Mercurial > repos > kkonganti > cfsan_centriflaken

changeset 62:770ce74dfc47

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"planemo upload"
author kkonganti
date Wed, 13 Jul 2022 13:03:50 -0400
parents 29fec32b8f47
children d1efe888e1ed
files cfsan_centriflaken.xml
diffstat 1 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/cfsan_centriflaken.xml	Wed Jul 13 12:59:20 2022 -0400
+++ b/cfsan_centriflaken.xml	Wed Jul 13 13:03:50 2022 -0400
@@ -54,8 +54,8 @@
 	--fq_filename_delim_idx $fq_filename_delim_idx
 	--centrifuge_extract_bug '${centrifuge_extract_bug}'
 	-profile kondagac;
-    mv './cpipes-output/${pipeline}-multiqc/multiqc_report.html' './multiqc_report.html' || exit 1;
-    mv './cpipes-output/${pipeline}-results/kraken2_extract_contigs' kraken2_extract_contigs || exit 1;
+    mv './cpipes-output/${input_read_type_cond.pipeline_cond.pipeline}-multiqc/multiqc_report.html' './multiqc_report.html' || exit 1;
+    mv './cpipes-output/${input_read_type_cond.pipeline_cond.pipeline}-results/kraken2_extract_contigs' kraken2_extract_contigs || exit 1;
     rm -rf ./cpipes-output || exit 1;
     rm -rf ./work || exit 1
     ]]></command>