.Debian.armhf.gz
-rw-r--r-- root/root 1125 2020-05-30 20:03 ./usr/share/doc/murasaki-mpi/changelog.Debian.gz
-rw-r--r-- root/root 2225 2020-02-20 15:41 ./usr/share/doc/murasaki-mpi/copyright
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/man/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/man/man1/
-rw-r--r-- root/root 2518 2020-05-30 20:03 ./usr/share/man/man1/geneparse-mpi.1.gz
-rw-r--r-- root/root 2721 2020-05-30 20:03 ./usr/share/man/man1/mbfa-mpi.1.gz
-rw-r--r-- root/root 10888 2020-05-30 20:03 ./usr/share/man/man1/murasaki-mpi.1.gz
murasaki_1.68.6-9+b4_armhf.deb
------------------------------
new Debian package, version 2.0.
size 377656 bytes: control archive=1492 bytes.
1159 bytes, 24 lines control
1265 bytes, 20 lines md5sums
Package: murasaki
Source: murasaki (1.68.6-9)
Version: 1.68.6-9+b4
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2538
Depends: murasaki-common, libboost-filesystem1.67.0, libboost-iostreams1.67.0, libboost-regex1.67.0-icu63, libc6 (>= 2.29), libgcc-s1 (>= 3.5), libstdc++6 (>= 5.2)
Section: science
Priority: optional
Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/
Description: homology detection tool across multiple large genomes
Murasaki is a scalable and fast, language theory-based homology
detection tool across multiple large genomes. It enable whole-genome
scale multiple genome global alignments. Supports unlimited length
gapped-seed patterns and unique TF-IDF based filtering.
.
Murasaki is an anchor alignment software, which is
* exteremely fast (17 CPU hours for whole Human x Mouse genome (with
40 nodes: 52 wall minutes))
* scalable (Arbitrarily parallelizable across multiple nodes using MPI.
Even a single node with 16GB of ram can handle over 1Gbp of sequence.)
* unlimited pattern length
* repeat tolerant
* intelligent noise reduction
drwxr-xr-x root/root 0 2020-05-30 20:03 ./
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/bin/
-rwxr-xr-x root/root 202576 2020-05-30 20:03 ./usr/bin/geneparse
-rwxr-xr-x root/root 235280 2020-05-30 20:03 ./usr/bin/mbfa
-rwxr-xr-x root/root 510864 2020-05-30 20:03 ./usr/bin/murasaki
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/lib/murasaki/
-rwxr-xr-x root/root 161520 2020-05-30 20:03 ./usr/lib/murasaki/align-and
-rwxr-xr-x root/root 165632 2020-05-30 20:03 ./usr/lib/murasaki/align-best
-rwxr-xr-x root/root 186136 2020-05-30 20:03 ./usr/lib/murasaki/align-compare
-rwxr-xr-x root/root 255760 2020-05-30 20:03 ./usr/lib/murasaki/align-coverage
-rwxr-xr-x root/root 157408 2020-05-30 20:03 ./usr/lib/murasaki/align-or
-rwxr-xr-x root/root 71376 2020-05-30 20:03 ./usr/lib/murasaki/cgr-compare
-rwxr-xr-x root/root 247628 2020-05-30 20:03 ./usr/lib/murasaki/cgr-image
-rwxr-xr-x root/root 79588 2020-05-30 20:03 ./usr/lib/murasaki/cgr-random
-rwxr-xr-x root/root 239412 2020-05-30 20:03 ./usr/lib/murasaki/cgr-sample
-rwxr-xr-x root/root 46740 2020-05-30 20:03 ./usr/lib/murasaki/testeco
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/doc/murasaki/
-rw-r--r-- root/root 249 2020-02-20 15:41 ./usr/share/doc/murasaki/README.test
-rw-r--r-- root/root 218 2020-05-30 20:03 ./usr/share/doc/murasaki/changelog.Debian.armhf.gz
-rw-r--r-- root/root 1125 2020-05-30 20:03 ./usr/share/doc/murasaki/changelog.Debian.gz
-rw-r--r-- root/root 2225 2020-02-20 15:41 ./usr/share/doc/murasaki/copyright
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/man/
drwxr-xr-x root/root 0 2020-05-30 20:03 ./usr/share/man/man1/
-rw-r--r-- root/root 2518 2020-05-30 20:03 ./usr/share/man/man1/geneparse.1.gz
-rw-r--r-- root/root 2721 2020-05-30 20:03 ./usr/share/man/man1/mbfa.1.gz
-rw-r--r-- root/root 10888 2020-05-30 20:03 ./usr/share/man/man1/murasaki.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build Type: any
Build-Space: 201848
Build-Time: 857
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 679
Job: murasaki_1.68.6-9
Machine Architecture: armhf
Package: murasaki
Package-Time: 1591
Source-Version: 1.68.6-9
Space: 201848
Status: successful
Version: 1.68.6-9+b4
--------------------------------------------------------------------------------
Finished at 2020-05-30T20:17:56Z
Build needed 00:26:31, 201848k disk space