[Debian-med-packaging] Bug#912451: staden-io-lib FTBFS on !x86: test failures

[Andreas Tille]

Control: tags -1 forwarded James Bonfield <jkb at sanger.ac.uk>

Hi James,

version 1.14.11 of staden-io-lib creates an error in the test suite for non x86
architectures.  Here you have an easy overview what architectures are affected:

   https://buildd.debian.org/status/package.php?p=staden-io-lib&suite=sid

and this is basically the failure.  Do you have any idea how to fix this?

...
FAIL: scram
===========

Loading ce.fa
Generating ce#sorted.sam
Generating ce#unsorted.sam
=== testing ./data/c1#bounds.sam ===
./scram.test: 27: [: ./data/c1#bounds.sam: unexpected operator
 ../progs/scramble  ./data/c1#bounds.sam test.out/c1#bounds.sam
 ../progs/scramble  -r ./data/c1.fa ./data/c1#bounds.sam test.out/c1#bounds.full.cram
 ../progs/scramble  ./data/c1#bounds.sam > test.out/tmp.sam
 ../progs/scramble  test.out/c1#bounds.full.cram > test.out/c1#bounds.full.sam
 ../progs/scramble  -O bam test.out/c1#bounds.full.cram > test.out/c1#bounds.full.bam
 ../progs/scramble  test.out/c1#bounds.full.bam test.out/tmp.sam
corrupted size vs. prev_size
Aborted
FAIL scram.test (exit status: 1)

FAIL: scram_mt
==============

=== testing ./data/c1#bounds.sam ===
./scram.test: 27: [: ./data/c1#bounds.sam: unexpected operator
 ../progs/scramble -t4 ./data/c1#bounds.sam test.out/c1#bounds.sam
 ../progs/scramble -t4 -r ./data/c1.fa ./data/c1#bounds.sam test.out/c1#bounds.full.cram
 ../progs/scramble -t4 ./data/c1#bounds.sam > test.out/tmp.sam
 ../progs/scramble -t4 test.out/c1#bounds.full.cram > test.out/c1#bounds.full.sam
 ../progs/scramble -t4 -O bam test.out/c1#bounds.full.cram > test.out/c1#bounds.full.bam
 ../progs/scramble -t4 test.out/c1#bounds.full.bam test.out/tmp.sam
corrupted size vs. prev_size
Aborted
FAIL scram_mt.test (exit status: 1)

============================================================================
Testsuite summary for io_lib 1.14.11
============================================================================
# TOTAL: 9
# PASS:  7
# SKIP:  0
# XFAIL: 0
# FAIL:  2
# XPASS: 0
# ERROR: 0
============================================================================
See tests/test-suite.log
============================================================================
make[4]: *** [Makefile:716: test-suite.log] Error 1



Kind regards

      Andreas.

-- 
http://fam-tille.de