pymol-users

[PyMOL] manipulate standard error ?

[Sebastien M. <seb...@ig...>]

Hello,
I would like to know if there is a way to manipulate standard error=20
redirection into pymol scripting language ?

Thanks

--=20
S=E9bastien Moretti
http://www.igs.cnrs-mrs.fr/
CNRS - IGS UPR 2589
163 Avenue de Luminy, case 934
13288 Marseille cedex 9 (France)

Re: [PyMOL] manipulate standard error ?

[gilleain t. <gil...@gm...>]

Hello,

yes. maybe. if you are talking about printing to standard error, then :

   import sys
   sys.stderr.write("hello, stderr!")

will do it.

if, on the other hand, you mean something more complicated to do with
manipulating the shell ("redirection"...?) than I don't know, sorry.

gilleain torrance

On 3/9/06, Sebastien Moretti <seb...@ig...> wrote:
>
> Hello,
> I would like to know if there is a way to manipulate standard error
> redirection into pymol scripting language ?
>
> Thanks
>
> --
> S=E9bastien Moretti
> http://www.igs.cnrs-mrs.fr/
> CNRS - IGS UPR 2589
> 163 Avenue de Luminy, case 934
> 13288 Marseille cedex 9 (France)
>
>
> -------------------------------------------------------
> This SF.Net email is sponsored by xPML, a groundbreaking scripting
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> and join the prime developer group breaking into this new coding
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Re: [PyMOL] manipulate standard error ?

[Sebastien M. <seb...@ig...>]

> Hello,
>=20
> yes. maybe. if you are talking about printing to standard error, then :
>=20
>    import sys
>    sys.stderr.write("hello, stderr!")
>=20
> will do it.
>=20
> if, on the other hand, you mean something more complicated to do with=20
> manipulating the shell ("redirection"...?) than I don't know, sorry.
>=20
> gilleain torrance

I would like to change the current path for stderr to /dev/null by exampl=
e.

I have a plugin which creates a legend box from a fake (empty) apdb map.=20
Instruction, which loads the map, sends an error message and I would=20
like to hide it.

How can I do ?

Thanks

>=20
>     Hello,
>     I would like to know if there is a way to manipulate standard error
>     redirection into pymol scripting language ?
>=20
>     Thanks

--=20
S=E9bastien Moretti
http://www.igs.cnrs-mrs.fr/
CNRS - IGS UPR 2589
163 Avenue de Luminy, case 934
13288 Marseille cedex 9 (France)

Re: [PyMOL] manipulate standard error ?

[Jules J. <jo...@he...>]

Hi,

If you are getting unwanted PyMOL standard errors you can turn them off 
using the cmd.feedback() commands:

cmd.feedback('disable', 'selector', 'everything')
cmd.feedback('disable', 'executive', 'everything')


to turn them on again:

cmd.feedback('enable', 'selector', 'everything')
cmd.feedback('enable', 'executive', 'everything')

cmd.feedback('disable', 'all', 'everything') will do exactly as it says on 
the tin.

otherwise maybe use a Python try:/except: clause?

eg:

try:
     Instructions to load the map (cmd.load(map)?)
except:
     raise IOError('')


Jules

Sebastien Moretti wrote:
>> Hello,
>>
>> yes. maybe. if you are talking about printing to standard error, then :
>>
>>    import sys
>>    sys.stderr.write("hello, stderr!")
>>
>> will do it.
>>
>> if, on the other hand, you mean something more complicated to do with 
>> manipulating the shell ("redirection"...?) than I don't know, sorry.
>>
>> gilleain torrance
> 
> I would like to change the current path for stderr to /dev/null by example.
> 
> I have a plugin which creates a legend box from a fake (empty) apdb map. 
> Instruction, which loads the map, sends an error message and I would 
> like to hide it.
> 
> How can I do ?
> 
> Thanks
> 
>>
>>     Hello,
>>     I would like to know if there is a way to manipulate standard error
>>     redirection into pymol scripting language ?
>>
>>     Thanks
> 

Re: [PyMOL] manipulate standard error ?

[Sebastien M. <seb...@ig...>]

> Hi,
>=20
> If you are getting unwanted PyMOL standard errors you can turn them off=
=20
> using the cmd.feedback() commands:
>=20
> cmd.feedback('disable', 'selector', 'everything')
> cmd.feedback('disable', 'executive', 'everything')
>=20
>=20
> to turn them on again:
>=20
> cmd.feedback('enable', 'selector', 'everything')
> cmd.feedback('enable', 'executive', 'everything')
>=20
> cmd.feedback('disable', 'all', 'everything') will do exactly as it says=
=20
> on the tin.
>=20
> otherwise maybe use a Python try:/except: clause?
>=20
> eg:
>=20
> try:
>     Instructions to load the map (cmd.load(map)?)
> except:
>     raise IOError('')
>=20
>=20
> Jules

It's this kind of manipulation I want.
Thanks

>>> Hello,
>>>
>>> yes. maybe. if you are talking about printing to standard error, then=
 :
>>>
>>>    import sys
>>>    sys.stderr.write("hello, stderr!")
>>>
>>> will do it.
>>>
>>> if, on the other hand, you mean something more complicated to do with=
=20
>>> manipulating the shell ("redirection"...?) than I don't know, sorry.
>>>
>>> gilleain torrance
>>
>>
>> I would like to change the current path for stderr to /dev/null by=20
>> example.
>>
>> I have a plugin which creates a legend box from a fake (empty) apdb=20
>> map. Instruction, which loads the map, sends an error message and I=20
>> would like to hide it.
>>
>> How can I do ?
>>
>> Thanks
>>
>>>
>>>     Hello,
>>>     I would like to know if there is a way to manipulate standard err=
or
>>>     redirection into pymol scripting language ?
>>>
>>>     Thanks

--=20
S=E9bastien Moretti
http://www.igs.cnrs-mrs.fr/
CNRS - IGS UPR 2589
163 Avenue de Luminy, case 934
13288 Marseille cedex 9 (France)

Re: [PyMOL] manipulate standard error ?

[Peter A. M. <pa...@co...>]

>
> I would like to change the current path for stderr to /dev/null by
> example.
>
> I have a plugin which creates a legend box from a fake (empty) apdb map.
> Instruction, which loads the map, sends an error message and I would
> like to hide it.
>
> How can I do ?

Create a new script (pymol.bash) containing these lines:

#!/usr/bin/env bash
pymol.com 2>/dev/null

This could probably be done within pymol.com itself as well, but someone
else will have to point out how to do that (aka I don't know how).

As a side question, why have a csh script with a .com extension?

Pete

Pete Meyer
Fu Lab
BMCB grad student
Cornell University