It works:
I have in ~/.pymol.rc:
# let's add the custom srctip repo dir:
sys.path.append(os.path.expanduser('~/.local/lib/python2.7/site-packages/pymol/scripts'))
# custom scripts:
import pmlrc
And here's a pmlrc.py (which I put in
~/.local/lib/python2.7/site-packages/pymol/scripts):
# code to be executed on start-up:
from pymol import cmd
# run from script dir:
import os
def Run(filename):
for Path in ['',
os.path.expanduser('~/.local/lib/python2.7/site-packages/pymol/scripts')]:
full = os.path.join(Path, filename)
if os.path.exists(full):
cmd.do('run ' + full)
return
print ' Error: no such file: {0}'.format(filename)
cmd.extend('Run', Run)
Then
Run script.py
runs the script if it is either in a current dir, or in the
~/.local/lib/python2.7/site-packages/pymol/scripts
Thanks to all responders,
Boris.
On Tue, May 15, 2012 at 4:58 PM, Thomas Holder
<[email protected]> wrote:
> Hi Boris,
>
> you can make your own run command which searches a path:
>
> python
> import os
> def run2(filename):
> for p in ['', '/path/to']:
> full = os.path.join(p, filename)
> if os.path.exists(full):
> cmd.do('run ' + full)
> return
> print ' Error: no such file'
> cmd.extend('run2', run2)
> python end
>
> Cheers,
> Thomas
>
>
> On 05/15/2012 02:51 PM, Boris Kheyfets wrote:
>>
>> That's the point - I can import from these directories - but can't
>> 'run' from there.
>>
>> I can only run a script by specifying the full path.
>>
>> Boris.
>>
>> On Tue, May 15, 2012 at 4:45 PM, Troels Emtekær Linnet
>> <[email protected]> wrote:
>>>
>>> write this in pymol command window:
>>>
>>> import sys
>>> print sys.path
>>>
>>> There you can see where pymol is looking.
>>>
>>> Or you can this to your .pymolrc in your home folder:
>>>
>>> import sys
>>> sys.path.append("/Path/to/your/Pymol-script/modules")
>>>
>>> Troels Emtekær Linnet
>>> Ved kløvermarken 9, 1.th
>>> 2300 København S
>>> Mobil: +45 60210234
>>>
>>>
>>>
>>> 2012/5/15 Boris Kheyfets<[email protected]>
>>>>
>>>>
>>>> Is there a way I can add a path to 'run' - so not to type the full
>>>> path to the script when I run it:
>>>>
>>>> run /path/to/script.py
>
>
> --
> Thomas Holder
> MPI for Developmental Biology
> Spemannstr. 35
> D-72076 Tübingen
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