Your message dated Fri, 25 May 2012 12:47:45 +0000
with message-id <[email protected]>
and subject line Bug#672015: fixed in libhmsbeagle 1.0-6
has caused the Debian Bug report #672015,
regarding libhmsbeagle: FTBFS: Precision.h:23:2: error: 'memcpy' was not
declared in this scope, and no declarations were found by argument-dependent
lookup at the point of instantiation [-fpermissive]
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
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--
672015: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=672015
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: libhmsbeagle
Version: 1.0-5
Severity: serious
Tags: wheezy sid
User: [email protected]
Usertags: qa-ftbfs-20120508 qa-ftbfs
Justification: FTBFS on amd64
Hi,
During a rebuild of all packages in sid, your package failed to build on
amd64.
Relevant part:
> /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I.
> -I../../libhmsbeagle -I/«PKGBUILDDIR» -I/«PKGBUILDDIR»
> -I/usr/lib/jvm/java-6-openjdk-amd64/include
> -I/usr/lib/jvm/java-6-openjdk-amd64/include/linux -msse2 -O3 -c -o
> libhmsbeagle_cpu_la-BeagleCPUPlugin.lo `test -f 'BeagleCPUPlugin.cpp' || echo
> './'`BeagleCPUPlugin.cpp
> libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../../libhmsbeagle
> -I/«PKGBUILDDIR» -I/«PKGBUILDDIR» -I/usr/lib/jvm/java-6-openjdk-amd64/include
> -I/usr/lib/jvm/java-6-openjdk-amd64/include/linux -msse2 -O3 -c
> BeagleCPUPlugin.cpp -fPIC -DPIC -o
> .libs/libhmsbeagle_cpu_la-BeagleCPUPlugin.o
> In file included from /«PKGBUILDDIR»/libhmsbeagle/CPU/BeagleCPUImpl.h:36:0,
> from
> /«PKGBUILDDIR»/libhmsbeagle/CPU/BeagleCPU4StateImpl.h:35,
> from BeagleCPUPlugin.cpp:9:
> /«PKGBUILDDIR»/libhmsbeagle/CPU/Precision.h: In instantiation of 'void
> beagleMemCpy(F*, const F*, unsigned int) [with F = double]':
> /«PKGBUILDDIR»/libhmsbeagle/CPU/BeagleCPUImpl.hpp:444:10: required from
> 'int beagle::cpu::BeagleCPUImpl<REALTYPE, T_PAD, P_PAD>::setTipPartials(int,
> const double*) [with REALTYPE = double; int T_PAD = 1; int P_PAD = 0]'
> BeagleCPUPlugin.cpp:50:1: required from here
> /«PKGBUILDDIR»/libhmsbeagle/CPU/Precision.h:23:2: error: 'memcpy' was not
> declared in this scope, and no declarations were found by argument-dependent
> lookup at the point of instantiation [-fpermissive]
> In file included from /usr/include/c++/4.7/cstring:44:0,
> from /«PKGBUILDDIR»/libhmsbeagle/CPU/EigenDecomposition.h:14,
> from /«PKGBUILDDIR»/libhmsbeagle/CPU/BeagleCPUImpl.h:37,
> from
> /«PKGBUILDDIR»/libhmsbeagle/CPU/BeagleCPU4StateImpl.h:35,
> from BeagleCPUPlugin.cpp:9:
> /usr/include/string.h:44:14: note: 'void* memcpy(void*, const void*, size_t)'
> declared here, later in the translation unit
> make[5]: *** [libhmsbeagle_cpu_la-BeagleCPUPlugin.lo] Error 1
The full build log is available from:
http://people.debian.org/~lucas/logs/2012/05/08/libhmsbeagle_1.0-5_unstable.log
A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!
About the archive rebuild: The rebuild was done on about 50 AMD64 nodes
of the Grid'5000 platform, using a clean chroot. Internet was not
accessible from the build systems.
--- End Message ---
--- Begin Message ---
Source: libhmsbeagle
Source-Version: 1.0-6
We believe that the bug you reported is fixed in the latest version of
libhmsbeagle, which is due to be installed in the Debian FTP archive:
libhmsbeagle-dev_1.0-6_amd64.deb
to main/libh/libhmsbeagle/libhmsbeagle-dev_1.0-6_amd64.deb
libhmsbeagle-java_1.0-6_amd64.deb
to main/libh/libhmsbeagle/libhmsbeagle-java_1.0-6_amd64.deb
libhmsbeagle1_1.0-6_amd64.deb
to main/libh/libhmsbeagle/libhmsbeagle1_1.0-6_amd64.deb
libhmsbeagle_1.0-6.debian.tar.gz
to main/libh/libhmsbeagle/libhmsbeagle_1.0-6.debian.tar.gz
libhmsbeagle_1.0-6.dsc
to main/libh/libhmsbeagle/libhmsbeagle_1.0-6.dsc
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.
Andreas Tille <[email protected]> (supplier of updated libhmsbeagle 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: SHA1
Format: 1.8
Date: Wed, 09 May 2012 15:08:00 +0200
Source: libhmsbeagle
Binary: libhmsbeagle-dev libhmsbeagle1 libhmsbeagle-java
Architecture: source amd64
Version: 1.0-6
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Description:
libhmsbeagle-dev - High-performance lib for Bayesian and Maximum Likelihood
phylogen
libhmsbeagle-java - High-performance lib for Bayesian and Maximum Likelihood
phylogen
libhmsbeagle1 - High-performance lib for Bayesian and Maximum Likelihood
phylogen
Closes: 672015
Changes:
libhmsbeagle (1.0-6) unstable; urgency=low
.
* debian/upstream:
- Make authors BibTeX compliant
- Add some publication info (volume, number, pages)
* debian/get-orig-source: Try harder to get reproducible tarballs
* debian/patches/gcc-4.7.patch: Fix gcc 4.7 build issue
Closes: #672015
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470af07124ffc82253e588fe4707eeeb4b30a1a6 7131 libhmsbeagle_1.0-6.debian.tar.gz
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libhmsbeagle-java_1.0-6_amd64.deb
Checksums-Sha256:
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58e843f4b584192e100326c2c39513d9 7131 libs extra
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cd97030bb5ef3d1f2d70c490d950f58d 606042 libdevel extra
libhmsbeagle-dev_1.0-6_amd64.deb
44db89e18d4b334a60fd52c32cfa0c54 140692 libs extra
libhmsbeagle1_1.0-6_amd64.deb
8d3da306ba1c9b9421b2cc95e73aa343 20896 java extra
libhmsbeagle-java_1.0-6_amd64.deb
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--- End Message ---
