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fix path to symbolic links

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MaxUlysse 2022-06-08 11:46:45 +02:00
parent 4935bb98cb
commit 07eff4346f
1 changed files with 1 additions and 1 deletions
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modules/tiddit/sv/main.nf
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@ -24,7 +24,7 @@ process TIDDIT_SV {
def args = task.ext.args ?: '' def args = task.ext.args ?: ''
def prefix = task.ext.prefix ?: "${meta.id}" def prefix = task.ext.prefix ?: "${meta.id}"
""" """
[[ -d $bwa_index ]] && for i in $bwa_index/*; do [[ -f $fasta && ! "\$i" =~ .*"$fasta".* ]] && ln -s $bwa_index/\$i ${fasta}.\${i##*.} || ln -s $bwa_index/\$i \$i; done [[ -d $bwa_index ]] && for i in $bwa_index/*; do [[ -f $fasta && ! "\$i" =~ .*"$fasta".* ]] && ln -s \$i ${fasta}.\${i##*.} || ln -s \$i .; done
tiddit \\ tiddit \\
--sv \\ --sv \\