Amber Archive Jan 2017 by author
670 messages
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Starting
Mon Jan 02 2017 - 02:30:02 PST,
Ending
Tue Jan 31 2017 - 20:30:03 PST
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A kS
Re: [AMBER] Problem in not defining the hybridization of a atomtype
(Mon Jan 02 2017 - 08:33:24 PST)
abdennour braka
[AMBER] Center atoms (translate & rotate reference)
(Wed Jan 18 2017 - 08:40:07 PST)
Abhilash J
[AMBER] Multiple ligands in MMGBSA
(Tue Jan 31 2017 - 08:20:05 PST)
Ada Sedova
Re: [AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 20:04:45 PST)
Re: [AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 13:29:37 PST)
Re: [AMBER] Fwd: amber14 parallel build problems
(Wed Jan 18 2017 - 12:30:21 PST)
Re: [AMBER] Fwd: amber14 parallel build problems
(Wed Jan 18 2017 - 12:20:31 PST)
Re: [AMBER] Fwd: amber14 parallel build problems
(Wed Jan 18 2017 - 12:05:50 PST)
Re: [AMBER] Fwd: amber14 parallel build problems
(Wed Jan 18 2017 - 11:58:35 PST)
[AMBER] Fwd: amber14 parallel build problems
(Wed Jan 18 2017 - 11:44:38 PST)
Re: [AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 11:43:37 PST)
Re: [AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 11:41:22 PST)
[AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 10:19:24 PST)
Re: [AMBER] amber14 parallel build problems
(Sun Jan 15 2017 - 11:32:04 PST)
Re: [AMBER] amber14 parallel build problems
(Sun Jan 15 2017 - 11:18:23 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 20:01:57 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 09:33:28 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 09:14:36 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 09:01:04 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 08:48:25 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 07:22:41 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 06:22:58 PST)
Re: [AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 20:22:09 PST)
Re: [AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 12:29:48 PST)
Re: [AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 12:25:11 PST)
Re: [AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 12:12:43 PST)
[AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 09:52:40 PST)
Adrian Roitberg
Re: [AMBER] visualization problem
(Tue Jan 31 2017 - 09:24:42 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:47:47 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 10:45:44 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 09:52:16 PST)
Re: [AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 13:09:35 PST)
Re: [AMBER] Error opening unit 15: File "remd.groupfile" is missing or unreadable
(Mon Jan 23 2017 - 15:31:05 PST)
Re: [AMBER] REMD_suggestion
(Mon Jan 23 2017 - 09:01:31 PST)
Re: [AMBER] REMD_suggestion
(Mon Jan 23 2017 - 08:50:29 PST)
Re: [AMBER] Sander input into Gaussian
(Thu Jan 12 2017 - 10:23:48 PST)
Re: [AMBER] QMMM with MOPAC2016
(Tue Jan 10 2017 - 15:35:30 PST)
[AMBER] VMD/netcdf
(Thu Jan 05 2017 - 07:09:50 PST)
Aishani Prem
[AMBER] Radius of gyration for the hydrophobic core
(Thu Jan 12 2017 - 15:51:38 PST)
Alan
Re: [AMBER] Reference for GAFF2?
(Wed Jan 18 2017 - 00:04:06 PST)
[AMBER] Reference for GAFF2?
(Tue Jan 17 2017 - 14:36:34 PST)
[AMBER] ACPYPE now works with GAFF2
(Tue Jan 17 2017 - 10:42:26 PST)
Re: [AMBER] ACPYPE ERROR
(Tue Jan 10 2017 - 09:24:55 PST)
Re: [AMBER] ACPYPE ERROR
(Tue Jan 10 2017 - 00:38:38 PST)
Albert
Re: [AMBER] visualization problem
(Tue Jan 31 2017 - 08:18:21 PST)
Re: [AMBER] visualization problem
(Tue Jan 31 2017 - 08:17:05 PST)
Re: [AMBER] visualization problem
(Tue Jan 31 2017 - 08:13:49 PST)
[AMBER] visualization problem
(Tue Jan 31 2017 - 08:09:13 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 07:41:15 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 06:57:07 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 06:42:21 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 05:38:27 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 05:36:24 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 01:27:37 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 00:00:31 PST)
[AMBER] MMPBSA failed
(Mon Jan 30 2017 - 23:28:55 PST)
[AMBER] how to Neutralize system automatically?
(Fri Jan 27 2017 - 02:00:37 PST)
Re: [AMBER] Reference for GAFF2?
(Wed Jan 18 2017 - 00:16:07 PST)
Re: [AMBER] Reference for GAFF2?
(Tue Jan 17 2017 - 22:53:44 PST)
Re: [AMBER] potential energy
(Fri Jan 13 2017 - 03:16:48 PST)
Re: [AMBER] potential energy
(Fri Jan 13 2017 - 03:12:11 PST)
[AMBER] potential energy
(Fri Jan 13 2017 - 00:42:08 PST)
Andrea Spitaleri
Re: [AMBER] script to run background job?
(Tue Jan 31 2017 - 00:04:09 PST)
Andreas Tosstorff
Re: [AMBER] visualization problem
(Tue Jan 31 2017 - 08:21:32 PST)
Re: [AMBER] lj1264 pmemd.cuda
(Tue Jan 31 2017 - 05:18:48 PST)
[AMBER] lj1264 pmemd.cuda
(Tue Jan 31 2017 - 01:40:32 PST)
[AMBER] VMD not working after parmed
(Mon Jan 30 2017 - 02:33:56 PST)
Re: [AMBER] Peptide with non-standard residues
(Fri Jan 27 2017 - 07:47:59 PST)
[AMBER] Peptide with non-standard residues
(Fri Jan 27 2017 - 03:03:36 PST)
Re: [AMBER] From PMF to free energy of binding
(Tue Jan 24 2017 - 07:42:39 PST)
Re: [AMBER] From PMF to free energy of binding
(Tue Jan 24 2017 - 00:53:30 PST)
[AMBER] From PMF to free energy of binding
(Mon Jan 23 2017 - 09:03:17 PST)
Andrew Schaub
Re: [AMBER] CpHREMD (explicit solvent) parameter settings inquiry
(Mon Jan 16 2017 - 17:50:57 PST)
[AMBER] CpHREMD (explicit solvent) parameter settings inquiry
(Sun Jan 15 2017 - 01:39:41 PST)
Anna Cebrian Prats
[AMBER] Radical Carbon
(Tue Jan 31 2017 - 06:54:58 PST)
[AMBER] Parameters
(Fri Jan 27 2017 - 09:00:24 PST)
anu chandra
Re: [AMBER] cpptraj PCA of crystal structure
(Thu Jan 12 2017 - 05:00:09 PST)
Re: [AMBER] minimum distance between two sets of atoms
(Thu Jan 12 2017 - 04:59:38 PST)
[AMBER] minimum distance between two sets of atoms
(Wed Jan 11 2017 - 08:55:03 PST)
Re: [AMBER] cpptraj PCA of crystal structure
(Tue Jan 10 2017 - 02:50:23 PST)
[AMBER] cpptraj PCA of crystal structure
(Thu Jan 05 2017 - 08:25:48 PST)
asdda asa
Re: [AMBER] [david.case.rutgers.edu: Re: Modified residue separated in leap module]
(Mon Jan 23 2017 - 17:00:27 PST)
Re: [AMBER] [david.case.rutgers.edu: Re: Modified residue separated in leap module]
(Mon Jan 23 2017 - 12:34:29 PST)
[AMBER] Modified residue separated in leap module
(Mon Jan 16 2017 - 17:16:10 PST)
Re: [AMBER] Handling modified residues
(Sat Jan 14 2017 - 04:50:18 PST)
Re: [AMBER] Handling modified residues
(Sat Jan 14 2017 - 04:10:59 PST)
[AMBER] Handling modified residues
(Sat Jan 14 2017 - 01:12:46 PST)
Aseel Bala
Re: [AMBER] ambmask issue
(Thu Jan 19 2017 - 11:06:13 PST)
Re: [AMBER] ambmask issue
(Thu Jan 19 2017 - 10:16:48 PST)
Re: [AMBER] ambmask issue
(Thu Jan 19 2017 - 07:20:56 PST)
Re: [AMBER] ambmask issue
(Wed Jan 18 2017 - 14:20:15 PST)
Re: [AMBER] ambmask issue
(Wed Jan 18 2017 - 12:53:44 PST)
Re: [AMBER] antechamber syntax error
(Wed Jan 18 2017 - 07:25:52 PST)
[AMBER] ambmask issue
(Mon Jan 16 2017 - 13:50:20 PST)
Re: [AMBER] Sander input into Gaussian
(Thu Jan 12 2017 - 13:02:07 PST)
Re: [AMBER] Sander input into Gaussian
(Thu Jan 12 2017 - 10:17:37 PST)
[AMBER] Sander input into Gaussian
(Wed Jan 11 2017 - 13:55:58 PST)
Aseel Bala Ahmed
[AMBER] antechamber syntax error
(Tue Jan 17 2017 - 17:38:03 PST)
Azade Yazdan Yar
Re: [AMBER] How to have a certain number of water molecules?
(Fri Jan 13 2017 - 02:57:49 PST)
[AMBER] antechamber: why the net charge does not sum up to zero?
(Thu Jan 05 2017 - 02:52:34 PST)
Bala subramanian
[AMBER] Kmeans-clustering : AvgDist query
(Wed Jan 18 2017 - 02:51:04 PST)
benedikt.diewald.fau.de
[AMBER] Issue with solvateOct for a large system
(Wed Jan 25 2017 - 07:03:34 PST)
Bill Ross
Re: [AMBER] clustering
(Tue Jan 31 2017 - 10:11:20 PST)
Re: [AMBER] How to make restrt file for specific step
(Fri Jan 27 2017 - 09:01:57 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 15:34:33 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 13:13:01 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 12:13:10 PST)
Re: [AMBER] [david.case.rutgers.edu: Re: Modified residue separated in leap module]
(Mon Jan 23 2017 - 15:33:24 PST)
Re: [AMBER] In REMD there is two irest=0 in amber tut
(Mon Jan 23 2017 - 11:16:47 PST)
Re: [AMBER] Installing Amber
(Sat Jan 21 2017 - 01:10:55 PST)
Re: [AMBER] Continue running an incomplete MD with NMR restraints
(Sat Jan 14 2017 - 23:18:54 PST)
Bin Sun
[AMBER] alpha helical content as reaction coordinate
(Sun Jan 15 2017 - 09:28:15 PST)
BOSISIO Stefano
[AMBER] Reproduce tetraalanine Phi and Psi amplitudes ff99SB with Paramfit
(Tue Jan 24 2017 - 11:07:29 PST)
Carlos Simmerling
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 09:46:53 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 07:49:42 PST)
Re: [AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 16:37:40 PST)
Re: [AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 12:50:28 PST)
Re: [AMBER] Reproduce tetraalanine Phi and Psi amplitudes ff99SB with Paramfit
(Tue Jan 24 2017 - 12:49:13 PST)
Re: [AMBER] potential energy
(Fri Jan 13 2017 - 03:35:26 PST)
Re: [AMBER] potential energy
(Fri Jan 13 2017 - 03:14:55 PST)
Re: [AMBER] potential energy
(Fri Jan 13 2017 - 03:11:20 PST)
Re: [AMBER] Force field modifications
(Fri Jan 06 2017 - 13:28:42 PST)
Re: [AMBER] Force field modifications
(Fri Jan 06 2017 - 13:22:47 PST)
Carlos SOTO GARZA
Re: [AMBER] QMMM with MOPAC2016
(Tue Jan 10 2017 - 15:52:23 PST)
[AMBER] QMMM with MOPAC2016
(Tue Jan 10 2017 - 15:06:10 PST)
Casalini Tommaso
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:45:55 PST)
Re: [AMBER] Simulating lipid bilayer below phase transition temperature
(Tue Jan 24 2017 - 07:41:32 PST)
[AMBER] Simulating lipid bilayer below phase transition temperature
(Mon Jan 23 2017 - 14:12:24 PST)
case
Re: [AMBER] mpi error in Amber16
(Mon Jan 30 2017 - 14:52:46 PST)
Chase Zagorec-Marks
Re: [AMBER] Implicit Solvent CpHMD
(Fri Jan 27 2017 - 17:52:17 PST)
[AMBER] Implicit Solvent CpHMD
(Thu Jan 26 2017 - 12:29:21 PST)
Re: [AMBER] Python Programs
(Mon Jan 09 2017 - 16:56:35 PST)
Re: [AMBER] Python Programs
(Mon Jan 09 2017 - 13:29:43 PST)
Re: [AMBER] Python Programs
(Mon Jan 09 2017 - 13:13:06 PST)
[AMBER] Python Programs
(Mon Jan 09 2017 - 12:53:28 PST)
Chris Neale
Re: [AMBER] pmemd.cuda.MPI not running well with SGE
(Wed Jan 18 2017 - 10:06:59 PST)
[AMBER] matching times from .out with frames from .mdcrd
(Tue Jan 17 2017 - 10:00:30 PST)
[AMBER] how to use depreciated cpptraj code
(Mon Jan 02 2017 - 11:21:24 PST)
Christina Bergonzo
Re: [AMBER] lj1264 pmemd.cuda
(Tue Jan 31 2017 - 06:11:59 PST)
Re: [AMBER] cpptraj clustering doubt
(Thu Jan 05 2017 - 04:48:21 PST)
Coleman, Marcus [JRDUS Non-J&J]
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 21:03:57 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 19:45:20 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 19:24:06 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 19:23:04 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 19:08:57 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 16:17:13 PST)
[AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 15:50:54 PST)
colvin
Re: [AMBER] autoimage
(Thu Jan 12 2017 - 21:09:00 PST)
[AMBER] autoimage
(Mon Jan 09 2017 - 00:10:57 PST)
Daniel Mermelstein
Re: [AMBER] Thermodynamic Integration on GPU in AMBER16?
(Thu Jan 26 2017 - 18:58:21 PST)
Daniel Roe
Re: [AMBER] clustering
(Tue Jan 31 2017 - 09:59:59 PST)
Re: [AMBER] cpptraj: autoimage DCD trajectories (with Amber topology)
(Tue Jan 31 2017 - 09:48:08 PST)
Re: [AMBER] visualization problem
(Tue Jan 31 2017 - 09:22:10 PST)
Re: [AMBER] strip inpcrd
(Tue Jan 31 2017 - 05:10:32 PST)
Re: [AMBER] cpptraj: autoimage DCD trajectories (with Amber topology)
(Tue Jan 31 2017 - 05:07:59 PST)
Re: [AMBER] cpptraj: autoimage DCD trajectories (with Amber topology)
(Tue Jan 31 2017 - 03:54:53 PST)
Re: [AMBER] hbond Backbone CPPTRAJ.
(Mon Jan 30 2017 - 08:53:15 PST)
Re: [AMBER] How to make restrt file for specific step
(Fri Jan 27 2017 - 10:18:15 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 12:30:16 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 08:00:38 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:09:47 PST)
Re: [AMBER] intermolecular hydrogen bonding.
(Wed Jan 25 2017 - 05:53:10 PST)
Re: [AMBER] Pure POPC Membrane Tilts during MD simulation
(Tue Jan 24 2017 - 10:53:54 PST)
Re: [AMBER] Pure POPC Membrane Tilts during MD simulation
(Tue Jan 24 2017 - 05:23:29 PST)
Re: [AMBER] rmsf value for 2 chains
(Fri Jan 20 2017 - 13:56:55 PST)
Re: [AMBER] Kmeans-clustering : AvgDist query
(Fri Jan 20 2017 - 13:54:29 PST)
Re: [AMBER] Distance between the center of gravities of tow molecules-CPPTRAJ
(Thu Jan 19 2017 - 11:21:24 PST)
Re: [AMBER] ambmask issue
(Thu Jan 19 2017 - 07:34:17 PST)
Re: [AMBER] Center atoms (translate & rotate reference)
(Thu Jan 19 2017 - 07:00:02 PST)
Re: [AMBER] Regarding trajectory analysis
(Thu Jan 19 2017 - 06:57:15 PST)
Re: [AMBER] cpptraj: list command throws seqfault
(Thu Jan 19 2017 - 06:42:36 PST)
Re: [AMBER] cpptraj: list command throws seqfault
(Thu Jan 19 2017 - 05:22:20 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 16:23:45 PST)
Re: [AMBER] matching times from .out with frames from .mdcrd
(Tue Jan 17 2017 - 10:19:21 PST)
Re: [AMBER] autoimage
(Tue Jan 17 2017 - 07:35:21 PST)
Re: [AMBER] autoimage
(Tue Jan 17 2017 - 06:38:19 PST)
Re: [AMBER] intermolecular hydrogen bonding.
(Tue Jan 17 2017 - 06:20:05 PST)
Re: [AMBER] pmemd.cuda.MPI not running well with SGE
(Tue Jan 17 2017 - 06:07:29 PST)
Re: [AMBER] autoimage
(Fri Jan 13 2017 - 10:50:01 PST)
Re: [AMBER] Issues for updating AmberTools 16 - update.14
(Thu Jan 12 2017 - 10:36:47 PST)
Re: [AMBER] verification of ligand rmsd script.
(Thu Jan 12 2017 - 06:05:11 PST)
Re: [AMBER] All working now, except some trajectories
(Wed Jan 11 2017 - 08:47:00 PST)
Re: [AMBER] verification of ligand rmsd script.
