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Martinize dssp "The system cannot find the path specified"
- p.albanese
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3 years 2 months ago #8812
by p.albanese
Martinize dssp "The system cannot find the path specified" was created by p.albanese
Hi,
I'm trying to run the script, but the exe of dssp is not picked up. I tried both dssp-3.0.0-win32 and dssp-2.0.4-win32.
This is the command:
python martinize.py -f mod13_s_dim_ren.pdb -o 13_s_dim.top -x 13_s_cg.pdb -dssp C:\Users\alban001\Desktop\martini_cg\dssp-3.0.0-win32.exe -p backbone -ff martini22
This the error I get out:
The system cannot find the path specified.
Traceback (most recent call last):
File "martinize.py", line 4805, in <module>
main(options)
File "martinize.py", line 4493, in main
ss += chain.dss(method, executable)
File "martinize.py", line 3302, in dss
self.set_ss(ssDetermination[method](self, atomlist, executable), source=method)
File "martinize.py", line 2663, in call_dssp
if atom[0][0] != 'H' and atom[0][:2] != 'O2': p.stdin.write(pdbOut(atom).encode('utf-8'))
If I remove the -dssp flag the script run smoothly and gives all the outputs.
Any idea ?
Thanks,
Pascal
I'm trying to run the script, but the exe of dssp is not picked up. I tried both dssp-3.0.0-win32 and dssp-2.0.4-win32.
This is the command:
python martinize.py -f mod13_s_dim_ren.pdb -o 13_s_dim.top -x 13_s_cg.pdb -dssp C:\Users\alban001\Desktop\martini_cg\dssp-3.0.0-win32.exe -p backbone -ff martini22
This the error I get out:
The system cannot find the path specified.
Traceback (most recent call last):
File "martinize.py", line 4805, in <module>
main(options)
File "martinize.py", line 4493, in main
ss += chain.dss(method, executable)
File "martinize.py", line 3302, in dss
self.set_ss(ssDetermination[method](self, atomlist, executable), source=method)
File "martinize.py", line 2663, in call_dssp
if atom[0][0] != 'H' and atom[0][:2] != 'O2': p.stdin.write(pdbOut(atom).encode('utf-8'))
If I remove the -dssp flag the script run smoothly and gives all the outputs.
Any idea ?
Thanks,
Pascal
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