Amber Archive Apr 2021: by author

A R
- Re: [AMBER] Apply Lennar-Jones potential between small molecules (Sat Apr 10 2021 - 05:01:58 PDT)
- Re: [AMBER] Apply Lennar-Jones potential between small molecules (Fri Apr 09 2021 - 09:46:14 PDT)
A. Bakheit
- [AMBER] Amber Experts (Sun Apr 18 2021 - 03:52:40 PDT)
Abdul Basit
- [AMBER] Per residue free energy is not decomposed correctly (Thu Apr 08 2021 - 10:03:52 PDT)
- [AMBER] Per residue free energy decomposition is not working (Wed Apr 07 2021 - 08:42:10 PDT)
Abir Ganguly
- Re: [AMBER] TI free energy calculation issue after applying smoothstep in Amber20 (Mon Apr 26 2021 - 05:19:01 PDT)
Adrian Roitberg
- Re: [AMBER] unusually high entropy values MMPBSA quasi-harmonic (Mon Apr 19 2021 - 07:13:39 PDT)
- Re: [AMBER] Discrepancy in experimental and MMPBSA pattern of binding energy (Tue Apr 06 2021 - 08:54:22 PDT)
- Re: [AMBER] MMPBSA per residue decomposition - Calculation speed (Fri Apr 02 2021 - 13:30:46 PDT)
- [AMBER] Great news! (Thu Apr 01 2021 - 07:51:14 PDT)
aishen
- Re: [AMBER] Release of AmberTools21 (Thu Apr 29 2021 - 23:15:45 PDT)
- Re: [AMBER] Release of AmberTools21 (Thu Apr 29 2021 - 22:56:22 PDT)
Alan
- Re: [AMBER] Antechamber and mol2 file with .<TRIPOS>UNITY_ATOM_ATTR (Mon Apr 19 2021 - 03:40:47 PDT)
Alesadi, Amirhadi
- [AMBER] parmchk2 (Thu Apr 22 2021 - 20:26:23 PDT)
andrea.cavalli.irb.usi.ch
- Re: [AMBER] Great news! (Thu Apr 01 2021 - 08:10:23 PDT)
Ayesha Fatima
- Re: [AMBER] mmgbsa issue (Sat Apr 24 2021 - 03:04:22 PDT)
- [AMBER] mmgbsa error (Fri Apr 23 2021 - 09:07:11 PDT)
- [AMBER] mmgbsa issue (Fri Apr 23 2021 - 08:45:12 PDT)
- Re: [AMBER] serial amber installation on wsl (Fri Apr 23 2021 - 08:35:04 PDT)
- [AMBER] error installing parallel amber (Thu Apr 22 2021 - 01:51:29 PDT)
- [AMBER] serial amber installation on wsl (Thu Apr 22 2021 - 01:05:02 PDT)
Azurmendi, Hugo
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Fri Apr 30 2021 - 13:33:05 PDT)
- Re: [AMBER] [EXTERNAL] Re: Adventures installing AMBER 20 in Centos 7 (Thu Apr 29 2021 - 13:01:46 PDT)
- [AMBER] Adventures installing AMBER 20 in Centos 7 (Thu Apr 29 2021 - 08:59:40 PDT)
Brent Krueger
- [AMBER] force field balance vs accuracy (Mon Apr 05 2021 - 08:11:47 PDT)
Carlos Simmerling
- Re: [AMBER] trpcage benchmark: reduce 32x or dimerize ? (Fri Apr 30 2021 - 06:33:32 PDT)
- Re: [AMBER] Covalent bonded inhibitors and mm-pb(gb)sa analys (Mon Apr 26 2021 - 13:20:05 PDT)
- Re: [AMBER] MD Simulation of Ribosome including Protein & RNA (Mon Apr 26 2021 - 11:46:01 PDT)
- Re: [AMBER] 2.5 fs integration time step (Tue Apr 20 2021 - 12:51:07 PDT)
- Re: [AMBER] Amber Tool (Mon Apr 19 2021 - 10:07:59 PDT)
