Disulfide bridges
- julybel
-
Topic Author
- Visitor
2 years 2 months ago #9303
by julybel
Disulfide bridges was created by julybel
Greetings, dear colleagues,
I have one question about '-cys' option of martinize.py.
When I use '-cys B/CYS/46,B/CYS/62' it gives an error:
"A
B
C
D
E
Traceback (most recent call last):
File "/home/domain/julybel/miniconda3/envs/py2/lib/python2.7/runpy.py", line 174, in _run_module_as_main
"__main__", fname, loader, pkg_name)
File "/home/domain/julybel/miniconda3/envs/py2/lib/python2.7/runpy.py", line 72, in _run_code
exec code in run_globals
File "./martinize/__main__.py", line 10, in <module>
File "./martinize/martinize/cli.py", line 188, in main
File "./martinize/martinize/cli.py", line 131, in update_options
AttributeError: 'dict' object has no attribute 'links'".
When I give "-cys B/CYS/46,B/CYS/62,5000", martinize gives an error:
"A
B
C
D
E
Traceback (most recent call last):
File "/home/domain/julybel/miniconda3/envs/py2/lib/python2.7/runpy.py", line 174, in _run_module_as_main
"__main__", fname, loader, pkg_name)
File "/home/domain/julybel/miniconda3/envs/py2/lib/python2.7/runpy.py", line 72, in _run_code
exec code in run_globals
File "./martinize/__main__.py", line 10, in <module>
File "./martinize/martinize/cli.py", line 188, in main
File "./martinize/martinize/cli.py", line 127, in update_options
ValueError: too many values to unpack
".
In the molecule there is a disulfide bridge between Cys46 and Cys62.
How could this option be used in a correct way?
I have one question about '-cys' option of martinize.py.
When I use '-cys B/CYS/46,B/CYS/62' it gives an error:
"A
B
C
D
E
Traceback (most recent call last):
File "/home/domain/julybel/miniconda3/envs/py2/lib/python2.7/runpy.py", line 174, in _run_module_as_main
"__main__", fname, loader, pkg_name)
File "/home/domain/julybel/miniconda3/envs/py2/lib/python2.7/runpy.py", line 72, in _run_code
exec code in run_globals
File "./martinize/__main__.py", line 10, in <module>
File "./martinize/martinize/cli.py", line 188, in main
File "./martinize/martinize/cli.py", line 131, in update_options
AttributeError: 'dict' object has no attribute 'links'".
When I give "-cys B/CYS/46,B/CYS/62,5000", martinize gives an error:
"A
B
C
D
E
Traceback (most recent call last):
File "/home/domain/julybel/miniconda3/envs/py2/lib/python2.7/runpy.py", line 174, in _run_module_as_main
"__main__", fname, loader, pkg_name)
File "/home/domain/julybel/miniconda3/envs/py2/lib/python2.7/runpy.py", line 72, in _run_code
exec code in run_globals
File "./martinize/__main__.py", line 10, in <module>
File "./martinize/martinize/cli.py", line 188, in main
File "./martinize/martinize/cli.py", line 127, in update_options
ValueError: too many values to unpack
".
In the molecule there is a disulfide bridge between Cys46 and Cys62.
How could this option be used in a correct way?
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