search

steineggerlab / foldseek

Foldseek enables fast and sensitive comparisons of large structure sets.
https://foldseek.com
GNU General Public License v3.0
693 stars 91 forks source link

Can't find exact match in PDB #260

Open smilenaderi opened 3 months ago

smilenaderi commented 3 months ago

Hi I'm using foldseek easy search to find a pdb in PDB100. On webserver it finds exact match with prob100. But when I do in on my side it does not show the exact pdb. Is there any masking or filtering, if the pdb is inside database? Thank you

milot-mirdita commented 3 months ago

Sorry, I responded to the wrong issue.

What query are you searching with?

smilenaderi commented 3 months ago 
No worries, thank you. this is the command. for example pdb =6ny8 fails

f'''foldseek easy-search {destination_query_path} database/pdb {output_file} tmp4 --alignment-type 1 --format-output "query,target,fident,alnlen,mismatch,gapopen,qstart,qend,tstart,tend,evalue,bits,qtmscore"