Hi folks,
I stumbled upon the autopkgtests log of iva[1] which possibly uncovers
an issue in kmc since the log says:
...
The following command failed with exit code 1
/usr/bin/iva --threads 1 --trimmomatic /usr/share/java/trimmomatic.jar
--pcr_primers hiv_pcr_primers.fa -f reads_1.fq.gz -r reads_2.fq.gz iva.out
The output was:
The following command failed with exit code 139
bash run_kmc.sh
The output was:
run_kmc.sh: line 2: 5046 Segmentation fault kmc -fa -m4 -k95 -sf1 -ci25
-cs1000000 -cx1000000
/tmp/tmp.GkQzyocbDU/test/iva.out/tmp.common_kmers.8oo5afnl/reads.fa kmc_out
$PWD > /dev/null
Running iva in test mode...
...
There are more Segmentation faults in connection with kmc later.
I think a Segmentation fault is just not good. Is anybody up for
this issue?
Kind regards
Andreas.
[1] https://ci.debian.net/data/autopkgtest/unstable/arm64/i/iva/8016157/log.gz
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