This PR adds support to DEN-IM for single-end short-read sequencing data.
The channel responsible for receiving the raw input data has been modified to permit any number of input files per sample by using the size optional parameter in the fromFilePairs method.
IN_fastq_raw = Channel.fromFilePairs(params.fastq, size: -1).ifEmpty { exit 1, "No fastq files provided with pattern:'${params.fastq}'" }
All processes that handle fastq or bam data have been adjusted to handle both paired-end and single-end data.
This PR adds support to DEN-IM for single-end short-read sequencing data. The channel responsible for receiving the raw input data has been modified to permit any number of input files per sample by using the size optional parameter in the
fromFilePairsmethod.IN_fastq_raw = Channel.fromFilePairs(params.fastq, size: -1).ifEmpty { exit 1, "No fastq files provided with pattern:'${params.fastq}'" }All processes that handle fastq or bam data have been adjusted to handle both paired-end and single-end data.