Your message dated Wed, 27 Nov 2013 09:20:35 +0000
with message-id <e1vlbir-0000ln...@franck.debian.org>
and subject line Bug#730592: fixed in r-bioc-biostrings 2.30.1-1
has caused the Debian Bug report #730592,
regarding r-bioc-biostrings: FTBFS: error: unknown type name 'cachedCharSeq'
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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--
730592: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=730592
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: r-bioc-biostrings
Version: 2.28.0-1
Severity: serious
Hi,
r-bioc-biostrings FTBFS like this:
...
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG
-I"/usr/lib/R/site-library/IRanges/include" -fpic -O3 -pipe -g -c
BAB_class.c -o BAB_class.o
In file included from Biostrings.h:1:0,
from BAB_class.c:5:
../inst/include/Biostrings_defines.h:50:2: error: unknown type name
'cachedCharSeq'
../inst/include/Biostrings_defines.h:59:1: error: unknown type name
'cachedXVectorList'
In file included from BAB_class.c:5:0:
Biostrings.h:32:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:51:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:56:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:104:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:112:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:144:1: error: unknown type name 'cachedCharSeq'
Biostrings.h:514:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:515:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:526:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:527:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:535:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:536:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:577:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:578:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:591:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:592:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:604:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:605:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:617:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:618:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:627:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:628:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:947:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:958:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:977:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:1029:2: error: unknown type name 'cachedCharSeq'
Biostrings.h:1037:2: error: unknown type name 'cachedCharSeq'
make[1]: *** [BAB_class.o] Error 1
make[1]: Leaving directory `/«PKGBUILDDIR»/src'
make[1]: Entering directory `/«PKGBUILDDIR»/src'
make[1]: Leaving directory `/«PKGBUILDDIR»/src'
ERROR: compilation failed for package 'Biostrings'
* removing
'/«PKGBUILDDIR»/debian/r-bioc-biostrings/usr/lib/R/site-library/Biostrings'
make: *** [R_any_arch] Error 1
...
Roland
-- System Information:
Debian Release: 7.0
APT prefers unreleased
APT policy: (500, 'unreleased'), (500, 'unstable')
Architecture: powerpcspe (ppc)
Kernel: Linux 3.9.0-dirty (SMP w/2 CPU cores)
Locale: LANG=en_US.utf8, LC_CTYPE=en_US.utf8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
--- End Message ---
--- Begin Message ---
Source: r-bioc-biostrings
Source-Version: 2.30.1-1
We believe that the bug you reported is fixed in the latest version of
r-bioc-biostrings, 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 730...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <ti...@debian.org> (supplier of updated r-bioc-biostrings 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: SHA1
Format: 1.8
Date: Tue, 26 Nov 2013 22:35:09 +0100
Source: r-bioc-biostrings
Binary: r-bioc-biostrings
Architecture: source amd64
Version: 2.30.1-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Andreas Tille <ti...@debian.org>
Description:
r-bioc-biostrings - GNU R string objects representing biological sequences
Closes: 730592
Changes:
r-bioc-biostrings (2.30.1-1) unstable; urgency=low
.
* New upstream version
Closes: #730592
* debian/{control,copyright}: Fixed homepage
* Build-Depends: r-bioc-xvector
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r-bioc-biostrings_2.30.1-1.debian.tar.gz
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--- End Message ---