- Re: [AMBER] 2.5 fs integration time step (Mon Apr 19 2021 - 06:02:59 PDT)
- Re: [AMBER] .rst file not produced during production run (Wed Apr 14 2021 - 10:02:06 PDT)
- Re: [AMBER] Questions about amber-adding counterions (Carlos Simmerling) (Mon Apr 12 2021 - 06:08:10 PDT)
- Re: [AMBER] Questions about amber-adding counterions (Carlos Simmerling) (Mon Apr 12 2021 - 05:30:02 PDT)
- Re: [AMBER] Questions about amber-adding counterions (Sun Apr 11 2021 - 03:56:48 PDT)
- Re: [AMBER] force field balance vs accuracy (Mon Apr 05 2021 - 08:31:33 PDT)
- Re: [AMBER] Protein dimension (Sat Apr 03 2021 - 06:11:28 PDT)
- Re: [AMBER] D-amino acid library (Fri Apr 02 2021 - 14:18:36 PDT)
- Re: [AMBER] D-amino acid library (Fri Apr 02 2021 - 11:47:56 PDT)
Cato, Lee
- [AMBER] Problem with incomplete solvation with tleap (Thu Apr 22 2021 - 07:43:46 PDT)
Charo del Genio
- Re: [AMBER] Questions about REMD extracting temperature trajectory (Thu Apr 29 2021 - 01:45:46 PDT)
- Re: [AMBER] Questions about REMD extracting temperature trajectory (Sat Apr 24 2021 - 00:10:12 PDT)
Damiano Spadoni
- Re: [AMBER] How to track oxygen molecules in MD (Wed Apr 14 2021 - 07:16:14 PDT)
- Re: [AMBER] How to track oxygen molecules in MD (Tue Apr 13 2021 - 07:17:16 PDT)
- [AMBER] How to track oxygen molecules in MD (Mon Apr 12 2021 - 09:51:01 PDT)
Daniel Fowles
- [AMBER] Error when using 1DRISM to generate .xvv organic solvent files (Wed Apr 21 2021 - 01:33:29 PDT)
Daniel Roe
- Re: [AMBER] About cpptraj (v18) extracting temperature trajectory from REMD trajectory (Fri Apr 30 2021 - 08:33:52 PDT)
- Re: [AMBER] cpptraj energy using 2 masks (Fri Apr 30 2021 - 08:32:09 PDT)
- Re: [AMBER] AMBER Digest, Vol 3336, Issue 1 (Fri Apr 23 2021 - 09:33:55 PDT)
- Re: [AMBER] protein sticking out of solvation box causing instability (Thu Apr 22 2021 - 06:32:18 PDT)
- Re: [AMBER] Will AmberTool21 support gcc10? (Wed Apr 21 2021 - 07:17:33 PDT)
- Re: [AMBER] RMSIP (Fri Apr 16 2021 - 12:08:31 PDT)
- Re: [AMBER] tleap solvate box problems (Fri Apr 16 2021 - 07:09:44 PDT)
- Re: [AMBER] RMSIP (Fri Apr 16 2021 - 06:50:07 PDT)
- Re: [AMBER] About REMD extracting temperature trajectory (Fri Apr 16 2021 - 06:45:53 PDT)
- Re: [AMBER] How to track oxygen molecules in MD (Wed Apr 14 2021 - 07:48:05 PDT)
- Re: [AMBER] How to track oxygen molecules in MD (Tue Apr 13 2021 - 06:48:04 PDT)
- Re: [AMBER] help with cpptraj error (segmentation fault) (Tue Apr 13 2021 - 06:09:09 PDT)
- Re: [AMBER] cpptraj atom definition bug found during RMSD/distance calculation? (Mon Apr 12 2021 - 06:26:52 PDT)
- Re: [AMBER] Add molecule to prmtop/inpcrd ? (Wed Apr 07 2021 - 07:31:42 PDT)
- Re: [AMBER] Protein dimension (Sun Apr 04 2021 - 07:11:25 PDT)
David A Case
