Bug: split: output file suffixes exhausted

[efriman]

Hi,

I encountered an error while running distiller-nf on a very large SRA and chunksize: 10000000. The following happened (.command.err):

++ srapath SRR3313309

• URL=https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR3313309/SRR3313309
• wget --spider https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR3313309/SRR3313309
• echo 'Dowloading from ,' https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR3313309/SRR3313309
• wget https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR3313309/SRR3313309 -qO SRR3313309.sra
• fastq-dump SRR3313309.sra -Z --split-spot
• cat
• pyfilesplit --lines 4 /dev/fd/63 /dev/fd/62
  ++ bgzip -c '-@{bgzip_threads}'
  ++ bgzip -c '-@{bgzip_threads}'
  Read 1311649909 spots for SRR3313309.sra
  Written 1311649909 spots for SRR3313309.sra
• rm SRR3313309.sra
• zcat Yan_HiC_D0_E14_WT.lane1.1.fastq.gz
• split -l 40000000 --numeric-suffixes=1 --filter 'bgzip -c -@ 3 > $FILE.1.fastq.gz' - Yan_HiC_D0_E14_WT.lane1.
  split: output file suffixes exhausted

I could resolve this by changing
"split -l ${chunk_lines} --numeric-suffixes=1" to
"split -l ${chunk_lines} -d"

Elias