| Previous changeset 7:89d3f54fc370 (2024-12-02) Next changeset 9:27af39d069b3 (2024-12-03) |
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Commit message:
"planemo upload" |
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modified:
csp2_screen.xml |
| csp2_screen.xml |
| diff -r 89d3f54fc370 -r 2ab525820ff2 csp2_screen.xml |
| csp2_screen.xml |
| --- a/csp2_screen.xml Mon Dec 02 17:31:42 2024 -0500 +++ b/csp2_screen.xml Mon Dec 02 17:37:56 2024 -0500 @@ -57,7 +57,7 @@ export REF_ID_ARG=""; fi; - 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 --cores 8 --out \$CSP2_DIR/CSP2_Screen_Output > \$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 --cores 8 --out \$CSP2_DIR/CSP2_Screen_Output > Nextflow_Log.txt 2>&1; ]]> </command> <inputs> @@ -81,7 +81,7 @@ <outputs> <data name="screening_results" format="tabular" label="Screening Results" from_work_dir="CSP2_Screen_Output/Screening_Results.tsv" /> <data name="isolate_data" format="tabular" label="Isolate Data" from_work_dir="CSP2_Screen_Output/Isolate_Data.tsv" /> - <data name="nextflow_log" format="txt" label="Nextflow Log" from_work_dir="CSP2_Screen_Output/Nextflow_Log.txt" /> + <data name="nextflow_log" format="txt" label="Nextflow Log" from_work_dir="Nextflow_Log.txt" /> </outputs> <tests> <test> |