ColabFold
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sokrypton
Making Protein folding accessible to all!
## Expected Behavior Having MSA results from running MMseqs2 locally in minutes, like from https://a3m.mmseqs.com/, not hours ## Current Behavior Running `colabfold_search example.fasta /path/to/db_folder results_example` takes about two hours for...
Are the databases on https://colabfold.mmseqs.com/ available anywhere else, like AWS? Download speeds are very slow and seem to be limited by at the mmseqs.com end. ## Expected Behavior Download UniRef30...
Howdy, I was running the deepmind version of AlphaFold and successfully did several runs before getting this failure message when trying to upload my next sequence. ImportError Traceback (most recent...
Hi, I was running a complex with the AlphaFold2.ipynb notebook (I only provided a sequence with : and a job name). This was the error I got when running the...
Below are the error messages that result, centering on import errors in loading the different parts of the Colab. Perhaps there's updating of AF2 to 2.1.1? Thx, FB ImportError Traceback...
Got this error when running Colabfold_batch for multimers: stderr: - 17:28:26.020 INFO: /tmp/tmp3zzg6zm1/query.a3m is in A2M, A3M or FASTA format - 17:28:26.101 INFO: Searching 20 database HHMs without prefiltering -...
I download uniref30_2103 and bfd_mgy_colabfold from https://colabfold.mmseqs.com/, following the steps to create the respective _db. Then run colabfold_search.sh against uniref30_2103_db and bfd_mgy_colabfold_db. I only got the alignment uniref.a3m. The profile...
Hi there, I'm trying to set up the mmseq2 search locally on my machine. When trying to run `mmseqs tsv2exprofiledb uniref30_2103 uniref30_2103_db` I'm getting: ``` Invalid Command: tsv2exprofiledb Did you...
Hi, I'm running ColabFold locally using only cpu. I'm wondering if there would still be the 1400aa length limit. If so, is there any way to bypass the limit? The...
Hi, I will like to consider in the search for templates very recent structures available on the PDB. However, when I try to use the colabfold_batch (https://github.com/YoshitakaMo/localcolabfold) I only get...
