Your message dated Mon, 31 Aug 2026 13:19:21 +0000
with message-id <[email protected]>
and subject line Bug#1145650: fixed in vienna-rna 2.7.2+dfsg-1
has caused the Debian Bug report #1145650,
regarding vienna-rna: FTBFS: RNA_wrap.cpp:14520:32: error:
'PyString_FromString' was not declared in this scope; did you mean
'PyLong_FromString'?
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.)
--
1145650: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1145650
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: src:vienna-rna
Version: 2.7.0+dfsg-2
Severity: serious
Tags: ftbfs forky sid
Dear maintainer:
During a rebuild of all packages in unstable, this package failed to build.
Below you will find the last part of the build log (probably the most
relevant part, but not necessarily). If required, the full build log
is available here:
https://people.debian.org/~sanvila/build-logs/202608/
About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.
If you cannot reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.
If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:vienna-rna, so that this is still
visible in the BTS web page for this package.
Thanks.
--------------------------------------------------------------------------------
[...]
/bin/bash ../../libtool --tag=CXX --mode=compile x86_64-linux-gnu-g++
-std=c++17 -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/python3.14
-DVRNA_WITH_NAVIEW_LAYOUT -DVRNA_LOG_NO_DEBUG_RNALIB -I../../src -Wdate-time
-D_FORTIFY_SOURCE=2 -fno-strict-aliasing -flto=auto -ffat-lto-objects -fopenmp
-pthread -Wno-unused-label -Wno-unused-variable -I/usr/include/json-c/
-I/usr/include/libsvm/ -c -o _RNA_la-RNA_wrap.lo `test -f 'RNA_wrap.cpp' ||
echo './'`RNA_wrap.cpp
libtool: compile: x86_64-linux-gnu-g++ -std=c++17 -DHAVE_CONFIG_H -I. -I../..
-I/usr/include/python3.14 -DVRNA_WITH_NAVIEW_LAYOUT -DVRNA_LOG_NO_DEBUG_RNALIB
-I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fno-strict-aliasing -flto=auto
-ffat-lto-objects -fopenmp -pthread -Wno-unused-label -Wno-unused-variable
-I/usr/include/json-c/ -I/usr/include/libsvm/ -c RNA_wrap.cpp -fPIC -DPIC -o
.libs/_RNA_la-RNA_wrap.o
RNA_wrap.cpp: In function 'void python_wrap_subopt_cb(const char*, float,
void*)':
RNA_wrap.cpp:14520:32: error: 'PyString_FromString' was not declared in this
scope; did you mean 'PyLong_FromString'?
14520 | py_structure = (structure) ? PyString_FromString(structure) : Py_None;
| ^~~~~~~~~~~~~~~~~~~
| PyLong_FromString
RNA_wrap.cpp: In function 'void python_wrap_bs_cb(const char*, void*)':
RNA_wrap.cpp:14605:32: error: 'PyString_FromString' was not declared in this
scope; did you mean 'PyLong_FromString'?
14605 | py_structure = (structure) ? PyString_FromString(structure) : Py_None;
| ^~~~~~~~~~~~~~~~~~~
| PyLong_FromString
RNA_wrap.cpp: In function 'void python_wrap_mfe_window_cb(unsigned int,
unsigned int, const char*, float, void*)':
RNA_wrap.cpp:14706:19: error: 'PyString_FromString' was not declared in this
scope; did you mean 'PyLong_FromString'?
