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openvax / mhcflurry

Peptide-MHC I binding affinity prediction
http://openvax.github.io/mhcflurry/
Apache License 2.0
191 stars 57 forks source link

Documentation outdated #236

Open rojalator opened 5 months ago

rojalator commented 5 months ago

The documentation referred to (http://openvax.github.io/mhcflurry/) is out-of-date - it is for 2.0.0 whereas the current version is 2.1.1 (as installed by pip).

As an example, the command-line reference for mhcflurry-predict-scan shows --results-filtered as an option but running the command results in:

mhcflurry-predict-scan: error: unrecognized arguments: --results-filtered affinity

The entry in the command-line tutorial is also incorrect due to this.

This option was removed in https://github.com/openvax/mhcflurry/commit/20918307b07fc337b7eec85ad88c12f8c45ba289 following https://github.com/openvax/mhcflurry/issues/219

iskandr commented 2 months ago

@timodonnell ?

timodonnell commented 2 months ago

Yeah, things have drifted since the docs were written. Updating them is a to do item.