- Re: [AMBER] installation of AmberTools 21 (Fri Apr 30 2021 - 12:54:46 PDT)
- Re: [AMBER] installation of AmberTools 21 (Fri Apr 30 2021 - 09:17:51 PDT)
- Re: [AMBER] Release of AmberTools21 (Fri Apr 30 2021 - 05:26:27 PDT)
- [AMBER] Release of AmberTools21 (Thu Apr 29 2021 - 18:29:34 PDT)
- Re: [AMBER] Adventures installing AMBER 20 in Centos 7 (Thu Apr 29 2021 - 12:48:16 PDT)
- Re: [AMBER] Adventures installing AMBER 20 in Centos 7 (Thu Apr 29 2021 - 11:29:49 PDT)
- Re: [AMBER] Problems to install AmberTools20 (Thu Apr 29 2021 - 05:21:53 PDT)
- Re: [AMBER] 答复: [ambermd.org代发]Re: 答复: [ambermd.org代发]Re: Max relative errors questions in parallel and cuda.serial test (Thu Apr 29 2021 - 05:09:35 PDT)
- Re: [AMBER] CPPTRAJ configuration is failing (Wed Apr 28 2021 - 13:24:51 PDT)
- Re: [AMBER] Problems to install AmberTools20 (Wed Apr 28 2021 - 09:41:07 PDT)
- Re: [AMBER] Problems to install AmberTools20 (Wed Apr 28 2021 - 05:06:55 PDT)
- Re: [AMBER] 答复: [ambermd.org代发]Re: Max relative errors questions in parallel and cuda.serial test (Wed Apr 28 2021 - 04:58:01 PDT)
- Re: [AMBER] Citation for LEaP (Wed Apr 28 2021 - 04:50:52 PDT)
- Re: [AMBER] [ambermd.org代发]Re: Max relative errors questions in parallel and cuda.serial test (Sun Apr 25 2021 - 05:03:54 PDT)
- Re: [AMBER] Max relative errors questions in parallel and cuda.serial test (Sat Apr 24 2021 - 06:32:15 PDT)
- Re: [AMBER] mmgbsa issue (Fri Apr 23 2021 - 18:21:29 PDT)
- Re: [AMBER] Forcefield File and Adding My Own Polymer Unit (Fri Apr 23 2021 - 18:19:28 PDT)
- Re: [AMBER] Problem with incomplete solvation with tleap (Thu Apr 22 2021 - 11:48:05 PDT)
- Re: [AMBER] running sander.MPI :forrtl: severe (174): SIGSEGV, segmentation fault occurred (Thu Apr 22 2021 - 05:35:32 PDT)
- Re: [AMBER] serial amber installation on wsl (Thu Apr 22 2021 - 05:32:01 PDT)
- Re: [AMBER] PatchingError: .patches/AmberTools20_Unapplied_Patches/update.13 failed to apply. No changes made from this patch (Thu Apr 22 2021 - 05:26:25 PDT)
- Re: [AMBER] Error in using ambpdb to convert rst to pdb (Wed Apr 21 2021 - 08:37:36 PDT)
- Re: [AMBER] running sander.MPI :forrtl: severe (174): SIGSEGV, segmentation fault occurred (Wed Apr 21 2021 - 07:28:16 PDT)
- Re: [AMBER] running sander.MPI :forrtl: severe (174): SIGSEGV, segmentation fault occurred (Wed Apr 21 2021 - 05:13:52 PDT)
- Re: [AMBER] Distance restraints not working (Tue Apr 20 2021 - 05:05:32 PDT)
- Re: [AMBER] unusually high entropy values MMPBSA quasi-harmonic (Tue Apr 20 2021 - 04:58:48 PDT)
- Re: [AMBER] unusually high entropy values MMPBSA quasi-harmonic (Mon Apr 19 2021 - 11:38:59 PDT)
- Re: [AMBER] Hack to install AmberTools20 on macOS (Mon Apr 19 2021 - 06:27:13 PDT)
