[Debian-med-packaging] Bug#916262: staden-io-lib: data/xx#unsorted.sam fails randomly

[Adrian Bunk]

Source: staden-io-lib
Version: 1.14.11-5
Severity: serious
Tags: ftbfs
Control: block 912272 by -1

https://buildd.debian.org/status/package.php?p=staden-io-lib
https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/staden-io-lib.html

...
=== testing ./data/xx#unsorted.sam ===
 ../progs/scramble  ./data/xx#unsorted.sam test.out/xx#unsorted.bam
 ../progs/scramble  -r ./data/xx.fa test.out/xx#unsorted.bam test.out/xx#unsorted.full.cram
 ../progs/scramble  test.out/xx#unsorted.bam > test.out/tmp.sam
 ../progs/scramble  test.out/xx#unsorted.full.cram > test.out/xx#unsorted.full.sam
 ../progs/scramble  -O bam test.out/xx#unsorted.full.cram > test.out/xx#unsorted.full.bam
 ../progs/scramble  test.out/xx#unsorted.full.bam test.out/tmp.sam
./compare_sam.pl --nopg test.out/xx#unsorted.full.sam test.out/xx#unsorted.full.bam.sam
 ../progs/scramble  -x -r ./data/xx.fa test.out/xx#unsorted.bam test.out/xx#unsorted.full.cram
 ../progs/scramble  test.out/xx#unsorted.full.cram > test.out/xx#unsorted.full.sam
./compare_sam.pl --unknownrg ./data/xx#unsorted.sam test.out/xx#unsorted.full.bam.sam

../progs/scramble -H -r ./data/ce.fa test.out/ce#sorted.full.cram
No region:               1024176
FAIL: scram.test
...
=== testing ./data/xx#unsorted.sam ===
 ../progs/scramble -t4 ./data/xx#unsorted.sam test.out/xx#unsorted.bam
 ../progs/scramble -t4 -r ./data/xx.fa test.out/xx#unsorted.bam test.out/xx#unsorted.full.cram
 ../progs/scramble -t4 test.out/xx#unsorted.bam > test.out/tmp.sam
 ../progs/scramble -t4 test.out/xx#unsorted.full.cram > test.out/xx#unsorted.full.sam
 ../progs/scramble -t4 -O bam test.out/xx#unsorted.full.cram > test.out/xx#unsorted.full.bam
 ../progs/scramble -t4 test.out/xx#unsorted.full.bam test.out/tmp.sam
./compare_sam.pl --nopg test.out/xx#unsorted.full.sam test.out/xx#unsorted.full.bam.sam
 ../progs/scramble -t4 -x -r ./data/xx.fa test.out/xx#unsorted.bam test.out/xx#unsorted.full.cram
 ../progs/scramble -t4 test.out/xx#unsorted.full.cram > test.out/xx#unsorted.full.sam
./compare_sam.pl --unknownrg ./data/xx#unsorted.sam test.out/xx#unsorted.full.bam.sam

../progs/scramble -t4 -H -r ./data/ce.fa test.out/ce#sorted.full.cram
No region:               1024176
FAIL: scram_mt.test
...


data/xx#unsorted.sam seems to fail randomly, with failures and passes
seen on the same architecture (including amd64).