Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Alexander Alexander
Hi, I was wondering if it is normal to have table_b1,2,3,4.xvg like the attached figures? They are the result if BI (similar script as hexane example) over a 500 ns nvt simulation of a single molecule. What could be the meaning of the straight line passing from point (0,0) in table_b1.xvg for

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Christoph Junghans
On Thu, Apr 12, 2018 at 3:39 AM, Alexander Alexander wrote: > > Hi, > > I was wondering if it is normal to have table_b1,2,3,4.xvg like the attached > figures? They are the result if BI (similar script as hexane example) over a > 500 ns nvt simulation of a single molecule. What could be the meanin

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Alexander Alexander
On Thursday, April 12, 2018 at 8:14:42 AM UTC-4, Christoph Junghans wrote: > > On Thu, Apr 12, 2018 at 3:39 AM, Alexander Alexander > > wrote: > > > > Hi, > > > > I was wondering if it is normal to have table_b1,2,3,4.xvg like the > attached > > figures? They are the result if BI (similar

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Christoph Junghans
On Thu, Apr 12, 2018 at 9:57 AM, Alexander Alexander wrote: > > > On Thursday, April 12, 2018 at 8:14:42 AM UTC-4, Christoph Junghans wrote: >> >> On Thu, Apr 12, 2018 at 3:39 AM, Alexander Alexander >> wrote: >> > >> > Hi, >> > >> > I was wondering if it is normal to have table_b1,2,3,4.xvg like

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Alexander Alexander
Thanks. On Thursday, April 12, 2018 at 12:43:54 PM UTC-4, Christoph Junghans wrote: > > On Thu, Apr 12, 2018 at 9:57 AM, Alexander Alexander > > wrote: > > > > > > On Thursday, April 12, 2018 at 8:14:42 AM UTC-4, Christoph Junghans > wrote: > >> > >> On Thu, Apr 12, 2018 at 3:39 AM, Alexan

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Alexander Alexander
Hi Christoph, I guess I found out what do you mean, I hope the attached bonded tables for 3-bead system would be fine. Best regards, Alex On Thursday, April 12, 2018 at 1:26:37 PM UTC-4, Alexander Alexander wrote: > > > Thanks. > > On Thursday, April 12, 2018 at 12:43:54 PM UTC-4, Christoph Ju

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Christoph Junghans
On Thu, Apr 12, 2018 at 11:26 AM, Alexander Alexander wrote: > > Thanks. > > On Thursday, April 12, 2018 at 12:43:54 PM UTC-4, Christoph Junghans wrote: >> >> On Thu, Apr 12, 2018 at 9:57 AM, Alexander Alexander >> wrote: >> > >> > >> > On Thursday, April 12, 2018 at 8:14:42 AM UTC-4, Christoph J

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Christoph Junghans
On Thu, Apr 12, 2018 at 2:03 PM, Alexander Alexander wrote: > > Hi Christoph, > > I guess I found out what do you mean, I hope the attached bonded tables for > 3-bead system would be fine. Yeah these one look better, if you zoom around the minimum you should see some structure for the Boltzmann in

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Alexander Alexander
Thank you. An then these parameter 1000 4.0 which usually comes in the very end of settings.xml of IBI in the section, are again mx of potential and end of it, which should be larger than all our end table in each section. On Thursday, April 12, 2018 at 4:09:27 PM UTC-4, Christoph Jungha

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Christoph Junghans
On Thu, Apr 12, 2018 at 2:28 PM, Alexander Alexander wrote: > > Thank you. > > An then these parameter > 1000 > 4.0 > which usually comes in the very end of settings.xml of IBI in the > section, are again mx of potential and end of it, which should be larger > than all our end table in each s

Re: [votca] potential_shift.pl --type angle failed in step 5

2018-04-12 Thread Alexander Alexander
On Thursday, April 12, 2018 at 4:55:47 PM UTC-4, Christoph Junghans wrote: > > On Thu, Apr 12, 2018 at 2:28 PM, Alexander Alexander > > wrote: > > > > Thank you. > > > > An then these parameter > > 1000 > > 4.0 > > which usually comes in the very end of settings.xml of IBI in the >