hi,
if i enable debugging i get a little more info


get_default_location will search the following :  ['/xtal/programs/pymol/ext', '/xtal/programs/pymol/ext/share/pdb2pqr', '/xtal/programs/pymol/ext/bin', '/sw/share/pdb2pqr', '/sw/share/apbs/tools/manip', '/sw/share/apbs-mpi-openmpi/tools/manip', '/sw/share/apbs-mpi-lammpi/tools/manip', '/usr/local/share/tools/manip', '/xtal/programs/3dna/x3dna-v2.1/bin', '/xtal/programs/xdsme-0.5beta1/bin/noarch', '/xtal/programs/cns_solve_1.21/intel-x86_64bit-linux/bin', '/xtal/programs/cns_solve_1.21/intel-x86_64bit-linux/utils', '/usr/local/phenix-1.8.4-1496/build/intel-linux-2.6-x86_64/bin', '/home/donohue/bin', '/usr/local/sbin', '/usr/local/bin', '/usr/sbin', '/usr/bin', '/sbin', '/bin', '/usr/games', '/usr/local/bin', '/opt/local/bin', '/sw/bin']
trying /xtal/programs/pymol/ext/pdb2pqr.py
trying /xtal/programs/pymol/ext/pdb2pqr
trying /xtal/programs/pymol/ext/share/pdb2pqr/pdb2pqr.py
get_default_location will search the following :  ['/tmp', '/tmp', '.']
get_default_location will search the following :  ['/tmp', '/tmp', '.']
get_default_location will search the following :  ['/tmp', '/tmp', '.']
get_default_location will search the following :  ['/tmp', '/tmp', '.']
alloc: invalid block: 0x2aaaac29fb78: 0 0
Abort



From: Thomas Holder <thomas.holder@schrodinger.com>
To: jp d <yoyoq@yahoo.com>
Cc: "Schubert, Carsten [JRDUS]" <CSCHUBER@its.jnj.com>; "pymol-users@lists.sourceforge.net" <pymol-users@lists.sourceforge.net>
Sent: Wednesday, February 12, 2014 10:35 AM
Subject: Re: [PyMOL] apbs plugin

Hi jpd,

I can reproduce this, unfortunately. Thanks for reporting. It's indeed a problem with the GUI toolkit and not apbs itself. We are looking into it.

Cheers,
  Thomas

On 11 Feb 2014, at 16:21, jp d <yoyoq@yahoo.com> wrote:

> hi,
> good idea, it runs from the command line after adding
> /pymol/ext/lib to my library path
>
> but the plugin still crashes.
> something is odd about my APBS plugin setup.
> if i even just click to change the file locations
> it crashes.
>
> the other plugins seem fine.
>
> thanks
> jpd
>
> From: "Schubert, Carsten [JRDUS]" <CSCHUBER@its.jnj.com>
> To: jp d <yoyoq@yahoo.com>; "pymol-users@lists.sourceforge.net" <pymol-users@lists.sourceforge.net>
> Sent: Tuesday, February 11, 2014 12:14 PM
> Subject: RE: [PyMOL] apbs plugin
>
> Hi jpd,

> try running APBS directly just using the .in file generated from a failed run. That may provide a clue as to where the problem is, i.e. within APBS itself or within the plugin. If it is APBS, which is throwing the error you may want to try to grab an updated version or the source code to compile yourself.

> HTH

> Carsten

> From: jp d [mailto:yoyoq@yahoo.com]
> Sent: Tuesday, February 11, 2014 2:52 PM
> To: pymol-users@lists.sourceforge.net
> Subject: [PyMOL] apbs plugin

> hi,
> anyone else having trouble with the apbs plugin?
> i keep crashing as soon as i try to do anything.
> if i select 'Choose externally generated PQR'
> or 'run APBS' i get this
> In show error 1
> alloc: invalid block: 0x2aaaac29fb78: 0 0
> Abort

> this is with pymol 1.7
> ubuntu 12.04
> using 1FAS fetched from the pdb

> thanks
> jpd



--
Thomas Holder
PyMOL Developer
Schrödinger, Inc.