Error : Fetching mapping and pairing stats

[nmendiboure]

Hi,

I got this error related to stats.py module when I run hicstuff full pipeline.

command :

hicstuff pipeline -m cutsite -t 12 -e DpnII,HinfI -q 20 -g <mygenome.fa> -n -p -o . -d -f -D -F <end1.fastq.gz> <end2.fastq.gz> --matfmt=graal

output :

INFO :: Fetching mapping and pairing stats
Traceback (most recent call last):
  File "~/miniforge3/envs/hicstuff/bin/hicstuff", line 8, in <module>
    sys.exit(main())
  File "~/miniforge3/envs/hicstuff/lib/python3.10/site-packages/hicstuff/main.py", line 57, in main
    command.execute()
  File "~/miniforge3/envs/hicstuff/lib/python3.10/site-packages/hicstuff/commands.py", line 891, in execute
    hpi.full_pipeline(
  File "~/miniforge3/envs/hicstuff/lib/python3.10/site-packages/hicstuff/pipeline.py", line 1145, in full_pipeline
    stats = hcs.get_pipeline_stats(log_file)
  File "~/miniforge3/envs/hicstuff/lib/python3.10/site-packages/hicstuff/stats.py", line 50, in get_pipeline_stats
    tot_mapped = int(float(tot_mapped))
ValueError: could not convert string to float: '2024-05-15,18:45:41 :: INFO :: 87% reads (single ends) mapped with Q >= 20 (13832129'

Versions used :

• hicstuff : 3.2.3
• pairtools : 1.1.0

Thanks in advance for your help.

EDIT : I made a pull request