Re: [gmx-users] gromacs-4.6.5 topol file error

2014-09-26 Thread Yaser Hosseini
i dont know how can create ions.mdp file for grompp command in gromacs . where can i found it?? On Thursday, September 25, 2014 11:14 PM, Justin Lemkul jalem...@vt.edu wrote: On 9/25/14 2:15 PM, yaser wrote: i did it but i get this error again. If the file is, in fact in the working

[gmx-users] gromacs-4.6.5 topol file error

2014-09-25 Thread Yaser Hosseini
hi gromacs users i got this error what can i do?? Program pdb2gmx, VERSION 4.6.5 Source code file: /build/buildd/gromacs-4.6.5/src/gmxlib/futil.c, line: 593 File input/output error: 1AKI.pdb For more information and tips for troubleshooting, please check the GROMACS website at

Re: [gmx-users] gromacs-4.6.5 topol file error

2014-09-25 Thread Justin Lemkul
On 9/25/14 9:56 AM, Yaser Hosseini wrote: hi gromacs users i got this error what can i do?? Program pdb2gmx, VERSION 4.6.5 Source code file: /build/buildd/gromacs-4.6.5/src/gmxlib/futil.c, line: 593 File input/output error: 1AKI.pdb For more information and tips for troubleshooting, please

Re: [gmx-users] gromacs-4.6.5 topol file error

2014-09-25 Thread yaser
i did it but i get this error again. Sent from my iPad On Sep 25, 2014, at 19:29, Justin Lemkul jalem...@vt.edu wrote: On 9/25/14 9:56 AM, Yaser Hosseini wrote: hi gromacs users i got this error what can i do?? Program pdb2gmx, VERSION 4.6.5 Source code file:

Re: [gmx-users] gromacs-4.6.5 topol file error

2014-09-25 Thread Justin Lemkul
On 9/25/14 2:15 PM, yaser wrote: i did it but i get this error again. If the file is, in fact in the working directory and has readable permissions, it is impossible to trigger this error. -Justin Sent from my iPad On Sep 25, 2014, at 19:29, Justin Lemkul jalem...@vt.edu wrote: