calling and location of dssp
Issue #868
resolved
I installed DSSP but it the installation is called mkhssp instead. When I try to run DSSP in bio3d it throws the error:
input: dssp.pdb(pdb, exefile = '/usr/local/bin/mkhssp')
/usr/local/bin/mkhssp
Error in paste(exefile, ver) : object 'ver' not found
input: dssp(pdb)
/usr/local/bin/dssp
Warning in dssp.pdb(pdb) :
Non-protein residues detected in input PDB: MG, ACT, ADP, HOH
Error in 1:which(type == " #") : argument of length 0
R version 4.1.2 (2021-11-01) -- "Bird Hippie" Platform: Linux x86_64 Running under: ubuntu 21.10
I installed from https://github.com/cmbi/hssp/releases (directed here by https://swift.cmbi.umcn.nl/gv/dssp/)
followed the instructions via readme https://github.com/cmbi/hssp
Comments (3)
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reporter Thank you so much.
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- changed status to resolved
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Hi,
As I remember, hssp and dssp are different programs. Make sure you are calling the correct one: https://github.com/cmbi/dssp