Re: [PyMOL] Race condition when running scripts in "stdin" mode

[Jacob P. <Jac...@ei...>]

Michael
I've run in to something like this before (early ubuntu 12.04) using just using build_seq to write small peptide .pdbs in a loop, the work around I used (I think it was in the wiki at the time -- can't find it now) was to add a short wait at the end of the loop, <0.1 sec was enough on my machine at the time but that may be device/content specific.

**not my skill set**
IF I recall correctly the issue was explained as having a new run on the loop before the buffer on the old cleared (memory:cycles racing)
 
Hope this helps

Jacob Pessin
Albert Einstein College of Medicine
Diabetes Research Center SIMC
Computational Chemistry & Molecular Modeling
jac...@ei...
1 718 839 7228

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Message: 4
Date: Wed, 24 Jun 2015 00:13:26 +0200
From: Michael Banck <mb...@de...>
Subject: [PyMOL] Race condition when running scripts in "stdin" mode
To: pymol-users <pym...@li...>
Message-ID:
        <201...@ra...>
Content-Type: text/plain; charset=us-ascii

Hi,

on Debian, we got a bug report which looks like the bug reported here as
well: http://sourceforge.net/p/pymol/bugs/130/

Unfortunately, there has been no discussion of this bug so far.

There seems to be some race condition for scripts, does anybody a
work-around, and/or fix for this?  Or is this a platform-dependent (or
even Debian/Ubuntu dependent) issue?


Thanks,

Michael




Message: 6
Date: Tue, 23 Jun 2015 19:45:26 -0300
From: Osvaldo Martin <alo...@gm...>
Subject: Re: [PyMOL] Race condition when running scripts in "stdin"
        mode
To: Michael Banck <mb...@de...>
Cc: pymol-users <pym...@li...>
Message-ID:
        <CAG...@ma...>
Content-Type: text/plain; charset="utf-8"

Hi MIchael,

I can reproduce the error on a machine with Ubuntu 15.04 (64 bits) and
PyMOL 1.7.2



On Tue, Jun 23, 2015 at 7:13 PM, Michael Banck <mb...@de...> wrote:

> Hi,
>
> on Debian, we got a bug report which looks like the bug reported here as
> well: http://sourceforge.net/p/pymol/bugs/130/
>
> Unfortunately, there has been no discussion of this bug so far.
>
> There seems to be some race condition for scripts, does anybody a
> work-around, and/or fix for this?  Or is this a platform-dependent (or
> even Debian/Ubuntu dependent) issue?
>
>
> Thanks,
>
> Michael