diff --git a/src/nf_modules/FastQC/fastqc.nf b/src/nf_modules/FastQC/fastqc.nf index 5a8237cc06b5a94fdf9a219a69ab3413edc7977e..2a725f40ce3b7ea59edd4e058282fe657d3352d5 100644 --- a/src/nf_modules/FastQC/fastqc.nf +++ b/src/nf_modules/FastQC/fastqc.nf @@ -29,7 +29,7 @@ process fastqc_fastq { file reads from fastq_files output: - file "*.{zip,html}" into fastqc_repport + file "*.{zip,html}" into fastqc_report script: """ @@ -59,7 +59,7 @@ process fastqc_fastq { set pair_id, file(reads) from fastq_files output: - file "*.{zip,html}" into fastqc_repport + file "*.{zip,html}" into fastqc_report script: """ diff --git a/src/nf_modules/FastQC/tests/fastqc_paired.nf b/src/nf_modules/FastQC/tests/fastqc_paired.nf index d7cec0ddece0a40098bb74cf09b7ab22f4a5b207..6755edec7dca244b1c1581dc6459cd2b8afcc996 100644 --- a/src/nf_modules/FastQC/tests/fastqc_paired.nf +++ b/src/nf_modules/FastQC/tests/fastqc_paired.nf @@ -15,7 +15,7 @@ process fastqc_fastq { set pair_id, file(reads) from fastq_files output: - file "*.{zip,html}" into fastqc_repport + file "*.{zip,html}" into fastqc_report script: """ diff --git a/src/nf_modules/FastQC/tests/fastqc_single.nf b/src/nf_modules/FastQC/tests/fastqc_single.nf index 1ec9ad3dc08728c84690230975817efea990cda9..318d20c71b6d6c795fd616ba3ed41267247b6702 100644 --- a/src/nf_modules/FastQC/tests/fastqc_single.nf +++ b/src/nf_modules/FastQC/tests/fastqc_single.nf @@ -16,7 +16,7 @@ process fastqc_fastq { file reads from fastq_files output: - file "*.{zip,html}" into fastqc_repport + file "*.{zip,html}" into fastqc_report script: """ diff --git a/src/nf_modules/MultiQC/multiqc.nf b/src/nf_modules/MultiQC/multiqc.nf index eae20b515bb37218265d95c3fb4bb7e27b80c7a8..b64d7f6a20014893f6ad32bc47606e1cfb874f6f 100644 --- a/src/nf_modules/MultiQC/multiqc.nf +++ b/src/nf_modules/MultiQC/multiqc.nf @@ -7,12 +7,12 @@ /* MultiQC */ process multiqc { - tag "$repport.baseName" + tag "$report.baseName" publishDir "results/fastq/multiqc/", mode: 'copy' cpus = 1 input: - file repport from fastqc_repport.collect() + file report from fastqc_report.collect() output: file "*multiqc_*" into multiqc_report diff --git a/src/nf_modules/MultiQC/tests/multiqc_paired.nf b/src/nf_modules/MultiQC/tests/multiqc_paired.nf index 7db2ea32544ed119e1e3cba66ec70b949f2e7a61..b459a9bbc8ddd4c89cd51f164d3ef3a14c814841 100644 --- a/src/nf_modules/MultiQC/tests/multiqc_paired.nf +++ b/src/nf_modules/MultiQC/tests/multiqc_paired.nf @@ -15,7 +15,7 @@ process fastqc_fastq { set pair_id, file(reads) from fastq_files output: - file "*.{zip,html}" into fastqc_repport + file "*.{zip,html}" into fastqc_report script: """ @@ -25,12 +25,12 @@ ${reads[0]} ${reads[1]} } process multiqc { - tag "$repport[0].baseName" + tag "$report[0].baseName" publishDir "results/fastq/multiqc/", mode: 'copy' cpus = 1 input: - file repport from fastqc_repport.collect() + file report from fastqc_report.collect() output: file "*multiqc_*" into multiqc_report diff --git a/src/nf_modules/MultiQC/tests/multiqc_single.nf b/src/nf_modules/MultiQC/tests/multiqc_single.nf index 30edc7bcb8cd4dd37d35ae830981c36362ec7f04..484280306ec652f88ab3d1ae9ff95d96d4a24b62 100644 --- a/src/nf_modules/MultiQC/tests/multiqc_single.nf +++ b/src/nf_modules/MultiQC/tests/multiqc_single.nf @@ -16,7 +16,7 @@ process fastqc_fastq { file reads from fastq_files output: - file "*.{zip,html}" into fastqc_repport + file "*.{zip,html}" into fastqc_report script: """ @@ -25,12 +25,12 @@ fastqc --quiet --threads ${task.cpus} --format fastq --outdir ./ ${reads} } process multiqc { - tag "$repport[0].baseName" + tag "$report[0].baseName" publishDir "results/fastq/multiqc/", mode: 'copy' cpus = 1 input: - file repport from fastqc_repport.collect() + file report from fastqc_report.collect() output: file "*multiqc_*" into multiqc_report