[Debian-med-packaging] Bug#549427: Bug#549427: samtools 0.1.6~dfsg-1 FTBFS on sparc: bus error

[Charles Plessy]

severity 549427 whishlist
forwarded 549427 samtools-devel at lists.sourceforge.net
thanks

Le Sat, Oct 03, 2009 at 12:09:59PM +0200, Andreas Barth a écrit :
> Package: samtools
> Version: 0.1.6~dfsg-1
> Severity: serious
> 
> Hi,
> 
> this package FTBFS on sparc:
> 
> /usr/bin/make  -C . CFLAGS="-g -O2 -g -Wall -O2 -fPIC" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""  -C examples all
> make[1]: Entering directory `/build/buildd-samtools_0.1.6~dfsg-1-sparc-aGfAkY/samtools-0.1.6~dfsg/examples'
> ../samtools faidx ex1.fa
> ../samtools import ex1.fa.fai ex1.sam.gz ex1.bam
> [sam_header_read2] 2 sequences loaded.
> make[1]: *** [ex1.bam] Bus error
> make[1]: *** Deleting file `ex1.bam'
> make[1]: Leaving directory `/build/buildd-samtools_0.1.6~dfsg-1-sparc-aGfAkY/samtools-0.1.6~dfsg/examples'
> make: *** [debian/stamp-makefile-check] Error 2
> dpkg-buildpackage: error: debian/rules build gave error exit status 2
> 
> Please see
> https://buildd.debian.org/fetch.cgi?&pkg=samtools&ver=0.1.6%7Edfsg-1&arch=sparc&stamp=1254564365&file=log
> for the ful build log.

Dear sparc porters,

the samtools package contains a program that is intended to be use with large
biological datasets. It was never built with success on sparc, because the
regression tests I implemented (taken from Upstream's example directory) are
failing with a ‘Bus error‘. I just reported this on the upstream mailing list.
Please let me know or contact Upstream directly if you have interest to work on
this issue.

Have a nice day,

-- 
Charles Plessy
Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan