Does Extensions -> NCS -> Copy NCS Residue Range not work ?
F
On Jan 14, 2013, at 12:41 PM, Davi de Miranda Fonseca <[log in to unmask]> wrote:
> Dear all,
>
> I am working with a 4-fold NCS. Chain A has residues 273 through 278 pretty messed up, but those residues from Chain B seem to fit pretty well the density for Chain A (as seem by NCS Ghost Control). Hence I would to replace residues 273-278 of Chain A by those of Chain B with appropriate rotation(s)-translation(s).
>
> After looking Coot's manual it seems that I need to use a script (the GUI would also change Chains C and D which I do not want), namely copy-residue-range-from-ncs-master-to-chains. From the example I think that I would need something like:
> (copy-residue-range-from-ncs-master-to-chains 0 "B" 273 278 (list "A"))
>
> but since I have a python Coot, I am unsure what to use. I tried without success* the following:
>
> copy-residue-range-from-ncs-master-to-chains(0,"B",273,278,(list "A"))
>
> copy-residue-range-from-ncs-master-to-chains(0,"B",273,278,"A")
>
> copy-residue-range-from-ncs-master-to-chains(0,"B",273,278,list("A"))
>
> Hence, I would greatly appreciate some advice on the proper syntax for the command in Python (or on the right/better way of fixing the mess in Chain A).
>
> Thank you for your time and help.
>
> Regards,
> Davi
>
>
> * - Results of running scripts in the command window:
>
> BL INFO:: command input is: copy-residue-range-from-ncs-master-to-chains(0,"B",273,278,(list "A"))
> Traceback (most recent call last):
> File "C:\WinCoot\share\coot\python\coot_gui.py", line 209, in do_function
> guile_function = test_and_translate_guile(entry_text)
> File "C:\WinCoot\share\coot\python\coot_gui.py", line 166, in test_and_translate_guile
> exec python_function in locals()
> File "<string>", line 1
> copy_residue_range_from_ncs_master_to_chains(0,"B",273,278,(list(*arg)
> ^
> SyntaxError: unexpected EOF while parsing
>
> and
>
> BL INFO:: command input is: copy-residue-range-from-ncs-master-to-chains(0,"B",273,278,"A")
> Traceback (most recent call last):
> File "C:\WinCoot\share\coot\python\coot_gui.py", line 209, in do_function
> guile_function = test_and_translate_guile(entry_text)
> File "C:\WinCoot\share\coot\python\coot_gui.py", line 166, in test_and_translate_guile
> exec python_function in locals()
> File "<string>", line 1
> copy_residue_range_from_ncs_master_to_chains(0,"B",273,278,"A"(*arg)
> ^
> SyntaxError: unexpected EOF while parsing
>
> and
>
> BL INFO:: command input is: copy-residue-range-from-ncs-master-to-chains(0,"B",273,278,list("A"))
> Traceback (most recent call last):
> File "C:\WinCoot\share\coot\python\coot_gui.py", line 209, in do_function
> guile_function = test_and_translate_guile(entry_text)
> File "C:\WinCoot\share\coot\python\coot_gui.py", line 166, in test_and_transla
> te_guile
> exec python_function in locals()
> File "<string>", line 1
> copy_residue_range_from_ncs_master_to_chains(0,"B",273,278,list("A"(*arg)
> ^
> SyntaxError: unexpected EOF while parsing
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