Re: [gmx-users] use of DPOSRES without pdb2gmx

2019-01-17 Thread pbuscemi
Justin, Thanks, Bartimaeus -Original Message- From: gromacs.org_gmx-users-boun...@maillist.sys.kth.se On Behalf Of Justin Lemkul Sent: Thursday, January 17, 2019 2:44 PM To: gmx-us...@gromacs.org Subject: Re: [gmx-users] use of DPOSRES without pdb2gmx On 1/17/19 3:33 PM, pbusc

Re: [gmx-users] use of DPOSRES without pdb2gmx

2019-01-17 Thread Justin Lemkul
On 1/17/19 3:33 PM, pbusc...@q.com wrote: Dear Users, Suppose you do not use pdb2gmx and therefore do not use the -I option for all constraints. Suppose further you do not generate a restraint file for the non-protein molecules in the model. Then what effect, if any, does setting

[gmx-users] use of DPOSRES without pdb2gmx

2019-01-17 Thread pbuscemi
Dear Users, Suppose you do not use pdb2gmx and therefore do not use the -I option for all constraints. Suppose further you do not generate a restraint file for the non-protein molecules in the model. Then what effect, if any, does setting constraints = all-bonds or h-bonds have ? Thanks