diff --git a/pages/nextflow/nextflow-6-optimising-the-mrsa-workflow.md b/pages/nextflow/nextflow-6-optimising-the-mrsa-workflow.md index 97a5e7f0..6243f05f 100644 --- a/pages/nextflow/nextflow-6-optimising-the-mrsa-workflow.md +++ b/pages/nextflow/nextflow-6-optimising-the-mrsa-workflow.md @@ -61,7 +61,7 @@ curious of how this could be done. ```nextflow // Channel definition ch_genome_fasta = Channel - .fromPath( ftp://ftp.ensemblgenomes.org/pub/bacteria/release-37/fasta/bacteria_18_collection/staphylococcus_aureus_subsp_aureus_nctc_8325/dna/Staphylococcus_aureus_subsp_aureus_nctc_8325.ASM1342v1.dna_rm.toplevel.fa.gz ) + .fromPath( "ftp://ftp.ensemblgenomes.org/pub/bacteria/release-37/fasta/bacteria_18_collection/staphylococcus_aureus_subsp_aureus_nctc_8325/dna/Staphylococcus_aureus_subsp_aureus_nctc_8325.ASM1342v1.dna_rm.toplevel.fa.gz" ) .map{ file -> tuple(file.getBaseName(), file) } // INDEX_GENOME process definition @@ -82,6 +82,7 @@ process INDEX_GENOME { gunzip -c ${fasta} > tempfile bowtie2-build tempfile ${fasta_name} """ +} ```