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Not sure if I'm doing something incorrectly.
A particular sequence doing a batch run using the alphafold2_batch or a single run with the AlphaFold2_mmseqs2 notebook seems to cause the MMSeq2 query step to hang.
My current run has been stuck at 0% on the MSA (MMSeq2 (Uniref+environmental)) step for the past 1h 43 minutes and it's been stuck for longer in the past before I kill the process.
The raw sequence is; MAQVQLVESGGGLVQAGGSLRLSCAVSGRPFSEYNLGWFRQAPGKEREFVARIRSSGTTVYTDSVKGRFSASRDNFLATT
LERIEKNFVITDPRLPDNPIIFASDSFLQLTEYSREEILGRNCRFLQGPETDRATVRKIRDAIDNQTEVTVQLINYTKSG
KKFWNLFHLQPMRDQKGDVQYFIGVQLDGTEHVRDAAEREGVMLIKKTAENIDEAAKELAKNMGYLQLNSLEPEDTAVYY
CAMSRVDTDSPAFYDYWGQGTQVTVSTPRS
Other variations on this sequence have worked flawlessly with these settings, so I'm not sure what is wrong with this sequence.
Running the notebook off a colab instance, not locally.
LaM-8_NA73-O.txt
file extension changed from fasta to txt so that github would allow the upload
The text was updated successfully, but these errors were encountered:
Not sure if I'm doing something incorrectly.
A particular sequence doing a batch run using the alphafold2_batch or a single run with the AlphaFold2_mmseqs2 notebook seems to cause the MMSeq2 query step to hang.
My current run has been stuck at 0% on the MSA (MMSeq2 (Uniref+environmental)) step for the past 1h 43 minutes and it's been stuck for longer in the past before I kill the process.
The raw sequence is; MAQVQLVESGGGLVQAGGSLRLSCAVSGRPFSEYNLGWFRQAPGKEREFVARIRSSGTTVYTDSVKGRFSASRDNFLATT
LERIEKNFVITDPRLPDNPIIFASDSFLQLTEYSREEILGRNCRFLQGPETDRATVRKIRDAIDNQTEVTVQLINYTKSG
KKFWNLFHLQPMRDQKGDVQYFIGVQLDGTEHVRDAAEREGVMLIKKTAENIDEAAKELAKNMGYLQLNSLEPEDTAVYY
CAMSRVDTDSPAFYDYWGQGTQVTVSTPRS
Other variations on this sequence have worked flawlessly with these settings, so I'm not sure what is wrong with this sequence.
Running the notebook off a colab instance, not locally.
LaM-8_NA73-O.txt
file extension changed from fasta to txt so that github would allow the upload
The text was updated successfully, but these errors were encountered: