Mercurial > repos > rliterman > csp2

diff csp2_screen.xml @ 36:f6cd698b6f62

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"planemo upload"
author rliterman
date Thu, 05 Dec 2024 18:09:26 -0500
parents 499342837ad7
children f62b9bcf7cf3
line wrap: on
line diff
--- a/csp2_screen.xml	Thu Dec 05 16:30:58 2024 -0500
+++ b/csp2_screen.xml	Thu Dec 05 18:09:26 2024 -0500
@@ -57,7 +57,7 @@
         export REF_ID_ARG="";
 fi;
 
-nextflow run ${__tool_directory__}/CSP2/CSP2.nf -profile csp2_galaxy1 --runmode screen \$QUERY_FASTA_ARG \$REF_FASTA_ARG \$QUERY_READS_ARG \$REF_READS_ARG \$REF_ID_ARG \$TRIM_ARG --readext $readext --forward $forward --reverse $reverse --ref_readext $readext --ref_forward $forward --ref_reverse $reverse --min_cov $min_cov --min_iden $min_iden --min_len $min_len --ref_edge $ref_edge --query_edge $query_edge --dwin $dwin --wsnps $wsnps --out \$CSP2_DIR/CSP2_Screen_Output > Nextflow_Log.txt 2>&1;
+nextflow run ${__tool_directory__}/CSP2/CSP2.nf -profile csp2_galaxy --runmode screen \$QUERY_FASTA_ARG \$REF_FASTA_ARG \$QUERY_READS_ARG \$REF_READS_ARG \$REF_ID_ARG \$TRIM_ARG --readext $readext --forward $forward --reverse $reverse --ref_readext $readext --ref_forward $forward --ref_reverse $reverse --min_cov $min_cov --min_iden $min_iden --min_len $min_len --ref_edge $ref_edge --query_edge $query_edge --dwin $dwin --wsnps $wsnps --out \$CSP2_DIR/CSP2_Screen_Output > Nextflow_Log.txt 2>&1;
 zip -r CSP2_Output.zip CSP2_Screen_Output;
 ]]>
         </command>