(Wed Jan 11 2017 - 06:46:41 PST)
Re: [AMBER] cpptraj PCA of crystal structure
(Tue Jan 10 2017 - 05:03:48 PST)
Re: [AMBER] autoimage
(Mon Jan 09 2017 - 06:40:52 PST)
Re: [AMBER] Fw: Problems with imaging
(Mon Jan 09 2017 - 06:25:41 PST)
Re: [AMBER] cpptraj clustering doubt
(Mon Jan 09 2017 - 06:05:53 PST)
Re: [AMBER] cpptraj clustering doubt
(Sun Jan 08 2017 - 10:32:26 PST)
Re: [AMBER] cpptraj PCA of crystal structure
(Thu Jan 05 2017 - 08:30:14 PST)
Re: [AMBER] Problems about membrane protein simulation
(Thu Jan 05 2017 - 06:14:14 PST)
Re: [AMBER] 'Diffusion' calculation in Ptraj - could not understand a description of Ptraj code in Amber14
(Thu Jan 05 2017 - 05:52:17 PST)
Re: [AMBER] cpptraj clustering doubt
(Thu Jan 05 2017 - 05:30:50 PST)
Re: [AMBER] ZINC PERMEATION PATHWAY
(Wed Jan 04 2017 - 06:13:49 PST)
Re: [AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Tue Jan 03 2017 - 08:25:24 PST)
Re: [AMBER] Remove motion of center of mass after obtaining trajectory
(Tue Jan 03 2017 - 06:06:17 PST)
Re: [AMBER] failed to visualize trajectories in vmd.
(Tue Jan 03 2017 - 05:31:39 PST)
Re: [AMBER] how to use depreciated cpptraj code
(Tue Jan 03 2017 - 05:24:28 PST)
Re: [AMBER] Error in reordering pH-REMD trajectories
(Tue Jan 03 2017 - 05:15:59 PST)
Danu Fajar
[AMBER] Fwd: Error during installation process
(Tue Jan 31 2017 - 06:25:07 PST)
David A Case
Re: [AMBER] Installing Amber
(Wed Jan 25 2017 - 05:03:35 PST)
Re: [AMBER] Interpreting energy decomposition in Amber thermodynamic integration
(Fri Jan 20 2017 - 09:25:05 PST)
Re: [AMBER] matching times from .out with frames from .mdcrd
(Wed Jan 18 2017 - 12:37:06 PST)
Re: [AMBER] Error while creation topology and coordinate files in tleap
(Wed Jan 18 2017 - 12:32:50 PST)
Re: [AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 12:25:21 PST)
Re: [AMBER] antechamber syntax error
(Wed Jan 18 2017 - 12:18:51 PST)
Re: [AMBER] antechamber syntax error
(Wed Jan 18 2017 - 05:27:06 PST)
David Case
Re: [AMBER] problems with input file preparation
(Sun Jan 29 2017 - 10:44:28 PST)
Re: [AMBER] amber installation test question
(Sat Jan 28 2017 - 17:48:17 PST)
Re: [AMBER] amber installation test question
(Sat Jan 28 2017 - 07:01:15 PST)
Re: [AMBER] amber installation test failure
(Fri Jan 27 2017 - 12:52:11 PST)
Re: [AMBER] Parameters
(Fri Jan 27 2017 - 12:49:51 PST)
Re: [AMBER] Is there any command in tleap by which I can change Met to Leu
(Fri Jan 27 2017 - 12:47:43 PST)
Re: [AMBER] Peptide with non-standard residues
(Fri Jan 27 2017 - 12:46:33 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 12:42:19 PST)
Re: [AMBER] Peptide with non-standard residues
(Fri Jan 27 2017 - 06:39:27 PST)
Re: [AMBER] 5' Terminal Phosphate Parameters
(Fri Jan 27 2017 - 06:30:01 PST)
Re: [AMBER] 5' Terminal Phosphate Parameters
(Thu Jan 26 2017 - 19:05:11 PST)
Re: [AMBER] 5' Terminal Phosphate Parameters
(Thu Jan 26 2017 - 09:21:00 PST)
Re: [AMBER] Give the correct charge to heme using antechamber
(Thu Jan 26 2017 - 09:11:44 PST)
Re: [AMBER] Installing Amber
(Thu Jan 26 2017 - 05:21:50 PST)
Re: [AMBER] Issue with solvateOct for a large system
(Wed Jan 25 2017 - 11:10:12 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 11:06:12 PST)
Re: [AMBER] QM method used for force constants derivation in GAFF2 ?
(Tue Jan 24 2017 - 10:44:34 PST)
Re: [AMBER] error in finding vdW (or other) parameters for type
(Tue Jan 24 2017 - 05:52:20 PST)
Re: [AMBER] From PMF to free energy of binding
(Tue Jan 24 2017 - 05:46:20 PST)
Re: [AMBER] INCREASING BOX SIZE
(Mon Jan 23 2017 - 18:48:58 PST)
[AMBER] [david.case.rutgers.edu: Re: Modified residue separated in leap module]
(Mon Jan 23 2017 - 04:52:52 PST)
Re: [AMBER] Interpreting energy decomposition in Amber thermodynamic integration
(Mon Jan 23 2017 - 04:45:53 PST)
Re: [AMBER] constrain nitrate as bound and neutral
(Sat Jan 21 2017 - 19:24:47 PST)
Re: [AMBER] Ntt value for Nose-hoover chain thermostat
(Sat Jan 21 2017 - 19:15:11 PST)
Re: [AMBER] valiine chirality inversion
(Sat Jan 21 2017 - 19:09:18 PST)
Re: [AMBER] Interpreting energy decomposition in Amber thermodynamic integration
(Sat Jan 21 2017 - 19:05:02 PST)
Re: [AMBER] ambmask issue
(Thu Jan 19 2017 - 05:25:36 PST)
Re: [AMBER] Modified residue separated in leap module
(Tue Jan 17 2017 - 05:53:56 PST)
Re: [AMBER] alpha helical content as reaction coordinate
(Sun Jan 15 2017 - 10:52:42 PST)
Re: [AMBER] Continue running an incomplete MD with NMR restraints
(Sun Jan 15 2017 - 10:44:18 PST)
Re: [AMBER] amber14 parallel build problems
(Sun Jan 15 2017 - 10:42:00 PST)
Re: [AMBER] Some notes
(Sat Jan 14 2017 - 12:41:03 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 12:05:59 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 11:50:20 PST)
Re: [AMBER] How to have a certain number of water molecules?
(Fri Jan 13 2017 - 10:29:43 PST)
Re: [AMBER] TLEAP error
(Thu Jan 12 2017 - 08:57:27 PST)
Re: [AMBER] TLEAP error
(Thu Jan 12 2017 - 05:17:22 PST)
Re: [AMBER] All working now, except some trajectories
(Wed Jan 11 2017 - 11:57:32 PST)
Re: [AMBER] tLeap adding non-library hydrogens
(Sun Jan 08 2017 - 18:43:32 PST)
Re: [AMBER] antechamber: why the net charge does not sum up to zero?
(Sun Jan 08 2017 - 18:41:56 PST)
Re: [AMBER] Amber16 benchmark suite error
(Sun Jan 08 2017 - 05:25:45 PST)
Re: [AMBER] antechamber: why the net charge does not sum up to zero?
(Sat Jan 07 2017 - 15:12:49 PST)
Re: [AMBER] Simple normal mode analysis in amber
(Sat Jan 07 2017 - 15:09:10 PST)
Re: [AMBER] tLeap adding non-library hydrogens
(Sat Jan 07 2017 - 14:58:10 PST)
Re: [AMBER] Force field modifications
(Fri Jan 06 2017 - 14:38:14 PST)
Re: [AMBER] Question about Empirical Valence Bond(EVB) simulation
(Thu Jan 05 2017 - 18:17:18 PST)
Re: [AMBER] compatibility issues
(Thu Jan 05 2017 - 17:34:31 PST)
Re: [AMBER] Ion Parameters for tip4pfb
(Thu Jan 05 2017 - 17:19:14 PST)
Re: [AMBER] compatibility issues
(Wed Jan 04 2017 - 19:06:03 PST)
Re: [AMBER] compatibility issues
(Wed Jan 04 2017 - 18:58:33 PST)
Re: [AMBER] tLeap and acetonitrile/chloroform solvation
(Wed Jan 04 2017 - 18:51:18 PST)
Re: [AMBER] tLeap adding non-library hydrogens
(Wed Jan 04 2017 - 05:20:47 PST)
Re: [AMBER] Problem in not defining the hybridization of a atomtype
(Mon Jan 02 2017 - 08:49:57 PST)
Re: [AMBER] failed to visualize trajectories in vmd.
(Mon Jan 02 2017 - 07:20:20 PST)
Re: [AMBER] failed to visualize trajectories in vmd.