14706 | py_structure = PyString_FromString(structure);
| ^~~~~~~~~~~~~~~~~~~
| PyLong_FromString
RNA_wrap.cpp: In function 'PyObject* _wrap_circalifold__SWIG_2(PyObject*,
Py_ssize_t, PyObject**)':
RNA_wrap.cpp:71854:19: error: 'PyString_AsString' was not declared in this scope
71854 | arg1[i] = PyString_AsString(PyUnicode_AsASCIIString(o));
| ^~~~~~~~~~~~~~~~~
RNA_wrap.cpp: In function 'PyObject* Swig_var_symbolset_get()':
RNA_wrap.cpp:77322:13: error: 'SWIG_Python_str_FromChar' was not declared in
this scope
77322 | pyobj = SWIG_Python_str_FromChar((const char *)symbolset);
| ^~~~~~~~~~~~~~~~~~~~~~~~
RNA_wrap.cpp: In function 'PyObject*
_wrap_extract_record_rest_structure(PyObject*, PyObject*, PyObject*)':
RNA_wrap.cpp:78847:19: error: 'PyString_AsString' was not declared in this scope
78847 | arg1[i] = PyString_AsString(PyUnicode_AsASCIIString(o));
| ^~~~~~~~~~~~~~~~~
RNA_wrap.cpp: In function 'PyObject* _wrap_read_record(PyObject*, PyObject*,
PyObject*)':
RNA_wrap.cpp:78920:19: error: 'PyString_AsString' was not declared in this scope
78920 | arg1[i] = PyString_AsString(PyUnicode_AsASCIIString(o));
| ^~~~~~~~~~~~~~~~~
RNA_wrap.cpp:78942:19: error: 'PyString_AsString' was not declared in this scope
78942 | arg2[i] = PyString_AsString(PyUnicode_AsASCIIString(o));
| ^~~~~~~~~~~~~~~~~
RNA_wrap.cpp: In function 'PyObject* _wrap_get_multi_input_line(PyObject*,
PyObject*, PyObject*)':
RNA_wrap.cpp:79015:19: error: 'PyString_AsString' was not declared in this scope
79015 | arg1[i] = PyString_AsString(PyUnicode_AsASCIIString(o));
| ^~~~~~~~~~~~~~~~~
make[5]: *** [Makefile:870: _RNA_la-RNA_wrap.lo] Error 1
make[5]: Leaving directory '/<<PKGBUILDDIR>>/interfaces/Python'
make[4]: *** [Makefile:684: all-recursive] Error 1
make[4]: Leaving directory '/<<PKGBUILDDIR>>/interfaces'
make[3]: *** [Makefile:745: all-recursive] Error 1
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
make[2]: *** [Makefile:626: all] Error 2
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build: error: make -j1 returned exit code 2
make[1]: *** [debian/rules:25: override_dh_auto_build] Error 25
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:5: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess failed with exit
status 2
--------------------------------------------------------------------------------
--- End Message ---
--- Begin Message ---
Source: vienna-rna
Source-Version: 2.7.2+dfsg-1
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
vienna-rna, 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 vienna-rna 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: Mon, 31 Aug 2026 14:32:08 +0200
Source: vienna-rna
Binary: librna-perl python3-rna python3-rna-dbgsym vienna-rna vienna-rna-dbgsym
Architecture: source amd64
Version: 2.7.2+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Description:
librna-perl - ViennaRNA perl wrappers
python3-rna - ViennaRNA Python wrappers
vienna-rna - RNA sequence analysis
Closes: 1145650
Changes:
vienna-rna (2.7.2+dfsg-1) unstable; urgency=medium
.
* Team upload.
.
[ Rafael Laboissière ]
* Add patch for fixing FTBFS with swig 4.5.0 (Closes: #1145650)
.
[ Andreas Tille ]
* d/watch: version=5
* New upstream version
* Standards-Version: 4.7.4 (routine-update)
* Reflow Uploaders field (cme)
* Remove trailing whitespace in debian/copyright (routine-update)
* Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update)
* Remove patch add_shared_library that is missing from debian/patches/series.
* Reformat the Last-Update date as ISO YYYY-MM-DD.
* Remove listed license files (src/RNAforester/g2-0.72/COPYING) from
copyright.
* Replace FSF postal address with a reference to
https://www.gnu.org/licenses/.
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