Thread: [apbs-users] Installing apbs
Biomolecular electrostatics software
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From: Göran L. <gor...@me...> - 2011-12-14 10:54:43
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Error message: Output file missing or unreadable I'm having problems using the APBS plugin in VMD (tried both in Win XP 32 and Ubuntu). I have previously just used the pdb2pqr web service successfully but when I try to run it locally I get the "output file missing or unreadable" error message using the same pqr-file as the web server. I don't have any spaces in the path, so what could be wrong? Another weird thing is that when I Install APBS, I make C:/program/APBS the installation directory, but it always puts the executive file directly under c:/ and there is no APBS directory. |
From: Keith C. <km...@pi...> - 2011-12-17 15:58:52
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Hi Goran, Is APBS on your path and are you able to run the test cases that are in the apbs/examples directory? E.g. from the commandline you should be able to cd to the examples/solv/ directory and type "apbs apbs-smol.in" Keith 2011/12/14 Göran Larsson <gor...@me...>: > Error message: Output file missing or unreadable > > > > I’m having problems using the APBS plugin in VMD (tried both in Win XP 32 > and Ubuntu). I have previously just used the pdb2pqr web service > successfully but when I try to run it locally I get the “output file missing > or unreadable” error message using the same pqr-file as the web server. I > don’t have any spaces in the path, so what could be wrong? > > > > Another weird thing is that when I Install APBS, I make C:/program/APBS the > installation directory, but it always puts the executive file directly under > c:/ and there is no APBS directory. > > > > > > > ------------------------------------------------------------------------------ > Learn Windows Azure Live! Tuesday, Dec 13, 2011 > Microsoft is holding a special Learn Windows Azure training event for > developers. It will provide a great way to learn Windows Azure and what it > provides. You can attend the event by watching it streamed LIVE online. > Learn more at http://p.sf.net/sfu/ms-windowsazure > _______________________________________________ > apbs-users mailing list > apb...@li... > https://lists.sourceforge.net/lists/listinfo/apbs-users > -- Keith M. Callenberg PhD student, Computational Biology Carnegie Mellon-University of Pittsburgh kmc112@{pitt,cmu}.edu http://www.pitt.edu/~kmc112/ |
From: Baker, N. <Nat...@pn...> - 2011-12-18 16:02:37
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Hi Goran - I'm sorry but the APBS Windows installation but is one that we're aware of and have fixed; we're currently testing a new installer. Please let us know if you would like to beta test. Do you have PDB2PQR installed locally? I'm unsure about where you're trying to run it. Thanks, __________________________________________________ Nathan Baker Pacific Northwest National Laboratory Tel: 509-375-3997 http://nabaker.me From: Göran Larsson [mailto:gor...@me...] Sent: Wednesday, December 14, 2011 2:38 AM To: apb...@li... Subject: [apbs-users] Installing apbs Error message: Output file missing or unreadable I'm having problems using the APBS plugin in VMD (tried both in Win XP 32 and Ubuntu). I have previously just used the pdb2pqr web service successfully but when I try to run it locally I get the "output file missing or unreadable" error message using the same pqr-file as the web server. I don't have any spaces in the path, so what could be wrong? Another weird thing is that when I Install APBS, I make C:/program/APBS the installation directory, but it always puts the executive file directly under c:/ and there is no APBS directory. |