[gmx-users] Warning: atom is missing in residue

2014-02-14 Thread Ehsan Sadeghi
Hi gmx users, When I run gromacs, there is an issue with the molecules with more than one residue. for example, for this pdb file: ATOM 1 C1 VOD 0 8.441 1.158 0.141 1.00 0.00 C ATOM 2 H1 VOD 0 9.420 1.340 0.570 1.00 0.00 H

Re: [gmx-users] Warning: atom is missing in residue

2014-02-14 Thread Justin Lemkul
On 2/14/14, 6:24 PM, Ehsan Sadeghi wrote: Hi gmx users, When I run gromacs, there is an issue with the molecules with more than one residue. for example, for this pdb file: ATOM 1 C1 VOD 0 8.441 1.158 0.141 1.00 0.00 C ATOM 2 H1 VOD 0 9.420

Re: [gmx-users] Warning: atom is missing in residue

2014-02-14 Thread ehs
Thanks Justin. But I found some residue int the rtp file which have more than one residue inside them such as: [ TYR ] [ atoms ] N N-0.31000 0 H H 0.31000 0 CA CH1 0.0 1 CB CH2 0.0 1 CG C 0.0 1 CD1 C

Re: [gmx-users] Warning: atom is missing in residue

2014-02-14 Thread Justin Lemkul
On 2/14/14, 7:30 PM, ehs wrote: Thanks Justin. But I found some residue int the rtp file which have more than one residue inside them such as: [ TYR ] [ atoms ] N N-0.31000 0 H H 0.31000 0 CA CH1 0.0 1 CB CH2 0.0 1 CG