HHblits failed : Unrecognized HMM file format in '468479486'

[Madhumitha0206]

Hi,
We are trying to run the nfcore proteinfold pipeline in ec2. While running the alphafold, we are getting an error message saying HHblits failed. It comes from the python file "/app/alphafold/alphafold/data/tools/hhblits.py" which is in the nf-core / proteinfold_alphafold2_standard container. We are using the dev version of the container (https://quay.io/repository/nf-core/proteinfold_alphafold2_standard?tab=tags).

The error details :
Command error:
File "/app/alphafold/alphafold/data/pipeline_multimer.py", line 264, in process
chain_features = self._process_single_chain(
File "/app/alphafold/alphafold/data/pipeline_multimer.py", line 212, in _process_single_chain
chain_features = self._monomer_data_pipeline.process(
File "/app/alphafold/alphafold/data/pipeline.py", line 215, in process
hhblits_bfd_uniref_result = run_msa_tool(
File "/app/alphafold/alphafold/data/pipeline.py", line 96, in run_msa_tool
result = msa_runner.query(input_fasta_path)[0]
File "/app/alphafold/alphafold/data/tools/hhblits.py", line 143, in query
raise RuntimeError('HHblits failed\nstdout:\n%s\n\nstderr:\n%s\n' % (
RuntimeError: HHblits failed
stdout:

stderr:

08:13:33.989 INFO: Searching 65983866 column state sequences.

08:13:35.413 INFO: Searching 29291635 column state sequences.

08:13:35.474 INFO: /tmp/tmppquf5va_.fasta is in A2M, A3M or FASTA format

08:13:35.474 INFO: Iteration 1

08:13:35.534 INFO: Prefiltering database

08:15:52.049 INFO: HMMs passed 1st prefilter (gapless profile-profile alignment) : 1212889

08:19:04.295 INFO: HMMs passed 1st prefilter (gapless profile-profile alignment) : 497133

08:19:05.660 INFO: HMMs passed 2nd prefilter (gapped profile-profile alignment) : 2000

08:19:05.660 INFO: HMMs passed 2nd prefilter and not found in previous iterations : 2000

08:19:05.660 INFO: Scoring 2000 HMMs using HMM-HMM Viterbi alignment

08:19:05.838 INFO: Alternative alignment: 0

08:19:05.840 ERROR: In /tmp/hh-suite/src/hhdatabase.cpp:443: getTemplateHMM:

08:19:05.840 ERROR: Unrecognized HMM file format in '468479486'.

08:19:05.840 ERROR: Context:
'DEFGEARMVCGGVSADDFSLSADHSSAGEAAASGGWTVVPGGGFGAGGEKALTTGDTEVH-----------------RETSLCVIASE-----SSASKS---------------------------------

08:19:05.840 ERROR: >SRR5208283_2706711

08:19:05.840 ERROR: --------------------------------------------------------------VELHRMPLPRAGLPLAARAGAQLFRHLLQPSGRTHFADLFPAGRYAALRCSPLDDLGAAGLVCGGIPPDRLALSSDHSRAGAAAASAGWAVVPGGMPGAGGEEELTTGTPRNTG----------------IHRA---------------------------------------------------'

Please help us resolve this issue. Thanks in advance