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Segmentation fault and core dump #70

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carlyraea opened this issue Oct 4, 2018 · 1 comment
Open

Segmentation fault and core dump #70

carlyraea opened this issue Oct 4, 2018 · 1 comment

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@carlyraea
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Hello- I'm getting this error repeatedly with the same script/type of data that has worked in the past. Others point out that segfaults tend to have to do with access or memory issues, but those are definitely not the problem here. Does anyone have a fix?

#error
var/spool/slurmd/job1288332/slurm_script: line 13: 41261 Segmentation fault
(core dumped) /projects/caan8813/software/fastq-multx/fastq-multx -B
/projects/caan8813/data/jw_cas_plate_barcodes.txt
/scratch/summit/caan8813/noadapt_justin_carly_plate.fastq -o
carly_justin_demux_%.fq

#my script
cd /projects/caan8813/data

/projects/caan8813/software/fastq-multx/fastq-multx -B /projects/caan8813/data/jw_cas_plate_barcodes.txt /scratch/summit/caan8813/noadapt_justin_carly_plate.fastq -o carly_justin_demux_%.fq

#my data
@NB501447:361:HMH5TBGX7:1:11101:4015:1057 1:N:0:1
TGAGANTCAAAAAGAGATTGCTGGCATTCAGTCGGCGACTTNACGCCAGAATACGAAAGACCAGGTATATGCACAAAATGAGATGCTTGCTT
+
AAAAA#EEEEEEEEEEEEE/EEEEEEEEEEEEEEEEEAEEE#AEEEEEEEEEEEEEEEEAEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE
@NB501447:361:HMH5TBGX7:1:11101:14166:1057 1:N:0:1
TTTCTNATGAGTCGAAAAATTATCTTGATAAAGCAGGAATTNCTACTGCTTGTTTACGAATTAAATCGAAGTGGACTGCTGGCGGAAAATGA
+
AAAAA#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE
@NB501447:361:HMH5TBGX7:1:11101:2740:1057 1:N:0:1
TCGCCNTAGTCAATTCAGGCAAACTTCATATCTGTCTCCCTNCATATGTATTGATCATCCTCAATAC
+
AAAAA#EEEEEEEEEEEEEEEEEEEEEAEEEEEEEEEEEEE#EEEEEEEEEEE/EE/EEEEEAAEAE
@NB501447:361:HMH5TBGX7:1:11101:20650:1057 1:N:0:1
GTAGGNAGATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAANGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+
AAAAA#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEAE#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE
@NB501447:361:HMH5TBGX7:1:11101:14697:1057 1:N:0:1
GTAGGNAGATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAANGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+
AAAAA#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE/#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE<EEEEEEEEEEEE
@NB501447:361:HMH5TBGX7:1:11101:6096:1057 1:N:0:1
AATGCNTCTCAATTTTAAAAAAAAAAAAAAAAGAGAGAATANTAGATCTTCCTACAGAGCGGAAGAGGGCGTATGCCGGCGTGGGCTTGAAA
+
AAAAA#/EAAEE6EA/EEEEEEEEEEEEEEEE/E/E//E/A#A////6E/E///A/////A6EE//////////<A////////A///////

@Subc0mandante
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Hello carlyraea, were you able to find out what was the problem? :)

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