hh-suite

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Hey everyone, I encountered this issue but was able to fix it myself. I'll leave it here, in case anyone encounters the same problem. I created a custom database starting...

almutwerner

When running `cif2fasta.py` with `7rs0.cif` from the RCSB DB as input gives the following exception: ``` multiprocessing.pool.RemoteTraceback: """ Traceback (most recent call last): File "/usr/lib/python3.8/multiprocessing/pool.py", line 125, in worker result...

balvisio

HHBLITS throughs segmentation fault

2

I am trying to generate a3m and hhr files using hhblits 3.2.0. My fasta file sequence length is 53. When I try to execute hhblits with that input file, it...

satwika007

build customized databases

1

:exclamation: Make to check out our [User Guide](https://github.com/soedinglab/hh-suite/wiki). hi ! i am trying to build a customized databases, using the workflow that recorded in "user guide" first step using "ffindex_from_fasta"...

Wanli-HE

:exclamation: Make to check out our [User Guide](https://github.com/soedinglab/hh-suite/wiki). ## Expected Behavior When a PDB has multiple chains of the same protein, I expect the script to leave only one of...

huhlim

:exclamation: Make to check out our [User Guide](https://github.com/soedinglab/hh-suite/wiki). Dear hh-suite developers, When I try to build my own databases, the step to get cs219.ff{data,index} by cstranslate is very slow. If...

sunzhig

Fix buffer overflow in ffindex_from_fasta

3

I could verify with valgrind that previously that this could lead to memory corruption. Is there any suggested way to check if that has an impact on performance?

konstin

segmentation fault in 'ffindex_from_fasta' when indexing very long proteins

11

I'm trying to index a 6-frame translation of a genome to use it in a hhblits search, but I get a segmentation fault in ffindex_from_fasta. This might be due to...

apcamargo

Segmentation fault (core dumped) when ffindex_from_fasta

5

Hi, ffindex_from_fasta broken off because of the following error, the output looks like imcomplete, anyone konw the reason and solution: $ffindex_from_fasta -s segment_fas.ff{data,index} combine.segment.faa data file: segment_fas.ffdata index file: segment_fas.ffindex...

zhaoxvwahaha

split database for the storage random access limitation problem

3

Dear hh-suite developers, Thanks for creating such a wonderful tool. We are trying to align 750,000 proteins sequences using hhblits on a compute cluster. However, we are having the storage...

baoxingsong