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uw-ipd / RoseTTAFold2NA

RoseTTAFold2 protein/nucleic acid complex prediction
MIT License
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run_RF2NA.sh: Logging issues #106

Closed SuhasSrinivasan closed 2 months ago

SuhasSrinivasan commented 2 months ago

https://github.com/uw-ipd/RoseTTAFold2NA/blob/0e3742355cd48ff1823e2b6a3893b5a07598d16d/run_RF2NA.sh#L116-L118

There are two issues in the snippet:

  1. The echo for make_rna_msa.sh has been copied over
  2. There are no stdout and stderr logs for make_pMSAs_prot_RNA.py

Suggested change

    echo "Creating joint Protein-RNA MSA"
    echo " -> Running command: $PIPEDIR/input_prep/make_pMSAs_prot_RNA.py $WDIR/$lastP.msa0.a3m $WDIR/$lastR.afa $WDIR/$lastP.$lastR.a3m"
    $PIPEDIR/input_prep/make_pMSAs_prot_RNA.py $WDIR/$lastP.msa0.a3m $WDIR/$lastR.afa $WDIR/$lastP.$lastR.a3m > $WDIR/log/make_pMSA.$tag.stdout 2> $WDIR/log/make_pMSA.$tag.stderr
SuhasSrinivasan commented 2 months ago

Submitted a Pull Request #111

SuhasSrinivasan commented 2 months ago

Fixed in PR #111