Your message dated Tue, 06 Oct 2015 09:37:41 +0000
with message-id <e1zjogn-0005jt...@franck.debian.org>
and subject line Bug#800794: fixed in python-pysam 0.8.3+ds1-3
has caused the Debian Bug report #800794,
regarding python-pysam: FTBFS on multiple archs due to cython error
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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--
800794: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800794
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: python-pysam
Version: 0.8.3+ds1-2
Severity: serious
Justification: fails to build from source (but built successfully in the past)
While rebuilding the package for the transition that adds python3.5 as a
supported python3 version it FTBFS on muliple archs. Here's an example
log excerpt from ppc64el:
pysam/cbcf.c: At top level:
pysam/cbcf.c:47536:67: error: unknown type name ‘htsFormatCategory’
static CYTHON_INLINE PyObject*
__Pyx_PyInt_From_htsFormatCategory(htsFormatCategory value) {
^
pysam/cbcf.c:47562:64: error: unknown type name ‘htsExactFormat’
static CYTHON_INLINE PyObject* __Pyx_PyInt_From_htsExactFormat(htsExactFormat
value) {
^
pysam/cbcf.c:47614:64: error: unknown type name ‘htsCompression’
static CYTHON_INLINE PyObject* __Pyx_PyInt_From_htsCompression(htsCompression
value) {
^
error: command 'powerpc64le-linux-gnu-gcc' failed with exit status 1
E: pybuild pybuild:262: build: plugin distutils failed with: exit code=1:
/usr/bin/python setup.py build
dh_auto_build: pybuild --build -i python{version} -p 2.7 --dir . returned exit
code 13
debian/rules:17: recipe for target 'build-arch' failed
make: *** [build-arch] Error 25
It seems unrelated to python3.5.
Scott K
--- End Message ---
--- Begin Message ---
Source: python-pysam
Source-Version: 0.8.3+ds1-3
We believe that the bug you reported is fixed in the latest version of
python-pysam, 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 800...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Afif Elghraoui <a...@ghraoui.name> (supplier of updated python-pysam 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 ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Tue, 06 Oct 2015 00:57:19 -0700
Source: python-pysam
Binary: python-pysam python3-pysam python-pysam-tests
Architecture: source all amd64
Version: 0.8.3+ds1-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Afif Elghraoui <a...@ghraoui.name>
Description:
python-pysam - interface for the SAM/BAM sequence alignment and mapping format
(
python-pysam-tests - interface for the SAM/BAM sequence alignment and mapping
format (
python3-pysam - interface for the SAM/BAM sequence alignment and mapping
format (
Closes: 800794
Changes:
python-pysam (0.8.3+ds1-3) unstable; urgency=medium
.
* Backport upstream commit 6efb22b to permit building with Cython 0.23.x
(Closes: 800794)
* Revise lintian overrides.
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Files:
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python-pysam-tests_0.8.3+ds1-3_all.deb
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python-pysam_0.8.3+ds1-3_amd64.deb
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python3-pysam_0.8.3+ds1-3_amd64.deb
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