Commit 166d78e0 authored by Tizian Schulz's avatar Tizian Schulz
Browse files

Skipped header when downloading reads

parent 3380e3aa
......@@ -150,7 +150,7 @@ rule downloadReadSets:
threads:
workflow.cores
output:
["arabidopsis/reads/" + basename(f) for l in open("arabidopsis/reads/filereport_read_run_PRJEB2457_tsv.txt", 'r') for f in l.split('\t')[6].split(';')]
["arabidopsis/reads/" + basename(f) for l in open("arabidopsis/reads/filereport_read_run_PRJEB2457_tsv.txt", 'r') for f in l.split('\t')[6].split(';') if f != "fastq_ftp"]
shell:
"wget $(python3 scripts/getReadLocations.py {input}); mv *.fastq.gz arabidopsis/reads"
......
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