(Mon Jan 02 2017 - 06:14:03 PST)
David Poole
Re: [AMBER] tLeap adding non-library hydrogens
(Sun Jan 08 2017 - 12:41:46 PST)
Re: [AMBER] tLeap adding non-library hydrogens
(Sat Jan 07 2017 - 04:07:10 PST)
[AMBER] tLeap adding non-library hydrogens
(Wed Jan 04 2017 - 02:07:31 PST)
Debayan Chakraborty
Re: [AMBER] Regarding forcefields for Z-DNA
(Sat Jan 28 2017 - 12:29:24 PST)
Debodyuti Dutta
[AMBER] Regarding trajectory analysis
(Wed Jan 18 2017 - 21:24:48 PST)
Dickson, Callum J
Re: [AMBER] Simulating lipid bilayer below phase transition temperature
(Tue Jan 24 2017 - 11:06:28 PST)
Re: [AMBER] Pure POPC Membrane Tilts during MD simulation
(Mon Jan 23 2017 - 14:41:28 PST)
Re: [AMBER] Simulating lipid bilayer below phase transition temperature
(Mon Jan 23 2017 - 14:37:52 PST)
Re: [AMBER] lipid membrane tleap problem amber16
(Tue Jan 17 2017 - 06:29:45 PST)
DmitryASuplatov
[AMBER] TIP4P-Ew vs TIP3 vs TIP5
(Tue Jan 17 2017 - 07:21:30 PST)
DmitrySuplatov
Re: [AMBER] TIP4P-Ew vs TIP3 vs TIP5
(Wed Jan 18 2017 - 03:13:35 PST)
Dr. Anselm Horn
[AMBER] Molecular Modelling Workshop: March 27-29, 2017 in Erlangen, Germany
(Tue Jan 24 2017 - 00:20:22 PST)
Dr. Robert Molt
Re: [AMBER] adqmmm with PM6 for copper complex
(Fri Jan 20 2017 - 05:25:34 PST)
Dwight McGee
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 08:31:35 PST)
Elisa Pieri
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 08:12:59 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:53:45 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:42:31 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:30:26 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:10:19 PST)
[AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 06:35:11 PST)
Re: [AMBER] Error in reordering pH-REMD trajectories
(Tue Jan 03 2017 - 05:22:25 PST)
Re: [AMBER] Error in reordering pH-REMD trajectories
(Tue Jan 03 2017 - 04:09:30 PST)
Re: [AMBER] cpptraj LIE on a ghost-atom
(Tue Jan 03 2017 - 03:36:25 PST)
[AMBER] Error in reordering pH-REMD trajectories
(Mon Jan 02 2017 - 12:31:16 PST)
Ella Gale
[AMBER] Simple normal mode analysis in amber
(Sat Jan 07 2017 - 09:15:45 PST)
Elvis Martis
Re: [AMBER] strip inpcrd
(Tue Jan 31 2017 - 01:33:17 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 01:12:49 PST)
Re: [AMBER] script to run background job?
(Mon Jan 30 2017 - 08:35:26 PST)
Re: [AMBER] is there any way by which I can use tleap to do mutation?
(Sat Jan 28 2017 - 21:12:56 PST)
Re: [AMBER] problems with input file preparation
(Sat Jan 28 2017 - 21:07:34 PST)
Re: [AMBER] Give the correct charge to heme using antechamber
(Thu Jan 26 2017 - 20:22:38 PST)
Re: [AMBER] Error while creation topology and coordinate files in tleap
(Wed Jan 18 2017 - 03:06:13 PST)
Re: [AMBER] TIP4P-Ew vs TIP3 vs TIP5
(Tue Jan 17 2017 - 21:03:57 PST)
Re: [AMBER] verification of ligand rmsd script.
(Wed Jan 11 2017 - 06:38:15 PST)
Re: [AMBER] restrain protein with two different force constant
(Tue Jan 10 2017 - 07:11:26 PST)
Re: [AMBER] cpptraj clustering doubt
(Sat Jan 07 2017 - 06:56:27 PST)
Re: [AMBER] cpptraj clustering doubt
(Thu Jan 05 2017 - 03:41:22 PST)
Re: [AMBER] failed to visualize trajectories in vmd.
(Mon Jan 02 2017 - 08:20:07 PST)
Eric Lang
[AMBER] CpHMD – Effect of explicit ions when calculating the pKa of model compounds
(Mon Jan 30 2017 - 04:33:37 PST)
Re: [AMBER] how to Neutralize system automatically?
(Fri Jan 27 2017 - 03:34:35 PST)
erik rp zuiderweg
[AMBER] Some notes
(Sat Jan 14 2017 - 11:12:01 PST)
[AMBER] All working now, except some trajectories
(Wed Jan 11 2017 - 07:48:22 PST)
Re: [AMBER] compatibility issues
(Thu Jan 05 2017 - 09:33:53 PST)
Re: [AMBER] compatibility issues
(Wed Jan 04 2017 - 10:50:08 PST)
[AMBER] compatibility issues
(Wed Jan 04 2017 - 09:54:18 PST)
Fabian Glaser
Re: [AMBER] Zinc +2 SMD pulling
(Wed Jan 04 2017 - 03:39:17 PST)
Fabian gmail
Re: [AMBER] ZINC PERMEATION PATHWAY
(Wed Jan 04 2017 - 06:59:02 PST)
[AMBER] ZINC PERMEATION PATHWAY
(Wed Jan 04 2017 - 05:09:53 PST)
Re: [AMBER] Zinc +2 SMD pulling
(Wed Jan 04 2017 - 02:24:44 PST)
[AMBER] Zinc +2 SMD pulling
(Wed Jan 04 2017 - 01:33:29 PST)
Fatemeh Fatemi
[AMBER] error in finding vdW (or other) parameters for type
(Tue Jan 24 2017 - 03:42:54 PST)
FyD
Re: [AMBER] Parameters
(Mon Jan 30 2017 - 01:12:16 PST)
Re: [AMBER] Parameters
(Mon Jan 30 2017 - 00:25:08 PST)
Re: [AMBER] 5' Terminal Phosphate Parameters
(Thu Jan 26 2017 - 22:47:42 PST)
Re: [AMBER] antechamber: why the net charge does not sum up to zero?
(Mon Jan 16 2017 - 22:04:01 PST)
[AMBER] Fwd: [AMBER-Developers] non-neutral ethane from antechamber
(Mon Jan 16 2017 - 21:40:17 PST)
Re: [AMBER] antechamber: why the net charge does not sum up to zero?
(Mon Jan 16 2017 - 06:51:38 PST)
Re: [AMBER] antechamber: why the net charge does not sum up to zero?
(Sun Jan 08 2017 - 10:25:07 PST)
Re: [AMBER] antechamber: why the net charge does not sum up to zero?
(Sat Jan 07 2017 - 10:33:39 PST)
Goetz, Andreas
Re: [AMBER] DFTB3 in Amber is not there, but it may be in gromacs.
(Tue Jan 31 2017 - 10:59:52 PST)
Re: [AMBER] About constraints on QM system of QM/MM simulation
(Wed Jan 18 2017 - 14:14:30 PST)
Re: [AMBER] QMMM with MOPAC2016
(Tue Jan 10 2017 - 15:37:30 PST)
Re: [AMBER] xmin and QM/MM
(Fri Jan 06 2017 - 02:37:44 PST)
Gustavo Seabra
Re: [AMBER] is there any way by which I can use tleap to do mutation?
(Mon Jan 30 2017 - 06:24:41 PST)
Hadházi Ádám
[AMBER] Free energy techniques for conformational changes and alchemical mutations
(Fri Jan 27 2017 - 02:25:20 PST)
[AMBER] Thermodynamic Integration on GPU in AMBER16?
(Thu Jan 26 2017 - 13:30:12 PST)
Hai Nguyen
Re: [AMBER] Fwd: Error during installation process
(Tue Jan 31 2017 - 20:12:26 PST)
Re: [AMBER] Fwd: Error during installation process
(Tue Jan 31 2017 - 09:58:15 PST)
Re: [AMBER] visualization problem
(Tue Jan 31 2017 - 08:15:03 PST)
Re: [AMBER] visualization problem
(Tue Jan 31 2017 - 08:11:19 PST)
Re: [AMBER] Fwd: Error during installation process
(Tue Jan 31 2017 - 06:29:46 PST)
Re: [AMBER] script to run background job?
