Some task can run only if a directory structure is satisfied, i.e.
biongs convert:qseq:fastq:by_lane_index
biongs convert:qseq:fastq:samples_by_lane
they expect to work in a directory with file and directories created from Illumina's demultiplexing software.
demultipleixing creates multiple directories for each index 001, 002 and so on.
Some task can run only if a directory structure is satisfied, i.e. biongs convert:qseq:fastq:by_lane_index biongs convert:qseq:fastq:samples_by_lane
they expect to work in a directory with file and directories created from Illumina's demultiplexing software. demultipleixing creates multiple directories for each index 001, 002 and so on.