Comments (4)
Figured it out, maybe useful for others, so I post it here
[DEFAULT]
psiblast = <path_to_packages>/packages/databases/psi-blast/ncbi-blast-2.8.1+
uniref90 = <path_to_packages>/packages/databases/uniref90/uniref90.fasta
hhblits = <path_to_packages>/packages/hh-suite/build/bin/hhblits
uniprot20 = <path_to_packages>/packages/databases/uniprot20_2016_02/uniprot20_2016_02
Btw thanks for the tool!
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HHblits is a bit confusing in this respect so I've just improved the description of uniprot20.
Thank you for using Porter5!
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I encountered the same issue here and I've tried changing the default, but it still went wrong. For me, 2FLGA.fasta.flatpsi is created, but no 2FLGA.flatpsi.ann file. Any ideas on how to fix this?
btw, I commented out psiblast and uniref90 since I'm running the fast prediction and those 2 are not needed.
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@DRL36 Please try the below command and open another issue with more details if the problem persists.
python3 Porter5.py -i example/2FLGA.fasta --cpu 4 --setup
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Related Issues (16)
- .fa.psi file not found HOT 1
- about Porter5 results HOT 1
- About psiblast running time is too long HOT 2
- Question about output of standalone vs online HOT 2
- Porter5 "Killed" issue HOT 2
- Null prediction of ss3/ss8 HOT 1
- "The system cannot find the path specified" and other errors
- Further training the Network
- Executing Predict file HOT 12
- Process-Alignment Error HOT 10
- Errors during setup and prediction HOT 4
- Pridict core dump HOT 5
- FileNotFoundError: [Errno 2] No such file or directory: 'example/2FLGA.fasta.flatpsi.ann' HOT 3
- wc: Porter5/example/2FLGA.fasta.psi: No such file or directory HOT 4
- FileNotFoundError: [Errno 2] No such file or directory: 'query/2FLGA.fasta.flatpsi.ann' HOT 2
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