hrp1000

Query about hhalign

3

:exclamation: Make to check out our [User Guide](https://github.com/soedinglab/hh-suite/wiki). ## Expected Behavior break in sequence where it occurs in PDB file (i.e. between Arg221 & Gln 251 in my test file)...

Problems with creating a database starting with sequences

3

This is using the statically linked, single threaded versions downloaded in the last couple of days, running on Linux. I'm just starting with hh-suite, and trying to create a custom...

Seg fault in model.as_map_model_manager

12

I'm getting a segmentation fault at line 348-ish in process_predicted_model.py: # Get a new model new_model = model.as_map_model_manager().model_from_hierarchy( ph, return_as_model = True) Running MacOS High Sierra (10.13.6) - highest available...

hhalignment.cpp error with mkdssp version 4 output

1

If I build a DSSP file with the current mkdssp (which corrects along-standing bug in assigning secondary structure, by assigning polyPro helices "correctly" - see https://github.com/PDB-REDO/dssp) I get a bunch...

I put one chain from a PDB into my library, then run either HHBLits or HHSearch against another homologous chain with indels and the indels do not align between query...

ffindex_order giving many fewer entries in output .ff(data,index} files than in input files

4

I'm trying to create a custom database, but find that I am getting many fewer entries in _a3m.ff{data,index} and _hhm.ffindex after running ffindex_order than are present in the input files....

Hi Not sure if this is the right place to report this - if not I'm sure I'll get a polite response telling me where to go (to report the...

Error in SMILES for CHEBI:26355

2

Hi I have a problem with this entry. If I try to generate a fingerprint for calculating the Tanimoto coefficient with CHEBI:60344 with this code, it works fine for CHEBI:17267,...