- Re: [AMBER] unusually high entropy values MMPBSA quasi-harmonic (Mon Apr 19 2021 - 06:18:08 PDT)
- Re: [AMBER] Thermodynamic integration for protein-protein interactions (Sat Apr 17 2021 - 13:30:46 PDT)
- Re: [AMBER] Umbrella sampling on Amber 18 vs Amber 20 (Sat Apr 17 2021 - 13:27:54 PDT)
- Re: [AMBER] Umbrella sampling on Amber 18 vs Amber 20 (Sat Apr 17 2021 - 09:47:41 PDT)
- Re: [AMBER] .rst file not produced during production run (Fri Apr 16 2021 - 14:01:29 PDT)
- Re: [AMBER] "No module named pytraj" during make test step (Thu Apr 15 2021 - 05:22:43 PDT)
- Re: [AMBER] 答复: [ambermd.org代发]Re: 答复: Problems when installing AMBER20 on CentOS 7: multiple definition of 'cifpin' (Tue Apr 13 2021 - 08:33:49 PDT)
- Re: [AMBER] 答复: Problems when installing AMBER20 on CentOS 7: multiple definition of 'cifpin' (Tue Apr 13 2021 - 05:44:52 PDT)
- Re: [AMBER] Problems when installing AMBER20 on CentOS 7: multiple definition of 'cifpin' (Tue Apr 13 2021 - 05:41:38 PDT)
- Re: [AMBER] Discrepancy in experimental and MMPBSA pattern of binding energy (Mon Apr 12 2021 - 05:59:49 PDT)
- Re: [AMBER] Questions about amber-adding counterions (Carlos Simmerling) (Mon Apr 12 2021 - 05:49:35 PDT)
- Re: [AMBER] chromophore file. (Sun Apr 11 2021 - 06:22:21 PDT)
- Re: [AMBER] Apply Lennar-Jones potential between small molecules (Sun Apr 11 2021 - 06:16:03 PDT)
- Re: [AMBER] Apply Lennar-Jones potential between small molecules (Fri Apr 09 2021 - 18:14:05 PDT)
- Re: [AMBER] Thermodynamic integration for protein-protein interactions (Fri Apr 09 2021 - 05:12:18 PDT)
- Re: [AMBER] molecular-dynamics docking: when everything docks to the receptor's site, how do you deal with it? (Thu Apr 08 2021 - 05:28:08 PDT)
- Re: [AMBER] MMPBSA per residue decomposition - Calculation speed (Thu Apr 08 2021 - 05:17:48 PDT)
- Re: [AMBER] Add molecule to prmtop/inpcrd ? (Wed Apr 07 2021 - 13:47:03 PDT)
- Re: [AMBER] cleaning after installation (Tue Apr 06 2021 - 18:26:25 PDT)
- Re: [AMBER] Heat Output File Issue (Fri Apr 02 2021 - 17:34:49 PDT)
- [AMBER] example files for the hcp option for GB (Thu Apr 01 2021 - 06:30:49 PDT)
- Re: [AMBER] error while building non-GPU accelerated mpi version of amber (Thu Apr 01 2021 - 06:08:38 PDT)
David Gae
- [AMBER] chromophore file. (Sat Apr 10 2021 - 23:44:22 PDT)
David Ricardo Figueroa Blanco
- [AMBER] PatchingError: .patches/AmberTools20_Unapplied_Patches/update.13 failed to apply. No changes made from this patch (Wed Apr 21 2021 - 15:20:47 PDT)
Dr. Anselm Horn
- Re: [AMBER] Cyclic Peptides: leap keeps adding missing atoms (Thu Apr 15 2021 - 17:08:48 PDT)
Dusanka Golo
- [AMBER] AMBER/EVB (Mon Apr 26 2021 - 06:10:41 PDT)
Fernandez, Joseph P.
