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Verified Commit 5aaa2669 authored by Laurent Modolo's avatar Laurent Modolo
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kallisto: add verbose to indexing.nf

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src/nf_modules/kallisto/indexing.nf
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...@@ -10,6 +10,7 @@ Channel ...@@ -10,6 +10,7 @@ Channel
process index_fasta { process index_fasta {
tag "$fasta.baseName" tag "$fasta.baseName"
publishDir "results/mapping/index/", mode: 'copy' publishDir "results/mapping/index/", mode: 'copy'
echo true
input: input:
file fasta from fasta_file file fasta from fasta_file
...@@ -20,6 +21,7 @@ process index_fasta { ...@@ -20,6 +21,7 @@ process index_fasta {
script: script:
""" """
pwd
kallisto index -k 31 --make-unique -i ${fasta.baseName}.index ${fasta} \ kallisto index -k 31 --make-unique -i ${fasta.baseName}.index ${fasta} \
2> ${fasta.baseName}_kallisto_report.txt 2> ${fasta.baseName}_kallisto_report.txt
""" """
......
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