mlocarna stumbles over `--width`

[bernt-matthias]

When running mlocarna I sometimes get the following error with version 1.9.2.3

/home/berntm/miniconda3/envs/__locarna@1.9.2.3/bin/locarna_p: unrecognized option '--width'

Cannot compute match probabilities by /home/berntm/miniconda3/envs/__locarna@1.9.2.3/bin/locarna_p input/fruA input/fdhA  --min-bm-prob=0.0005 --min-am-prob=0.0005  --indel -350 --indel-opening -500 --ribofit true --struct-weight 200 --tau 50 --max-diff-am 30 --max-diff 60 --width 60 --min-prob 0.0005 --write-basematch-probs _tmp_.bmps --write-arcmatch-probs _tmp_.amps  >/dev/null: No such file or directory.

[s-will]

Thanks for letting me know. Did you specify --width in your call of mlocarna? (If yes, you could drop --witdh 60, since it affects only the formatting of the alignment output.)
Otherwise, it is an even more critical bug; I will look into it...
If you can, I would recommend to change to LocARNA 2.0.x

[s-will]

I quickly tested this
mlocarna --width 60 --probabilistic archaea.fa
fails with the error message that you reported, but at least
mlocarna --probabilistic archaea.fa
works. I hope this works for you as work-around until I find some time to fix it...

[bernt-matthias]

Did you specify --width in your call of mlocarna?

Yes.

you could drop --witdh 60

Will do.

FYI: I'm just updating the Galaxy wrappers to the latest 1.x release (missing the time to do 2.x .. also they have RC in the name which made me even more hesitant :)