google-deepmind / alphafold

Open source code for AlphaFold.
Apache License 2.0
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AttributeError: module 'haiku' has no attribute 'custom_creator' #922

Open apal6 opened 6 months ago

apal6 commented 6 months ago

Hi,

I am trying to run AF-multimer and my script ran for about 3ish hours and I get the following error. Not sure how to resolve this and would appreciate any advice.

singularity exec --nv -B /scratch/groups/ $alphafold_singularity \ python $alphafold_run \ --model_preset=multimer \ --data_dir=/scratch/groups/ \ --fasta_paths=/scratch/groups/EGFRvIII.fasta \ --output_dir=/scratch/groups/results \ --use_gpu_relax=True \ --uniref90_database_path=/scratch/groups/uniref90/uniref90.fasta \ --mgnify_database_path=/scratch/groups/mgnify/mgy_clusters_2022_05.fa \ --template_mmcif_dir=/scratch/groups/pdb_mmcif/mmcif_files \ --obsolete_pdbs_path=/scratch/groups/pdb_mmcif/obsolete.dat \ --max_template_date=2022-1-1 \ --db_preset=reduced_dbs \ --small_bfd_database_path=/scratch/groups/small_bfd/bfd-first_non_consensus_sequences.fasta \ --pdb_seqres_database_path=/scratch/groups/pdb_seqres/pdb_seqres.txt \ --uniprot_database_path=/scratch/groups/uniprot/uniprot.fasta

Thank you in advance.

apal6 commented 6 months ago

Adding to the above error, my results folder is empty with just two files, features.pkl msas. This is my first time running AF-multimer locally and would appreciate the help.

Thank you