Your message dated Sat, 26 Aug 2017 05:19:38 +0000
with message-id <[email protected]>
and subject line Bug#853621: fixed in primer3 2.3.7-4
has caused the Debian Bug report #853621,
regarding primer3: ftbfs with GCC-7
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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--
853621: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=853621
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: src:primer3
Version: 2.3.7-3
Severity: normal
Tags: sid buster
User: [email protected]
Usertags: ftbfs-gcc-7
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-7/g++-7, but succeeds to build with gcc-6/g++-6. The
severity of this report may be raised before the buster release.
There is no need to fix this issue in time for the stretch release.
The full build log can be found at:
http://people.debian.org/~doko/logs/gcc7-20170126/primer3_2.3.7-3_unstable_gcc7.log
The last lines of the build log are at the end of this report.
To build with GCC 7, either set CC=gcc-7 CXX=g++-7 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-7/porting_to.html
[...]
if ('\0' == oligo_r) {
^~~~~~~
thal.c: In function 'void tableStartATS(double, double (*)[5])':
thal.c:1200:4: warning: this 'for' clause does not guard...
[-Wmisleading-indentation]
for (i = 0; i < 5; ++i)
^~~
thal.c:1203:6: note: ...this statement, but the latter is misleadingly indented
as if it were guarded by the 'for'
atpS[0][3] = atpS[3][0] = atp_value;
^~~~
thal.c: In function 'void tableStartATH(double, double (*)[5])':
thal.c:1212:4: warning: this 'for' clause does not guard...
[-Wmisleading-indentation]
for (i = 0; i < 5; ++i)
^~~
thal.c:1216:6: note: ...this statement, but the latter is misleadingly indented
as if it were guarded by the 'for'
atpH[0][3] = atpH[3][0] = atp_value;
^~~~
thal.c: In function 'void thal(const unsigned char*, const unsigned char*,
const thal_args*, thal_results*)':
thal.c:429:16: error: ISO C++ forbids comparison between pointer and integer
[-fpermissive]
if ('\0' == oligo_f) {
^~~~~~~
thal.c:434:16: error: ISO C++ forbids comparison between pointer and integer
[-fpermissive]
if ('\0' == oligo_r) {
^~~~~~~
thal.c: In function 'void tableStartATS(double, double (*)[5])':
thal.c:1200:4: warning: this 'for' clause does not guard...
[-Wmisleading-indentation]
for (i = 0; i < 5; ++i)
^~~
thal.c:1203:6: note: ...this statement, but the latter is misleadingly indented
as if it were guarded by the 'for'
atpS[0][3] = atpS[3][0] = atp_value;
^~~~
thal.c: In function 'void tableStartATH(double, double (*)[5])':
thal.c:1212:4: warning: this 'for' clause does not guard...
[-Wmisleading-indentation]
for (i = 0; i < 5; ++i)
^~~
thal.c:1216:6: note: ...this statement, but the latter is misleadingly indented
as if it were guarded by the 'for'
atpH[0][3] = atpH[3][0] = atp_value;
^~~~
Makefile:192: recipe for target 'thal_primer.o' failed
make[2]: *** [thal_primer.o] Error 1
make[2]: *** Waiting for unfinished jobs....
Makefile:183: recipe for target 'thal.o' failed
make[2]: *** [thal.o] Error 1
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
dh_auto_build: make -j64 CPP=$(CXX) returned exit code 2
debian/rules:14: recipe for target 'override_dh_auto_build' failed
make[1]: *** [override_dh_auto_build] Error 2
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules:11: recipe for target 'build' failed
make: *** [build] Error 2
dpkg-buildpackage: error: debian/rules build gave error exit status 2
--- End Message ---
--- Begin Message ---
Source: primer3
Source-Version: 2.3.7-4
We believe that the bug you reported is fixed in the latest version of
primer3, 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 primer3 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: Sat, 26 Aug 2017 06:55:03 +0200
Source: primer3
Binary: primer3 primer3-examples
Architecture: source amd64 all
Version: 2.3.7-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Description:
primer3 - tool to design flanking oligo nucleotides for DNA amplification
primer3-examples - tool to design flanking oligo nucleotides for DNA
amplification (
Closes: 853621
Changes:
primer3 (2.3.7-4) unstable; urgency=medium
.
* Fix build with gcc-7
Closes: #853621
* Standards-Version: 4.1.0 (no changes needed)
* d/rules: use DEB_SOURCE
* hardening=+all
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