Your message dated Fri, 18 Dec 2020 21:00:12 +0000
with message-id <[email protected]>
and subject line Bug#975588: fixed in openms 2.6.0+cleaned1-1
has caused the Debian Bug report #975588,
regarding openms: FTBFS against boost_1.74
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact [email protected]
immediately.)
--
975588: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=975588
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: openms
Version: 2.5.0+cleaned1-5
Severity: important
Tags: ftbfs
User: [email protected]
Usertags: boost174
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Dear maintainer,
it was discovered that your package failed to build
against boost_1.74. Logs can be found here [1]. Most relevant
part is probably this:
[ 0%] Building CXX object
src/openswathalgo/CMakeFiles/OpenSwathAlgo.dir/source/OPENSWATHALGO/ALGO/Scoring.cpp.o
cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/src/openswathalgo && /usr/bin/c++
-DBOOST_ALL_NO_LIB -DOpenSwathAlgo_EXPORTS
-I/<<PKGBUILDDIR>>/src/openswathalgo/include
-I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/src/openswathalgo/include
-I/<<PKGBUILDDIR>>/src/openswathalgo/thirdparty/MIToolbox/include
-I/<<PKGBUILDDIR>>/src/openswathalgo/thirdparty/MIToolbox/src -g -O2
-fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -fPIC
-fvisibility=hidden -fvisibility-inlines-hidden -Wall -Wextra
-Wno-non-virtual-dtor -Wno-unknown-pragmas -Wno-long-long -Wno-unused-function
-Wno-variadic-macros -fPIC -o
CMakeFiles/OpenSwathAlgo.dir/source/OPENSWATHALGO/ALGO/Scoring.cpp.o -c
/<<PKGBUILDDIR>>/src/openswathalgo/source/OPENSWATHALGO/ALGO/Scoring.cpp
/<<PKGBUILDDIR>>/src/openswathalgo/source/OPENSWATHALGO/ALGO/Scoring.cpp: In
function ‘std::vector<unsigned int> OpenSwath::Scoring::computeRank(const
std::vector<double>&)’:
/<<PKGBUILDDIR>>/src/openswathalgo/source/OPENSWATHALGO/ALGO/Scoring.cpp:268:12:
error: ‘sort’ is not a member of ‘std’; did you mean ‘sqrt’?
268 | std::sort(v_sort.begin(), v_sort.end());
| ^~~~
It is planned to push boost_1.74 as the default version in Debian/Bullseye.
[1]
http://qa-logs.debian.net/2020/10/27-boost/boost/openms_2.5.0+cleaned1-5_unstable_boost.log
Best regards
Anton
- -- System Information:
Debian Release: bullseye/sid
APT prefers testing
APT policy: (500, 'testing')
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel: Linux 5.9.0-1-amd64 (SMP w/8 CPU threads)
Kernel taint flags: TAINT_OOT_MODULE, TAINT_UNSIGNED_MODULE
Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
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--- End Message ---
--- Begin Message ---
Source: openms
Source-Version: 2.6.0+cleaned1-1
Done: Filippo Rusconi <[email protected]>
We believe that the bug you reported is fixed in the latest version of
openms, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Filippo Rusconi <[email protected]> (supplier of updated openms package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Tue, 15 Dec 2020 14:29:00 +0100
Source: openms
Binary: libopenms-dev libopenms2.6.0 libopenms2.6.0-dbgsym openms openms-common
openms-doc topp topp-dbgsym
Architecture: source amd64 all
Version: 2.6.0+cleaned1-1
Distribution: unstable
Urgency: low
Maintainer: The Debichem Group <[email protected]>
Changed-By: Filippo Rusconi <[email protected]>
Description:
libopenms-dev - library for LC/MS data management and analysis - dev files
libopenms2.6.0 - library for LC/MS data management and analysis - runtime
openms - package for LC/MS data management and analysis
openms-common - package for LC/MS data management and analysis - shared data
openms-doc - package for LC/MS data management and analysis - documentation
topp - set of programs implementing The OpenMS Proteomic Pipeline
Closes: 975588
Changes:
openms (2.6.0+cleaned1-1) unstable; urgency=low
.
* New upstream version.
.
* d/copyright: whole project revision, many files added.
.
* Fix bug (Closes: #975588), required specifying libboost packages with
version: libboost1.74-dev, libboost-iostreams1.74-dev,
libboost-date-time1.74-dev, libboost-math1.74-dev.
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