When the SraAccList.txt file ends with a newline character, the way the file is parsed causes snakemake to think there's another sample with the name ""
Building DAG of jobs...
MissingInputException in rule filter in file /scratch/midway3/rabdill/compendium/PRJEB55648/workflow/Snakefile, line 41:
Missing input files for rule filter:
[...]
affected files:
fastq/.fastq
When the
SraAccList.txtfile ends with a newline character, the way the file is parsed causes snakemake to think there's another sample with the name""