Your message dated Thu, 21 Oct 2021 19:18:59 +0000
with message-id <[email protected]>
and subject line Bug#984018: fixed in clonalorigin 1.0-6
has caused the Debian Bug report #984018,
regarding clonalorigin: ftbfs with GCC-11
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.)
--
984018: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=984018
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: src:clonalorigin
Version: 1.0-4
Severity: normal
Tags: sid bookworm
User: [email protected]
Usertags: ftbfs-gcc-11
[This bug is not targeted to the upcoming bullseye release]
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-11/g++-11, but succeeds to build with gcc-10/g++-10. The
severity of this report will be raised before the bookworm release,
so nothing has to be done for the bullseye release.
The full build log can be found at:
http://people.debian.org/~doko/logs/20210228/filtered/gcc11/clonalorigin_1.0-4_unstable_gcc11.log
The last lines of the build log are at the end of this report.
To build with GCC 11, either set CC=gcc-11 CXX=g++-11 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-11/porting_to.html
GCC 11 defaults to the GNU++17 standard. If your package installs
header files in /usr/include, please don't work around C++17 issues
by choosing a lower C++ standard for the package build, but fix these
issues to build with the C++17 standard.
[...]
1826 | max() _GLIBCXX_USE_NOEXCEPT { return __LDBL_MAX__; }
| ^~~
/usr/include/c++/11/limits:1826:7: error: expected ‘;’ at end of member
declaration
1826 | max() _GLIBCXX_USE_NOEXCEPT { return __LDBL_MAX__; }
| ^~~
| ;
In file included from /usr/include/c++/11/cstdlib:41,
from /usr/include/c++/11/stdlib.h:36,
from /usr/include/gsl/gsl_rng.h:22,
from rng.h:4,
from rng.cpp:1:
/usr/include/c++/11/limits:1826:13: error: expected unqualified-id before
‘noexcept’
1826 | max() _GLIBCXX_USE_NOEXCEPT { return __LDBL_MAX__; }
| ^~~~~~~~~~~~~~~~~~~~~
In file included from rng.cpp:1:
/usr/include/c++/11/tr1/bessel_function.tcc: In function ‘void
std::__detail::__bessel_jn(_Tp, _Tp, _Tp&, _Tp&, _Tp&, _Tp&)’:
rng.h:13:18: error: expected unqualified-id before ‘(’ token
13 | #define max(a,b) ((a) >= (b) ? (a) : (b))
| ^
/usr/include/c++/11/tr1/ell_integral.tcc: In function ‘_Tp
std::__detail::__ellint_rf(_Tp, _Tp, _Tp)’:
rng.h:13:18: error: expected unqualified-id before ‘(’ token
13 | #define max(a,b) ((a) >= (b) ? (a) : (b))
| ^
rng.h:13:18: error: expected unqualified-id before ‘(’ token
13 | #define max(a,b) ((a) >= (b) ? (a) : (b))
| ^
/usr/include/c++/11/tr1/ell_integral.tcc: In function ‘_Tp
std::__detail::__ellint_rd(_Tp, _Tp, _Tp)’:
rng.h:13:18: error: expected unqualified-id before ‘(’ token
13 | #define max(a,b) ((a) >= (b) ? (a) : (b))
| ^
rng.h:13:18: error: expected unqualified-id before ‘(’ token
13 | #define max(a,b) ((a) >= (b) ? (a) : (b))
| ^
/usr/include/c++/11/tr1/ell_integral.tcc: In function ‘_Tp
std::__detail::__ellint_rj(_Tp, _Tp, _Tp, _Tp)’:
rng.h:13:18: error: expected unqualified-id before ‘(’ token
13 | #define max(a,b) ((a) >= (b) ? (a) : (b))
| ^
rng.h:13:18: error: expected unqualified-id before ‘(’ token
13 | #define max(a,b) ((a) >= (b) ? (a) : (b))
| ^
rng.h:13:18: error: expected unqualified-id before ‘(’ token
13 | #define max(a,b) ((a) >= (b) ? (a) : (b))
| ^
data.cpp: In constructor ‘weakarg::Data::Data(std::string)’:
data.cpp:50:40: warning: comparison of integer expressions of different
signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
50 | }else if(getNumber(tmpname)!=which){
| ~~~~~~~~~~~~~~~~~~^~~~~~~
data.cpp: In member function ‘void weakarg::Data::subset(std::vector<int>,
int)’:
