Your message dated Wed, 22 Jul 2020 20:42:49 +0000
with message-id <[email protected]>
and subject line Bug#957679: fixed in phyml 3:3.3.20200621-1
has caused the Debian Bug report #957679,
regarding phyml: ftbfs with GCC-10
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.)
--
957679: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=957679
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: src:phyml
Version: 3:3.3.20190909-1
Severity: normal
Tags: sid bullseye
User: [email protected]
Usertags: ftbfs-gcc-10
Please keep this issue open in the bug tracker for the package it
was filed for. If a fix in another package is required, please
file a bug for the other package (or clone), and add a block in this
package. Please keep the issue open until the package can be built in
a follow-up test rebuild.
The package fails to build in a test rebuild on at least amd64 with
gcc-10/g++-10, but succeeds to build with gcc-9/g++-9. The
severity of this report will be raised before the bullseye release,
so nothing has to be done for the buster release.
The full build log can be found at:
http://people.debian.org/~doko/logs/gcc10-20200225/phyml_3.3.20190909-1_unstable_gcc10.log
The last lines of the build log are at the end of this report.
To build with GCC 10, either set CC=gcc-10 CXX=g++-10 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.
apt-get -t=experimental install g++
Common build failures are new warnings resulting in build failures with
-Werror turned on, or new/dropped symbols in Debian symbols files.
For other C/C++ related build failures see the porting guide at
http://gcc.gnu.org/gcc-10/porting_to.html
[...]
/usr/bin/ld: bionj.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: bionj.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: models.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: models.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: free.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: free.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: help.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: help.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: simu.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: simu.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: eigen.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: eigen.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: pars.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: pars.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: alrt.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: alrt.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: interface.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: interface.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: cl.o:(.bss+0x0): multiple definition of `TIME'; main.o:(.bss+0x0):
first defined here
/usr/bin/ld: cl.o:(.bss+0x4): multiple definition of `CALL'; main.o:(.bss+0x4):
first defined here
/usr/bin/ld: spr.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: spr.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: draw.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: draw.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: stats.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: stats.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: rates.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: rates.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: mcmc.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: mcmc.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: times.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: times.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: tiporder.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: tiporder.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: m4.o:(.bss+0x0): multiple definition of `TIME'; main.o:(.bss+0x0):
first defined here
/usr/bin/ld: m4.o:(.bss+0x4): multiple definition of `CALL'; main.o:(.bss+0x4):
first defined here
/usr/bin/ld: io.o:(.bss+0x0): multiple definition of `TIME'; main.o:(.bss+0x0):
first defined here
/usr/bin/ld: io.o:(.bss+0x4): multiple definition of `CALL'; main.o:(.bss+0x4):
first defined here
/usr/bin/ld: make.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: make.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: nexus.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: nexus.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: init.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: init.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: xml.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: xml.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: date.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: date.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: sse.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: sse.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: avx.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: avx.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: tbe.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: tbe.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: ancestral.o:(.bss+0x0): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: ancestral.o:(.bss+0x4): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
/usr/bin/ld: mixt.o:(.bss+0x4): multiple definition of `TIME';
main.o:(.bss+0x0): first defined here
/usr/bin/ld: mixt.o:(.bss+0x8): multiple definition of `CALL';
main.o:(.bss+0x4): first defined here
collect2: error: ld returned 1 exit status
make[4]: *** [Makefile:1664: phyml] Error 1
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[3]: *** [Makefile:369: all-recursive] Error 1
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
make[2]: *** [Makefile:310: all] Error 2
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build: error: make -j4 "LDFLAGS=-Wl,-z,relro -Wl,-z,now" returned exit
code 2
make[1]: *** [debian/rules:25: override_dh_auto_build] Error 25
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:13: build] Error 2
dpkg-buildpackage: error: debian/rules build subprocess returned exit status 2
--- End Message ---
--- Begin Message ---
Source: phyml
Source-Version: 3:3.3.20200621-1
Done: Shayan Doust <[email protected]>
We believe that the bug you reported is fixed in the latest version of
phyml, 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.
Shayan Doust <[email protected]> (supplier of updated phyml 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, 22 Jul 2020 16:25:36 +0000
Source: phyml
Architecture: source
Version: 3:3.3.20200621-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Shayan Doust <[email protected]>
Closes: 957679
Changes:
phyml (3:3.3.20200621-1) unstable; urgency=medium
.
* Team upload
* New upstream version 3.3.20200621 (Closes: #957679)
* Standards-Version: 4.5.0 (routine-update)
* debhelper-compat 13 (routine-update)
* Add salsa-ci file (routine-update)
* Rules-Requires-Root: no (routine-update)
* Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,
Repository-Browse.
Checksums-Sha1:
4688b99f3bb1bcf3da512baf641b48ea5773ed82 2094 phyml_3.3.20200621-1.dsc
df6cc658a1733806b9c467e82f152b2fff6cd5bd 2235154 phyml_3.3.20200621.orig.tar.gz
5c941bc6c685697b7bb553250de3781f20437df5 17296
phyml_3.3.20200621-1.debian.tar.xz
489c081049194b80e0fb850f669d52af31029e00 7600
phyml_3.3.20200621-1_amd64.buildinfo
Checksums-Sha256:
59bd2bc64f2e6babb9f976a6bd867ed3b49a6a095dca875934e89e5b9a748b35 2094
phyml_3.3.20200621-1.dsc
a8243923ee08c74cab609a4b086ade66c6156fc2b24450e2a500108dc644c867 2235154
phyml_3.3.20200621.orig.tar.gz
4a634ce483f68a707ddbc8a215cf5b2701e3671dbf7bf8f6dcff3b9376e6b2a7 17296
phyml_3.3.20200621-1.debian.tar.xz
a257d558d903f5cdb2284cc5db131523e582393bba772befee1d868dd13a5e79 7600
phyml_3.3.20200621-1_amd64.buildinfo
Files:
77a377207f9460c997d0bc298b9027eb 2094 science optional phyml_3.3.20200621-1.dsc
12622e111c388bcb16696660033143b5 2235154 science optional
phyml_3.3.20200621.orig.tar.gz
877a070edeb3e61e0eab3a92afdeff3c 17296 science optional
phyml_3.3.20200621-1.debian.tar.xz
b8713f92a27c5966e8fc7a909943c857 7600 science optional
phyml_3.3.20200621-1_amd64.buildinfo
-----BEGIN PGP SIGNATURE-----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=GwfW
-----END PGP SIGNATURE-----
--- End Message ---