(Mon Jan 30 2017 - 08:34:10 PST)
Re: [AMBER] Is there any command in tleap by which I can change Met to Leu
(Fri Jan 27 2017 - 13:06:53 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 12:11:14 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 11:56:29 PST)
Re: [AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 15:21:34 PST)
Re: [AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 11:33:43 PST)
Re: [AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 11:01:44 PST)
Re: [AMBER] Installing Amber
(Sat Jan 21 2017 - 21:55:26 PST)
Re: [AMBER] Installing Amber
(Fri Jan 20 2017 - 23:43:13 PST)
Re: [AMBER] Installing Amber
(Fri Jan 20 2017 - 21:58:11 PST)
Re: [AMBER] setup_equilibrate_input.x
(Thu Jan 19 2017 - 14:15:14 PST)
Re: [AMBER] ambmask issue
(Thu Jan 19 2017 - 10:52:17 PST)
Re: [AMBER] REMD_Multiple_GPU
(Thu Jan 19 2017 - 08:36:17 PST)
Re: [AMBER] ambmask issue
(Wed Jan 18 2017 - 14:38:37 PST)
Re: [AMBER] ambmask issue
(Wed Jan 18 2017 - 14:23:09 PST)
Re: [AMBER] ambmask issue
(Wed Jan 18 2017 - 12:59:09 PST)
Re: [AMBER] Fwd: amber14 parallel build problems
(Wed Jan 18 2017 - 12:23:37 PST)
Re: [AMBER] Fwd: amber14 parallel build problems
(Wed Jan 18 2017 - 12:09:32 PST)
Re: [AMBER] Fwd: amber14 parallel build problems
(Wed Jan 18 2017 - 12:00:09 PST)
Re: [AMBER] Fwd: amber14 parallel build problems
(Wed Jan 18 2017 - 11:54:20 PST)
Re: [AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 10:44:51 PST)
Re: [AMBER] amber16 Centos 7
(Wed Jan 18 2017 - 08:36:35 PST)
Re: [AMBER] REMD_suggestion
(Wed Jan 18 2017 - 08:33:45 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 19:46:52 PST)
Re: [AMBER] antechamber syntax error
(Tue Jan 17 2017 - 19:45:05 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 19:35:29 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 19:17:07 PST)
Re: [AMBER] ambmask issue
(Tue Jan 17 2017 - 11:15:08 PST)
Re: [AMBER] Single-Point MM-PBSA/GBSA Energy Calculations
(Sat Jan 14 2017 - 08:31:01 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 08:07:22 PST)
Re: [AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 21:07:51 PST)
Re: [AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 12:34:31 PST)
Re: [AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 12:26:40 PST)
Re: [AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 12:23:38 PST)
Re: [AMBER] New user needs help
(Wed Jan 11 2017 - 20:49:21 PST)
Re: [AMBER] minimum distance between two sets of atoms
(Wed Jan 11 2017 - 09:20:22 PST)
Re: [AMBER] /tmp/sh24281: Permission denied.
(Wed Jan 11 2017 - 08:05:12 PST)
Re: [AMBER] Error in leaprc.ff14SB (Amber14)
(Mon Jan 09 2017 - 21:39:46 PST)
Re: [AMBER] Python Programs
(Mon Jan 09 2017 - 13:41:48 PST)
Re: [AMBER] Python Programs
(Mon Jan 09 2017 - 13:20:43 PST)
Re: [AMBER] Python Programs
(Mon Jan 09 2017 - 13:05:50 PST)
Re: [AMBER] Split trajectory by atom
(Mon Jan 09 2017 - 06:26:30 PST)
Re: [AMBER] compatibility issues
(Thu Jan 05 2017 - 09:45:05 PST)
Re: [AMBER] compatibility issues
(Wed Jan 04 2017 - 11:06:31 PST)
Re: [AMBER] compatibility issues
(Wed Jan 04 2017 - 10:25:14 PST)
Re: [AMBER] compatibility issues
(Wed Jan 04 2017 - 10:00:00 PST)
Re: [AMBER] how to use depreciated cpptraj code
(Mon Jan 02 2017 - 11:36:51 PST)
Re: [AMBER] how to use depreciated cpptraj code
(Mon Jan 02 2017 - 11:33:16 PST)
Hannes Loeffler
Re: [AMBER] script to run background job?
(Tue Jan 31 2017 - 00:53:32 PST)
Re: [AMBER] script to run background job?
(Tue Jan 31 2017 - 00:23:00 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Mon Jan 30 2017 - 03:11:23 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Mon Jan 30 2017 - 01:02:58 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 08:13:53 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 07:46:01 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 06:04:07 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 03:30:46 PST)
Re: [AMBER] the formatting of the CPPTRAJ-generated restart files
(Fri Jan 27 2017 - 02:12:46 PST)
Re: [AMBER] /tmp/sh24281: Permission denied.
(Wed Jan 11 2017 - 08:38:05 PST)
Re: [AMBER] /tmp/sh24281: Permission denied.
(Wed Jan 11 2017 - 08:26:42 PST)
Re: [AMBER] antechamber: why the net charge does not sum up to zero?
(Thu Jan 05 2017 - 03:06:06 PST)
Hirdesh Kumar
Re: [AMBER] mpi error in Amber16
(Mon Jan 30 2017 - 15:45:20 PST)
Re: [AMBER] mpi error in Amber16
(Mon Jan 30 2017 - 14:56:11 PST)
[AMBER] mpi error in Amber16
(Mon Jan 30 2017 - 12:26:34 PST)
Re: [AMBER] amber16 on parallel GPUs
(Mon Jan 30 2017 - 08:10:03 PST)
Re: [AMBER] amber installation test failure
(Mon Jan 30 2017 - 08:06:38 PST)
[AMBER] amber16 on parallel GPUs
(Fri Jan 27 2017 - 13:06:23 PST)
[AMBER] amber installation test failure
(Fri Jan 27 2017 - 10:20:41 PST)
[AMBER] rmsf value for 2 chains
(Tue Jan 17 2017 - 15:08:59 PST)
Huang Jing
Re: [AMBER] ambmask issue
(Mon Jan 16 2017 - 14:37:20 PST)
Re: [AMBER] Single-Point MM-PBSA/GBSA Energy Calculations
(Sat Jan 14 2017 - 08:59:24 PST)
Re: [AMBER] Handling modified residues
(Sat Jan 14 2017 - 04:26:09 PST)
Re: [AMBER] Handling modified residues
(Sat Jan 14 2017 - 03:36:17 PST)
Re: [AMBER] MD for covalent inhibitors
(Thu Jan 12 2017 - 15:12:15 PST)
Re: [AMBER] csh to bash
(Thu Jan 12 2017 - 09:57:47 PST)
Re: [AMBER] TLEAP error
(Thu Jan 12 2017 - 02:28:00 PST)
Re: [AMBER] Sander input into Gaussian
(Wed Jan 11 2017 - 14:33:17 PST)
Re: [AMBER] antechamber: why the net charge does not sum up to zero?
(Sat Jan 07 2017 - 12:26:54 PST)
Re: [AMBER] Simple normal mode analysis in amber
(Sat Jan 07 2017 - 12:18:53 PST)
Re: [AMBER] tLeap adding non-library hydrogens
(Sat Jan 07 2017 - 04:41:52 PST)
Re: [AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Thu Jan 05 2017 - 13:46:28 PST)
Re: [AMBER] Ion Parameters for tip4pfb
(Thu Jan 05 2017 - 13:40:51 PST)
Re: [AMBER] Problems about membrane protein simulation
(Thu Jan 05 2017 - 01:31:40 PST)
Re: [AMBER] compatibility issues
(Wed Jan 04 2017 - 11:34:31 PST)
Re: [AMBER] compatibility issues
(Wed Jan 04 2017 - 10:43:10 PST)
Re: [AMBER] compatibility issues
(Wed Jan 04 2017 - 10:13:30 PST)
Re: [AMBER] tLeap and acetonitrile/chloroform solvation
(Wed Jan 04 2017 - 07:33:25 PST)
Re: [AMBER] Problems about membrane protein simulation
(Wed Jan 04 2017 - 07:13:16 PST)
Re: [AMBER] Zinc +2 SMD pulling
(Wed Jan 04 2017 - 03:34:19 PST)
Re: [AMBER] tLeap adding non-library hydrogens
(Wed Jan 04 2017 - 02:16:38 PST)
Re: [AMBER] Zinc +2 SMD pulling
(Wed Jan 04 2017 - 02:07:18 PST)
Re: [AMBER] Question about Empirical Valence Bond(EVB) simulation
(Tue Jan 03 2017 - 20:48:27 PST)
Re: [AMBER] partial replica exchange molecular dynamics
(Tue Jan 03 2017 - 08:50:28 PST)
Re: [AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Tue Jan 03 2017 - 08:32:23 PST)
I Lőrincz
Re: [AMBER] Water density near the protein suspiciously low
(Tue Jan 03 2017 - 15:46:04 PST)
imam siswanto
Re: [AMBER] New user needs help
(Wed Jan 11 2017 - 21:24:17 PST)
[AMBER] New user needs help
(Wed Jan 11 2017 - 20:23:26 PST)
jacky zhao
Re: [AMBER] Amber16 benchmark suite error
(Tue Jan 10 2017 - 07:26:19 PST)
Re: [AMBER] Amber16 benchmark suite error
(Sun Jan 08 2017 - 22:02:11 PST)
Re: [AMBER] Amber16 benchmark suite error
(Sun Jan 08 2017 - 06:37:50 PST)
Re: [AMBER] Amber16 benchmark suite error
(Fri Jan 06 2017 - 23:16:46 PST)
[AMBER] Amber16 benchmark suite error
(Thu Jan 05 2017 - 22:51:31 PST)
[AMBER] /dev/hfi1_0 device failed to appear after 15 seconds: Connection timed out
(Thu Jan 05 2017 - 08:34:46 PST)
Jacob Monroe
Re: [AMBER] LJ parameters in frcmod files
(Thu Jan 12 2017 - 11:53:09 PST)
[AMBER] LJ parameters in frcmod files
(Thu Jan 12 2017 - 10:34:37 PST)
James Kress
Re: [AMBER] amber installation test question
(Sun Jan 29 2017 - 12:51:48 PST)
Re: [AMBER] amber installation test question
(Sat Jan 28 2017 - 12:25:40 PST)
[AMBER] amber installation test question
(Fri Jan 27 2017 - 20:11:04 PST)
Re: [AMBER] amber16 Centos 7
(Wed Jan 18 2017 - 08:22:23 PST)
Jason Swails
Re: [AMBER] pH-REMD explicit solvent
(Sun Jan 29 2017 - 13:31:03 PST)
Re: [AMBER] Implicit Solvent CpHMD
(Thu Jan 26 2017 - 17:51:34 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 19:55:33 PST)
Re: [AMBER] CpHREMD (explicit solvent) parameter settings inquiry
(Mon Jan 16 2017 - 19:46:13 PST)
Re: [AMBER] CpHREMD (explicit solvent) parameter settings inquiry
(Mon Jan 16 2017 - 17:30:19 PST)
Re: [AMBER] compatibility issues
(Thu Jan 05 2017 - 18:35:22 PST)
Re: [AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Thu Jan 05 2017 - 12:44:24 PST)
Re: [AMBER] antechamber: why the net charge does not sum up to zero?
