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Verified Commit 01dac1f9 authored by Laurent Modolo's avatar Laurent Modolo
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fastqdump.nf: force tmp file to be in the right place

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......@@ -33,6 +33,7 @@ process fastq_dump {
script:
"""
HOME=\$(pwd) # ensure that fastq dump tmp file are in the right place
#for test only 10000 reads are downloading with the option -N 10000 -X 20000
fastq-dump --split-files --defline-seq '@\$ac_\$si/\$ri' --defline-qual "+" -N 10000 -X 20000 ${file_id}
if [ -f ${file_id}_1.fastq ]
......
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