Your message dated Wed, 29 Jun 2016 12:24:03 +0000
with message-id <[email protected]>
and subject line Bug#813438: fixed in iqtree 1.4.2+dfsg-1
has caused the Debian Bug report #813438,
regarding iqtree: FTBFS on most 64-bit platforms: unrecognized command line
option '-mavx'
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.)
--
813438: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=813438
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: iqtree
Version: 1.3.11.1+dfsg-1
Severity: important
Justification: fails to build from source
Builds of iqtree for 64-bit platforms other than amd64 and
kfreebsd-amd64 failed:
/usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -D__SSE3
-I/«BUILDDIR»/iqtree-1.3.11.1+dfsg
-I/«BUILDDIR»/iqtree-1.3.11.1+dfsg/obj-aarch64-linux-gnu -I/usr/include/eigen3
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
-D_FORTIFY_SOURCE=2 -fopenmp -D__AVX -mavx -fabi-version=0 -o
CMakeFiles/avxkernel.dir/phylotreeavx.cpp.o -c
/«BUILDDIR»/iqtree-1.3.11.1+dfsg/phylotreeavx.cpp
c++: error: unrecognized command line option '-mavx'
CMakeFiles/avxkernel.dir/build.make:65: recipe for target
'CMakeFiles/avxkernel.dir/phylotreeavx.cpp.o' failed
Could you please take a look, bearing in mind that it's best to avoid
this option even on *amd64 because it normally limits the portability
of the resulting binaries (unless code relying on the extension is
carefully predicated on a CPUID test)?
Thanks!
--- End Message ---
--- Begin Message ---
Source: iqtree
Source-Version: 1.4.2+dfsg-1
We believe that the bug you reported is fixed in the latest version of
iqtree, 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.
Andreas Tille <[email protected]> (supplier of updated iqtree 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: Wed, 29 Jun 2016 13:38:33 +0200
Source: iqtree
Binary: iqtree
Architecture: source amd64
Version: 1.4.2+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Description:
iqtree - efficient phylogenetic software by maximum likelihood
Closes: 813436 813437 813438
Changes:
iqtree (1.4.2+dfsg-1) unstable; urgency=medium
.
[ Andreas Tille ]
* New upstream version
* Use repack,compression=xz in d/watch instead of adding get-orig-source to
d/rules
* Do not use -m32 and -msse3 flags
Closes: #813436
* Do not append 32 to binary name if build on 32bit architecture
Closes: #813437
* Restrict binary to intel architecture
Closes: #813438
* cme fix dpkg-control
* hardening=+all
.
[ Christian Seiler ]
* debian/rules:
- parallel build
- use variants to more elegantly build serial and omp executable
- fix build time test
* debian/patches/sse.patch
- fix PLL_BYTE_ALIGNMENT to work around pll bug
- fix SSE patch to properly build on amd64 and i386
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