(Thu Jan 05 2017 - 09:55:23 PST)
Re: [AMBER] Error in reordering pH-REMD trajectories
(Mon Jan 02 2017 - 12:33:52 PST)
Jian Yin
[AMBER] Amber tutorial of APR(attach-pull-release) approach
(Thu Jan 19 2017 - 10:58:52 PST)
Jiri Sponer
Re: [AMBER] Regarding forcefields for Z-DNA
(Tue Jan 24 2017 - 02:12:35 PST)
Joan Torras
Re: [AMBER] QMMM with MOPAC2016
(Tue Jan 10 2017 - 22:38:13 PST)
Joao Damas
[AMBER] Differences using leaprc.ff14SB from AmberTools15 and oldff/leaprc.ff14SB from AmberTools16
(Tue Jan 31 2017 - 12:33:16 PST)
Johannes Loeffler
[AMBER] partial replica exchange molecular dynamics
(Mon Jan 02 2017 - 06:09:30 PST)
Jonathan Huihui
Re: [AMBER] Force field modifications
(Fri Jan 06 2017 - 13:36:58 PST)
Re: [AMBER] Force field modifications
(Fri Jan 06 2017 - 13:25:14 PST)
Re: [AMBER] Force field modifications
(Fri Jan 06 2017 - 13:09:26 PST)
Junmei Wang
Re: [AMBER] QM method used for force constants derivation in GAFF2 ?
(Thu Jan 26 2017 - 10:04:30 PST)
Karla Galdamez
Re: [AMBER] Installing Amber
(Thu Jan 26 2017 - 23:08:06 PST)
Re: [AMBER] Installing Amber
(Wed Jan 25 2017 - 23:08:38 PST)
Re: [AMBER] Installing Amber
(Tue Jan 24 2017 - 22:29:22 PST)
Re: [AMBER] Installing Amber
(Sat Jan 21 2017 - 21:44:14 PST)
Re: [AMBER] Installing Amber
(Fri Jan 20 2017 - 23:28:48 PST)
Re: [AMBER] Installing Amber
(Fri Jan 20 2017 - 21:53:30 PST)
[AMBER] Installing Amber
(Tue Jan 17 2017 - 22:24:50 PST)
Kat G
[AMBER] Continue running an incomplete MD with NMR restraints
(Sat Jan 14 2017 - 22:43:04 PST)
Kenneth Huang
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:48:10 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 06:50:51 PST)
Khabiri, Morteza
[AMBER] restrain protein with two different force constant
(Tue Jan 10 2017 - 06:58:47 PST)
Kihoon.Yoon.dell.com
Re: [AMBER] Issues for updating AmberTools 16 - update.14
(Thu Jan 12 2017 - 11:20:35 PST)
[AMBER] Issues for updating AmberTools 16 - update.14
(Thu Jan 12 2017 - 09:03:59 PST)
konda003 .
[AMBER] Distance between the center of gravities of tow molecules-CPPTRAJ
(Thu Jan 19 2017 - 11:01:06 PST)
Liyang Zhu
[AMBER] Methods to count the different species
(Tue Jan 31 2017 - 12:32:23 PST)
Re: [AMBER] constrain nitrate as bound and neutral
(Wed Jan 25 2017 - 10:54:04 PST)
Re: [AMBER] constrain nitrate as bound and neutral
(Sun Jan 22 2017 - 16:01:44 PST)
Re: [AMBER] constrain nitrate as bound and neutral
(Sat Jan 21 2017 - 19:57:45 PST)
[AMBER] constrain nitrate as bound and neutral
(Wed Jan 18 2017 - 12:22:03 PST)
Lorenzo Gontrani
[AMBER] RDF between centers of mass/geometry
(Thu Jan 12 2017 - 02:36:43 PST)
Luka Bilić
Re: [AMBER] tLeap and acetonitrile/chloroform solvation
(Thu Jan 05 2017 - 00:17:51 PST)
Re: [AMBER] tLeap and acetonitrile/chloroform solvation
(Thu Jan 05 2017 - 00:09:41 PST)
[AMBER] tLeap and acetonitrile/chloroform solvation
(Wed Jan 04 2017 - 06:12:51 PST)
M_Chikira
Re: [AMBER] adqmmm with PM6 for copper complex
(Fri Jan 20 2017 - 20:46:45 PST)
[AMBER] adqmmm with PM6 for copper complex
(Fri Jan 20 2017 - 05:13:46 PST)
Manjula Saravanan
[AMBER] Error while creation topology and coordinate files in tleap
(Wed Jan 18 2017 - 02:53:24 PST)
Marc van der Kamp
Re: [AMBER] About constraints on QM system of QM/MM simulation
(Wed Jan 18 2017 - 14:14:24 PST)
Marcelo Andrade Chagas
Re: [AMBER] lj1264 pmemd.cuda
(Tue Jan 31 2017 - 06:57:01 PST)
Re: [AMBER] lj1264 pmemd.cuda
(Tue Jan 31 2017 - 05:36:59 PST)
Re: [AMBER] lj1264 pmemd.cuda
(Tue Jan 31 2017 - 04:53:51 PST)
Marek Maly
Re: [AMBER] QM method used for force constants derivation in GAFF2 ?
(Thu Jan 26 2017 - 16:02:29 PST)
Re: [AMBER] QM method used for force constants derivation in GAFF2 ?
(Tue Jan 24 2017 - 17:24:19 PST)
[AMBER] QM method used for force constants derivation in GAFF2 ?
(Tue Jan 24 2017 - 09:47:19 PST)
Markus Kaukonen
[AMBER] DFTB3 in Amber is not there, but it may be in gromacs.
(Tue Jan 31 2017 - 08:06:54 PST)
Mary Varughese
Re: [AMBER] cpptraj clustering doubt
(Sun Jan 08 2017 - 20:55:11 PST)
Re: [AMBER] cpptraj clustering doubt
(Sat Jan 07 2017 - 02:33:17 PST)
Re: [AMBER] cpptraj clustering doubt
(Thu Jan 05 2017 - 07:23:38 PST)
[AMBER] cpptraj clustering doubt
(Thu Jan 05 2017 - 02:59:52 PST)
Matteo Uggeri
[AMBER] Give the correct charge to heme using antechamber
(Thu Jan 26 2017 - 06:15:44 PST)
Matthew Harrigan
Re: [AMBER] Process exclusive mode and GPU peer-to-peer communication
(Fri Jan 27 2017 - 08:58:34 PST)
[AMBER] Fw: Process exclusive mode and GPU peer-to-peer communication
(Thu Jan 26 2017 - 14:12:39 PST)
Michael Shokhen
Re: [AMBER] script to run background job?
(Mon Jan 30 2017 - 08:56:33 PST)
[AMBER] script to run background job?
