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I've been trying to get openfold to install and run on an RTX4090 or an L4, so I've been using the pl_upgrades branch. The unit tests pass, but when I try to run the inference pipeline it fails.
I read that the databases are optional, but I've tried with uniclust30, uniref90, and a combination, but I get the same errors. The fasta files in the FASTA_DIR are small single sequence fasta files.
Here is the error:
[2024-05-16 11:27:34,129] [INFO] [real_accelerator.py:161:get_accelerator] Setting ds_accelerator to cuda (auto detect)
INFO:/home/miles/localopenfold/openfold/openfold/utils/script_utils.py:Successfully loaded JAX parameters at openfold/resources/params/params_model_1_ptm.npz...
INFO:/home/miles/localopenfold/openfold/run_pretrained_openfold.py:Generating alignments for WPB05329...
Traceback (most recent call last):
File "/home/miles/localopenfold/openfold/run_pretrained_openfold.py", line 493, in <module>
main(args)
File "/home/miles/localopenfold/openfold/run_pretrained_openfold.py", line 291, in main
precompute_alignments(tags, seqs, alignment_dir, args)
File "/home/miles/localopenfold/openfold/run_pretrained_openfold.py", line 81, in precompute_alignments
template_searcher = hhsearch.HHSearch(
File "/home/miles/localopenfold/openfold/openfold/data/tools/hhsearch.py", line 58, in __init__
if not glob.glob(database_path + "_*"):
TypeError: unsupported operand type(s) for +: 'NoneType' and 'str'
All the additional tool binary paths are already in PATH. For example,
$ which hhsearch
/home/miles/localopenfold/conda/envs/openfold_plup121/bin/hhsearch
The text was updated successfully, but these errors were encountered:
I've been trying to get openfold to install and run on an RTX4090 or an L4, so I've been using the
pl_upgrades
branch. The unit tests pass, but when I try to run the inference pipeline it fails.I read that the databases are optional, but I've tried with uniclust30, uniref90, and a combination, but I get the same errors. The fasta files in the
FASTA_DIR
are small single sequence fasta files.Here is the error:
All the additional tool binary paths are already in
PATH
. For example,The text was updated successfully, but these errors were encountered: