Bug: HMMRATAC mode won't take -f FRAG input format

[chrysania]

Describe the bug
macs3 hmmratac mode won't run if input is specified as -f FRAG, despite what it says on the MACS3 manual pages.

error message: macs3 hmmratac: error: argument -f/--format: invalid choice: 'FRAG' (choose from 'BAMPE', 'BEDPE')

To Reproduce

macs3 hmmratac -f FRAG -i fragments.tsv.gz -n hmmratac

Expected behavior
macs3 hmmratac runs with -f FRAG

Screenshots

System:

• OS: Linux
• Python version: 3.10.12
• Numpy version: 2.2.6
• MACS Version: 3.0.3

Additional context
Since the manual pages (deepwiki, macs3-project.github) said it's possible to specify input format as FRAG, I assume this is a bug?

[taoliu]

Thanks for reporting this! I haven't push a release containing this FRAG support to PyPI. Will do it today or tomorrow. The feature is there in the main branch but I have some last bit of documentation cleanup task.