(Mon Jan 30 2017 - 08:31:50 PST)
Naiem Issa
Re: [AMBER] Single-Point MM-PBSA/GBSA Energy Calculations
(Sat Jan 14 2017 - 08:38:43 PST)
[AMBER] Single-Point MM-PBSA/GBSA Energy Calculations
(Sat Jan 14 2017 - 08:20:10 PST)
Nhai
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:57:27 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:38:17 PST)
Re: [AMBER] Split a trajectory into frames
(Thu Jan 26 2017 - 07:26:01 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 07:52:37 PST)
Re: [AMBER] Error opening unit 15: File "remd.groupfile" is missing or unreadable
(Mon Jan 23 2017 - 14:58:58 PST)
Re: [AMBER] Installing Amber
(Tue Jan 17 2017 - 22:47:23 PST)
Re: [AMBER] Model Folding
(Tue Jan 17 2017 - 22:43:38 PST)
Re: [AMBER] Model Folding
(Tue Jan 17 2017 - 19:10:19 PST)
Re: [AMBER] amber16 Centos 7
(Tue Jan 17 2017 - 16:05:19 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 09:27:25 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 09:09:30 PST)
Re: [AMBER] amber14 parallel build problems
(Sat Jan 14 2017 - 08:59:26 PST)
Re: [AMBER] Single-Point MM-PBSA/GBSA Energy Calculations
(Sat Jan 14 2017 - 08:55:29 PST)
Re: [AMBER] Radius of gyration for the hydrophobic core
(Thu Jan 12 2017 - 15:56:58 PST)
Re: [AMBER] csh to bash
(Thu Jan 12 2017 - 09:18:44 PST)
Re: [AMBER] mmCIF from amber
(Wed Jan 04 2017 - 09:00:28 PST)
Re: [AMBER] failed to visualize trajectories in vmd.
(Mon Jan 02 2017 - 07:56:57 PST)
Niel Henriksen
Re: [AMBER] From PMF to free energy of binding
(Mon Jan 23 2017 - 11:51:09 PST)
Paul Meister
Re: [AMBER] 5' Terminal Phosphate Parameters
(Thu Jan 26 2017 - 11:28:19 PST)
Re: [AMBER] 5' Terminal Phosphate Parameters
(Thu Jan 26 2017 - 07:49:19 PST)
[AMBER] 5' Terminal Phosphate Parameters
(Thu Jan 26 2017 - 06:54:30 PST)
Pengfei Li
Re: [AMBER] constrain nitrate as bound and neutral
(Wed Jan 25 2017 - 13:56:42 PST)
Re: [AMBER] constrain nitrate as bound and neutral
(Wed Jan 25 2017 - 07:54:29 PST)
Re: [AMBER] constrain nitrate as bound and neutral
(Sat Jan 21 2017 - 20:11:30 PST)
Re: [AMBER] About constraints on QM system of QM/MM simulation
(Wed Jan 18 2017 - 14:33:06 PST)
[AMBER] About constraints on QM system of QM/MM simulation
(Wed Jan 18 2017 - 14:04:07 PST)
Re: [AMBER] LJ parameters in frcmod files
(Thu Jan 12 2017 - 12:12:59 PST)
Re: [AMBER] LJ parameters in frcmod files
(Thu Jan 12 2017 - 11:11:19 PST)
Qinghua Liao
Re: [AMBER] lj1264 pmemd.cuda
(Tue Jan 31 2017 - 05:11:50 PST)
Re: [AMBER] 5' Terminal Phosphate Parameters
(Thu Jan 26 2017 - 06:57:06 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 11:31:51 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 11:11:50 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 10:50:13 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 10:40:51 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 10:32:23 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 08:15:10 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 08:10:59 PST)
[AMBER] distance restraints failed
(Wed Jan 25 2017 - 07:44:55 PST)
Ren Jinhong
[AMBER] MD for covalent inhibitors
(Thu Jan 12 2017 - 14:23:58 PST)
Robin Betz
Re: [AMBER] Reproduce tetraalanine Phi and Psi amplitudes ff99SB with Paramfit
(Tue Jan 24 2017 - 14:43:43 PST)
Re: [AMBER] Reproduce tetraalanine Phi and Psi amplitudes ff99SB with Paramfit
(Tue Jan 24 2017 - 11:35:16 PST)
Rodriguez, Yoel
Re: [AMBER] Pure POPC Membrane Tilts during MD simulation
(Tue Jan 24 2017 - 11:20:07 PST)
Re: [AMBER] Pure POPC Membrane Tilts during MD simulation
(Tue Jan 24 2017 - 07:48:17 PST)
Re: [AMBER] Pure POPC Membrane Tilts during MD simulation
(Tue Jan 24 2017 - 07:41:26 PST)
[AMBER] Pure POPC Membrane Tilts during MD simulation
(Sat Jan 21 2017 - 16:21:52 PST)
Ross Walker
Re: [AMBER] lj1264 pmemd.cuda
(Tue Jan 31 2017 - 05:08:08 PST)
Re: [AMBER] lj1264 pmemd.cuda
(Tue Jan 31 2017 - 04:24:24 PST)
Re: [AMBER] amber16 on parallel GPUs
(Mon Jan 30 2017 - 16:30:33 PST)
Re: [AMBER] amber16 on parallel GPUs
(Fri Jan 27 2017 - 17:04:26 PST)
Re: [AMBER] Process exclusive mode and GPU peer-to-peer communication
(Fri Jan 27 2017 - 04:54:13 PST)
Re: [AMBER] pmemd.cuda.MPI not running well with SGE
(Tue Jan 17 2017 - 17:51:40 PST)
Re: [AMBER] Amber16 benchmark suite error
(Sat Jan 07 2017 - 15:06:57 PST)
Re: [AMBER] Amber16 benchmark suite error
(Fri Jan 06 2017 - 11:55:14 PST)
Re: [AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Wed Jan 04 2017 - 05:05:08 PST)
Re: [AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Wed Jan 04 2017 - 05:03:50 PST)
Saeed Izadi
Re: [AMBER] TIP4P-Ew vs TIP3 vs TIP5
(Wed Jan 18 2017 - 13:17:45 PST)
Re: [AMBER] TIP4P-Ew vs TIP3 vs TIP5
(Tue Jan 17 2017 - 21:13:41 PST)
Saman Yousuf ali
Re: [AMBER] strip inpcrd
(Tue Jan 31 2017 - 02:46:44 PST)
[AMBER] strip inpcrd
(Tue Jan 31 2017 - 00:58:53 PST)
[AMBER] hbond Backbone CPPTRAJ.
(Sun Jan 29 2017 - 08:19:38 PST)
[AMBER] intermolecular hydrogen bonding.
(Mon Jan 16 2017 - 02:50:55 PST)
[AMBER] verification of ligand rmsd script.
(Wed Jan 11 2017 - 03:11:53 PST)
Re: [AMBER] failed to visualize trajectories in vmd.
(Mon Jan 02 2017 - 08:59:17 PST)
Re: [AMBER] failed to visualize trajectories in vmd.
(Mon Jan 02 2017 - 07:46:31 PST)
Re: [AMBER] failed to visualize trajectories in vmd.
(Mon Jan 02 2017 - 07:32:57 PST)
Re: [AMBER] failed to visualize trajectories in vmd.
(Mon Jan 02 2017 - 07:08:41 PST)
[AMBER] failed to visualize trajectories in vmd.
(Mon Jan 02 2017 - 02:02:25 PST)
Samaneh Ghassabi Kondalaji
Re: [AMBER] Ntt value for Nose-hoover chain thermostat
(Mon Jan 23 2017 - 08:01:33 PST)
[AMBER] Ntt value for Nose-hoover chain thermostat
(Fri Jan 20 2017 - 12:46:39 PST)
[AMBER] Ion Parameters for tip4pfb
(Thu Jan 05 2017 - 09:44:25 PST)
Scott Brozell
Re: [AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 13:57:55 PST)
Re: [AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 11:06:33 PST)
Re: [AMBER] Fwd: some clues about yacc errors on OLCF rhea
(Wed Jan 18 2017 - 10:44:41 PST)
Re: [AMBER] amber14 parallel build problems
(Fri Jan 13 2017 - 11:35:07 PST)
Scott Le Grand
Re: [AMBER] Process exclusive mode and GPU peer-to-peer communication
(Fri Jan 27 2017 - 08:43:03 PST)
Re: [AMBER] pmemd.cuda.MPI not running well with SGE
(Wed Jan 18 2017 - 10:00:51 PST)
Shanghaitech University WuMeng
[AMBER] Problems about membrane protein simulation
(Wed Jan 04 2017 - 06:44:22 PST)
Sofia Vasilakaki
[AMBER] lipid membrane tleap problem amber16
(Mon Jan 16 2017 - 12:32:21 PST)
Sowmya Indrakumar
[AMBER] clustering
(Tue Jan 31 2017 - 07:03:32 PST)
[AMBER] pH-REMD explicit solvent
(Sun Jan 29 2017 - 12:59:57 PST)
Stefan Ivanov
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Mon Jan 30 2017 - 06:20:43 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Mon Jan 30 2017 - 02:22:04 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Sun Jan 29 2017 - 07:07:13 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 08:17:55 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 08:09:16 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 08:00:21 PST)
Re: [AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 06:54:38 PST)
[AMBER] TI simulations blowing up with clambda = 1 with pmemd
(Fri Jan 27 2017 - 03:15:02 PST)
Re: [AMBER] Interpreting energy decomposition in Amber thermodynamic integration
(Mon Jan 23 2017 - 11:27:38 PST)
Re: [AMBER] Interpreting energy decomposition in Amber thermodynamic integration
(Sun Jan 22 2017 - 02:31:05 PST)
Re: [AMBER] Interpreting energy decomposition in Amber thermodynamic integration
(Fri Jan 20 2017 - 09:56:06 PST)
[AMBER] Interpreting energy decomposition in Amber thermodynamic integration
(Fri Jan 20 2017 - 07:28:00 PST)
stephanie.essafi.ens.fr
[AMBER] paramfit
(Tue Jan 24 2017 - 05:23:03 PST)
Subashini .K
[AMBER] INCREASING BOX SIZE
(Mon Jan 23 2017 - 08:05:51 PST)
[AMBER] REGARDING ACPYPE GENERATED TOPOLOGY FILE
(Wed Jan 18 2017 - 21:24:05 PST)
Re: [AMBER] TLEAP error
(Thu Jan 12 2017 - 06:39:55 PST)
[AMBER] TLEAP error
(Thu Jan 12 2017 - 00:15:54 PST)
Re: [AMBER] ACPYPE ERROR
(Tue Jan 10 2017 - 09:57:39 PST)
Re: [AMBER] ACPYPE ERROR
(Tue Jan 10 2017 - 01:12:55 PST)
Re: [AMBER] ACPYPE ERROR
(Tue Jan 10 2017 - 01:11:22 PST)
[AMBER] ACPYPE ERROR
(Tue Jan 10 2017 - 00:28:51 PST)
Re: [AMBER] Error in leaprc.ff14SB (Amber14)
(Mon Jan 09 2017 - 22:28:06 PST)
[AMBER] Error in leaprc.ff14SB (Amber14)
(Mon Jan 09 2017 - 21:29:03 PST)
sunyeping
Re: [AMBER] problems with input file preparation
(Sat Jan 28 2017 - 21:39:27 PST)
[AMBER] problems with input file preparation
(Sat Jan 28 2017 - 12:23:56 PST)
Susan Chacko
Re: [AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Thu Jan 05 2017 - 11:15:30 PST)
Re: [AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Thu Jan 05 2017 - 08:41:00 PST)
Re: [AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Tue Jan 03 2017 - 09:36:21 PST)
[AMBER] Amber16 on K80 GPUs --poor performance on multiple GPUs
(Tue Jan 03 2017 - 08:00:09 PST)
Thakur, Abhishek
[AMBER] is there any way by which I can use tleap to do mutation?
(Fri Jan 27 2017 - 10:00:10 PST)
[AMBER] Is there any command in tleap by which I can change Met to Leu
(Fri Jan 27 2017 - 08:04:41 PST)
Re: [AMBER] How to make restrt file for specific step
(Fri Jan 27 2017 - 06:47:09 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 15:54:20 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 12:57:33 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 12:16:44 PST)
Re: [AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 12:08:26 PST)
[AMBER] How to make restrt file for specific step
(Thu Jan 26 2017 - 11:52:58 PST)
Re: [AMBER] distance restraints failed
(Wed Jan 25 2017 - 08:37:51 PST)
Re: [AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 15:11:57 PST)
Re: [AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 12:58:37 PST)
Re: [AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 11:15:12 PST)
[AMBER] REMD_just_1.10ns/day
(Tue Jan 24 2017 - 10:53:26 PST)
Re: [AMBER] Error opening unit 15: File "remd.groupfile" is missing or unreadable
(Mon Jan 23 2017 - 15:15:31 PST)
[AMBER] Error opening unit 15: File "remd.groupfile" is missing or unreadable
(Mon Jan 23 2017 - 14:25:19 PST)
[AMBER] In REMD there is two irest=0 in amber tut
(Mon Jan 23 2017 - 09:18:38 PST)
Re: [AMBER] REMD_suggestion
(Mon Jan 23 2017 - 09:05:23 PST)
Re: [AMBER] REMD_suggestion
(Mon Jan 23 2017 - 08:59:45 PST)
[AMBER] REMD_suggestion
(Mon Jan 23 2017 - 08:46:51 PST)
[AMBER] setup_equilibrate_input.x
(Thu Jan 19 2017 - 11:40:09 PST)
[AMBER] REMD_Multiple_GPU
(Thu Jan 19 2017 - 08:29:57 PST)
[AMBER] REMD_suggestion
(Wed Jan 18 2017 - 07:03:26 PST)
[AMBER] csh to bash
(Thu Jan 12 2017 - 09:11:12 PST)
Re: [AMBER] /tmp/sh24281: Permission denied.
(Wed Jan 11 2017 - 08:40:13 PST)
Re: [AMBER] /tmp/sh24281: Permission denied.
(Wed Jan 11 2017 - 08:34:58 PST)
Re: [AMBER] /tmp/sh24281: Permission denied.
(Wed Jan 11 2017 - 08:07:56 PST)
[AMBER] /tmp/sh24281: Permission denied.
(Wed Jan 11 2017 - 07:48:18 PST)
The Cromicus Productions
Re: [AMBER] Split trajectory by atom
(Tue Jan 10 2017 - 00:01:25 PST)
[AMBER] Split trajectory by atom
(Mon Jan 09 2017 - 02:22:41 PST)
Thomas Exner
[AMBER] 2nd eChemInfo Training and Innovation Course in Drug Design 2017 in Milano
(Mon Jan 09 2017 - 01:17:00 PST)
Thomas Fox
[AMBER] cpptraj: segfault after list command
(Fri Jan 20 2017 - 05:07:53 PST)
[AMBER] cpptraj: list command throws seqfault
(Thu Jan 19 2017 - 04:58:36 PST)
Thomas Pochapsky
[AMBER] valiine chirality inversion
(Thu Jan 19 2017 - 05:52:10 PST)
[AMBER] mmCIF from amber
(Wed Jan 04 2017 - 06:34:22 PST)
Vlad Cojocaru
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 07:07:23 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 06:55:40 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 06:28:56 PST)
Re: [AMBER] cpptraj: autoimage DCD trajectories (with Amber topology)
(Tue Jan 31 2017 - 06:16:20 PST)
Re: [AMBER] cpptraj: autoimage DCD trajectories (with Amber topology)
(Tue Jan 31 2017 - 04:32:37 PST)
Re: [AMBER] cpptraj: autoimage DCD trajectories (with Amber topology)
(Tue Jan 31 2017 - 04:16:23 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 01:38:32 PST)
Re: [AMBER] MMPBSA failed
(Tue Jan 31 2017 - 01:25:54 PST)
[AMBER] cpptraj: autoimage DCD trajectories (with Amber topology)
(Tue Jan 31 2017 - 01:10:02 PST)
Re: [AMBER] the formatting of the CPPTRAJ-generated restart files
(Fri Jan 27 2017 - 02:26:08 PST)
[AMBER] the formatting of the CPPTRAJ-generated restart files
(Fri Jan 27 2017 - 01:56:54 PST)
vlad.cojocaru.mpi-muenster.mpg.de
Re: [AMBER] cpptraj: autoimage DCD trajectories (with Amber topology)
(Tue Jan 31 2017 - 09:59:57 PST)
Wang, Yin
[AMBER] pmemd.cuda.MPI not running well with SGE
(Tue Jan 17 2017 - 03:22:54 PST)
wei
[AMBER] 回复：AMBER Digest, Vol 1806, Issue 1
(Fri Jan 06 2017 - 21:42:38 PST)
[AMBER] 'Diffusion' calculation in Ptraj - could not understand a description of Ptraj code in Amber14
(Thu Jan 05 2017 - 04:39:40 PST)
Wong Li Zhe
Re: [AMBER] Model Folding
(Tue Jan 17 2017 - 22:23:16 PST)
[AMBER] Model Folding
(Tue Jan 17 2017 - 18:49:02 PST)
Yogeeshwar Ajjugal
Re: [AMBER] Regarding forcefields for Z-DNA
(Thu Jan 26 2017 - 05:55:02 PST)
Re: [AMBER] Regarding forcefields for Z-DNA
(Tue Jan 24 2017 - 04:01:44 PST)
[AMBER] Regarding forcefields for Z-DNA
(Tue Jan 24 2017 - 01:53:24 PST)
Åsmund Kjendseth Røhr
[AMBER] xmin and QM/MM
(Fri Jan 06 2017 - 01:19:33 PST)
吴萌
Re: [AMBER] Problems about membrane protein simulation
(Thu Jan 05 2017 - 00:14:51 PST)
没关系
[AMBER] 回复： Question about Empirical Valence Bond(EVB) simulation
(Tue Jan 03 2017 - 22:55:31 PST)
[AMBER] Question about Empirical Valence Bond(EVB) simulation
(Tue Jan 03 2017 - 18:21:21 PST)
Last message date
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Tue Jan 31 2017 - 20:30:03 PST
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: Fri Nov 15 2024 - 05:55:31 PST
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