Description
Convert bcl files to fastq files using bcl2fastq.
Run the following command to execute this component with Nextflow:
cat > params.yaml <<'EOM'
output: "$id.$key.output.fastq_dir"
reports: "$id.$key.reports.reports_dir"
id: "run"
publish_dir: "output/"
EOM
nextflow run https://packages.viash-hub.com/vsh/openpipeline.git \
-revision 1.0.1 \
-main-script target/nextflow/demux/bcl2fastq/main.nf \
-params-file params.yaml Name | Type & Properties |
|---|---|
--input -i --runfolder_dir | file required |
--sample_sheet -s | file required |
--output -o | file required output |
--reports | file output |
--ignore_missing | boolean_true |