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- 23:48:37.247 ERROR: In /tmp/ebbuild/HHsuite/3.3.0/foss-2020a/hh-suite-3.3.0/src/hhalignment.cpp:223: Read:
- 23:48:37.248 ERROR: sequence ss_pred contains no residues.
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I was able to finish running the example prediction (rf2na.sh, ../run_RF2NA.sh rna_pred rna_binding_protein.fa R:RNA.fa) with no error messages after compilation. However, I did notice that there is n…
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I am trying to run ColabFold using its singularity image on an HPC but for some of the sequences to predict I run into this error:
2024-02-26 11:42:51,536 Query 1/7: jgi_YarliY64008_1_51878_gm4.453…
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Hello, When i use this code to generate features, this problem occurred. But i am sure that this path `/mnt/VMSTORE/protein/pdb70/` exists.
![屏幕快照 2022-08-23 下午3 34 24](https://user-images.githubus…
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Hi,
I'm trying to use hhsearch with a customized database. Both query and database alignments represent an entire family of homologs (there is no seed sequence). Hence, I reckon that -M 50 parameter …
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I'm getting an error on the hhsearch step:
`Running hhsearch
./run_pipeline.sh: line 49: 7701 Segmentation fault (core dumped) $HH -i $WDIR/t000_.msa0.ss2.a3m -o $WDIR/t000_.hhr -v 0 > $WDIR…
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Hi all
I meet a problem that
E0226 17:51:54.905934 139873214023488 hhsearch.py:56] Could not find HHsearch database ./alphafold_data//pdb70/pdb70
Traceback (most recent call last):
File "/home…
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I have two profiles within the pfam database: PF00336.20 and PF17919.3. Querying the database using **hhsearch** with PF00336 hmm as a query I got mapping to PF17919:
`ffindex_get pfam_hhm.ffdata pfa…
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Hi there,
Having set up `alphafold` in my machine (NVIDIA GeForce RTX 2080 GPU, ), which I've tested successfully, I'm now coming across the error below running it on a 5586 AA predicted protein (f…
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I use precomputed msas (--use_precomputed_msas) for my work and af2 currently spends most of its time performing HHSearch and HHblits, even though I know it won't find anything.
Is there any flag to …