data.cpp:169:14: warning: suggest parentheses around ‘&&’ within ‘||’
[-Wparentheses]
169 | if (num<=0 &&seed>=0 || num<0) return;
| ~~~~~~~^~~~~~~~~
data.cpp:177:18: warning: comparison of integer expressions of different
signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’}
[-Wsign-compare]
177 | for(int i=0;i<numv.size();i++) if(numv[i]<tried.size()&&numv[i]>=0)
{if(!tried[numv[i]])
{regions.push_back(numv[i]);tried[numv[i]]=true;}else{cerr<<"Warning: Duplicate
blocks of "<<numv[i]<<" were specified and have been removed from the
analysis."<<endl;}}else{cerr<<"Warning: Invalid blocks were specified and have
been removed from the analysis."<<endl;}
| ~^~~~~~~~~~~~
data.cpp:177:46: warning: comparison of integer expressions of different
signedness: ‘__gnu_cxx::__alloc_traits<std::allocator<int>, int>::value_type’
{aka ‘int’} and ‘std::vector<bool>::size_type’ {aka ‘long unsigned int’}
[-Wsign-compare]
177 | for(int i=0;i<numv.size();i++) if(numv[i]<tried.size()&&numv[i]>=0)
{if(!tried[numv[i]])
{regions.push_back(numv[i]);tried[numv[i]]=true;}else{cerr<<"Warning: Duplicate
blocks of "<<numv[i]<<" were specified and have been removed from the
analysis."<<endl;}}else{cerr<<"Warning: Invalid blocks were specified and have
been removed from the analysis."<<endl;}
rng.cpp: In function ‘long unsigned int weakarg::seedrng(long unsigned int)’:
rng.cpp:40:14: warning: ignoring return value of ‘size_t fread(void*, size_t,
size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
40 | fread(&tseed,sizeof(tseed),1,devrandom);
| ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
make[3]: *** [Makefile:688: warg-rng.o] Error 1
make[3]: *** Waiting for unfinished jobs....
make[3]: Leaving directory '/<<PKGBUILDDIR>>/warg/src'
make[2]: *** [Makefile:523: all] Error 2
make[2]: Leaving directory '/<<PKGBUILDDIR>>/warg/src'
make[1]: *** [Makefile:349: all-recursive] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>/warg'
dh_auto_build: error: cd warg && make -j4 returned exit code 2
make: *** [debian/rules:12: binary] Error 25
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--- End Message ---
--- Begin Message ---
Source: clonalorigin
Source-Version: 1.0-6
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
clonalorigin, 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 clonalorigin 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: SHA512
Format: 1.8
Date: Thu, 21 Oct 2021 20:59:46 +0200
Source: clonalorigin
Architecture: source
Version: 1.0-6
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 984018
Changes:
clonalorigin (1.0-6) unstable; urgency=medium
.
* Fix build issue with gcc-11
Closes: #984018
* Enable uscan fetching a sensible filename
Checksums-Sha1:
f4cef874f704619d775adf4ea8b07c7e5293e214 1997 clonalorigin_1.0-6.dsc
21c5cad96af167c2712eeb93a794d23917c19a3e 8736 clonalorigin_1.0-6.debian.tar.xz
f72ad8e57c62192f54a61eb66f5b1d8f062e16a9 6133
clonalorigin_1.0-6_amd64.buildinfo
Checksums-Sha256:
693401baae2a051150d7fba8ab57b702bff554cfad264e6130f9f5ae9b21757f 1997
clonalorigin_1.0-6.dsc
8d30d10f26b0f3ecc8943e5908a7e7b921ce79a644215ba37653c9db59a1fbeb 8736
clonalorigin_1.0-6.debian.tar.xz
93ead2b49cc235010d6080f411a4aad8b403ae86bde4957c2229d5ab5f59752b 6133
clonalorigin_1.0-6_amd64.buildinfo
Files:
afb74e920ae850c4da1805355b9b2c24 1997 science optional clonalorigin_1.0-6.dsc
39fc9d35ba9d4f873dac18ea3ff193f6 8736 science optional
clonalorigin_1.0-6.debian.tar.xz
e707d75d65daf1db28e1db21e4ab0593 6133 science optional
clonalorigin_1.0-6_amd64.buildinfo
-----BEGIN PGP SIGNATURE-----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=QPPl
-----END PGP SIGNATURE-----
--- End Message ---
