Your message dated Mon, 03 Nov 2025 21:49:07 +0000
with message-id <[email protected]>
and subject line Bug#1119732: fixed in cyvcf2 0.31.4-1
has caused the Debian Bug report #1119732,
regarding cyvcf2: FTBFS: cyvcf2/cyvcf2.pyx:400:122: Unicode objects only
support coercion to Py_UNICODE*.
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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misconfiguration somewhere. Please contact [email protected]
immediately.)
--
1119732: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1119732
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: src:cyvcf2
Version: 0.31.1-2
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/202510/
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:cyvcf2, so that this is still
visible in the BTS web page for this package.
Thanks.
--------------------------------------------------------------------------------
[...]
debian/rules clean
dh clean --buildsystem=pybuild
dh_auto_clean -O--buildsystem=pybuild
pybuild --clean -i python{version} -p 3.13
I: pybuild base:311: python3.13 setup.py clean
Error compiling Cython file:
------------------------------------------------------------
...
number: str
valid VCF number
description: str
description of added line.
"""
ret = bcf_hdr_append(self.hdr,
"##INFO=<ID={id},Number={number},Type={type},Description=\"{description}\">".format(id=id,
type=type, number=number, description=description))
^
------------------------------------------------------------
cyvcf2/cyvcf2.pyx:400:122: Unicode objects only support coercion to Py_UNICODE*.
warning: cyvcf2/cyvcf2.pyx:1377:36: Assigning to 'char *' from 'const char *'
discards const qualifier
warning: cyvcf2/cyvcf2.pyx:2079:12: Assigning to 'bcf_hdr_t *' from 'const
bcf_hdr_t *' discards const qualifier
warning: cyvcf2/cyvcf2.pyx:2278:29: Assigning to 'char *' from 'const char *'
discards const qualifier
warning: cyvcf2/cyvcf2.pyx:2350:15: Assigning to 'bcf_hdr_t *' from 'const
bcf_hdr_t *' discards const qualifier
Compiling cyvcf2/cyvcf2.pyx because it changed.
[1/1] Cythonizing cyvcf2/cyvcf2.pyx
Traceback (most recent call last):
File "/<<PKGBUILDDIR>>/setup.py", line 270, in <module>
extensions = cythonize(extensions, compiler_directives=compiler_directives)
File "/usr/lib/python3/dist-packages/Cython/Build/Dependencies.py", line
1150, in cythonize
cythonize_one(*args)
~~~~~~~~~~~~~^^^^^^^
File "/usr/lib/python3/dist-packages/Cython/Build/Dependencies.py", line
1294, in cythonize_one
raise CompileError(None, pyx_file)
Cython.Compiler.Errors.CompileError: cyvcf2/cyvcf2.pyx
E: pybuild pybuild:389: clean: plugin distutils failed with: exit code=1:
python3.13 setup.py clean
dh_auto_clean: error: pybuild --clean -i python{version} -p 3.13 returned exit
code 13
make: *** [debian/rules:17: clean] Error 25
dpkg-buildpackage: error: debian/rules clean subprocess returned exit status 2
--------------------------------------------------------------------------------
--- End Message ---
--- Begin Message ---
Source: cyvcf2
Source-Version: 0.31.4-1
Done: Étienne Mollier <[email protected]>
We believe that the bug you reported is fixed in the latest version of
cyvcf2, 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.
Étienne Mollier <[email protected]> (supplier of updated cyvcf2 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, 03 Nov 2025 22:27:08 +0100
Source: cyvcf2
Architecture: source
Version: 0.31.4-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Étienne Mollier <[email protected]>
Closes: 1119732
Changes:
cyvcf2 (0.31.4-1) unstable; urgency=medium
.
* New upstream version 0.31.4 (Closes: #1119732)
* d/control: build depends on python3-numpy-dev.
* i386.patch: provide dep3 header.
* add_htslib_link_dependency.patch: dep3 header.
This change normalizes the Last-Update timestamp.
* d/watch: convert to v5 Github template.
* d/control: declare compliance to standards version 4.7.2.
* d/control: drop redundant Rules-Requires-Root: no.
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cyvcf2_0.31.4.orig.tar.gz
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cyvcf2_0.31.4-1.debian.tar.xz
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