- [AMBER] Nonstandard Residue (Wed Apr 14 2021 - 06:45:21 PDT)
Gabriel Cretin
- Re: [AMBER] Compile Amber20 with SGI/MPT 2.20 (Tue Apr 27 2021 - 06:32:54 PDT)
- [AMBER] Compile Amber20 with SGI/MPT 2.20 (Tue Apr 27 2021 - 03:56:53 PDT)
Gabriel Titchiner
- [AMBER] tleap solvate box problems (Fri Apr 16 2021 - 01:02:22 PDT)
gard nelson
- Re: [AMBER] D-amino acid library (Fri Apr 02 2021 - 13:26:30 PDT)
- [AMBER] D-amino acid library (Fri Apr 02 2021 - 11:14:50 PDT)
Gerald Monard
- Re: [AMBER] Adventures installing AMBER 20 in Centos 7 (Thu Apr 29 2021 - 19:55:22 PDT)
- Re: [AMBER] Compile Amber20 with SGI/MPT 2.20 (Tue Apr 27 2021 - 04:46:53 PDT)
- Re: [AMBER] 答复: [ambermd.org代发]Re: 答复: Problems when installing AMBER20 on CentOS 7: multiple definition of 'cifpin' (Tue Apr 13 2021 - 15:49:43 PDT)
German P. Barletta
- Re: [AMBER] cpptraj energy using 2 masks (Fri Apr 30 2021 - 12:44:12 PDT)
- [AMBER] cpptraj energy using 2 masks (Thu Apr 29 2021 - 11:01:07 PDT)
- [AMBER] moving water away from a residue (Wed Apr 07 2021 - 11:25:33 PDT)
Giorgos Lambrinidis
- Re: [AMBER] Error installing AMBER18 with RTX3070 and CUDA 10.2 and NVIDIA 460.67 driver (Fri Apr 09 2021 - 09:03:24 PDT)
- [AMBER] Error installing AMBER18 with RTX3070 and CUDA 10.2 and NVIDIA 460.67 driver (Fri Apr 09 2021 - 04:47:22 PDT)
- [AMBER] Erro installing AMBER18 with RTX3070 and CUDA 10.2 and NVIDIA 460.67 driver (Fri Apr 09 2021 - 04:09:23 PDT)
Gordon Richard Chalmers
- Re: [AMBER] Great news! (Thu Apr 01 2021 - 08:18:02 PDT)
Gustaf Olsson
- Re: [AMBER] Release of AmberTools21 (Fri Apr 30 2021 - 06:23:18 PDT)
- Re: [AMBER] Release of AmberTools21 (Fri Apr 30 2021 - 01:55:49 PDT)
- Re: [AMBER] Trouble Creating a pdb File (Wed Apr 28 2021 - 23:40:35 PDT)
- Re: [AMBER] Gaussian derived RESP charges and antechamber (Wed Apr 28 2021 - 05:48:59 PDT)
- [AMBER] Gaussian derived RESP charges and antechamber (Wed Apr 28 2021 - 03:30:13 PDT)
- Re: [AMBER] AMBER installation on multiple computers (Mon Apr 26 2021 - 02:33:02 PDT)
- Re: [AMBER] Will AmberTool21 support gcc10? (Wed Apr 21 2021 - 23:34:17 PDT)
- [AMBER] Will AmberTool21 support gcc10? (Tue Apr 20 2021 - 02:03:36 PDT)
- Re: [AMBER] Hack to install AmberTools20 on macOS (Mon Apr 19 2021 - 23:44:36 PDT)
- Re: [AMBER] Forcefield loading order and water parameters (Thu Apr 15 2021 - 00:00:16 PDT)
Gustavo Seabra
- Re: [AMBER] Make the two ligands independent in one simulation (Mon Apr 26 2021 - 11:51:29 PDT)
- Re: [AMBER] Add molecule to prmtop/inpcrd ? (Wed Apr 07 2021 - 12:29:17 PDT)
- [AMBER] Add molecule to prmtop/inpcrd ? (Tue Apr 06 2021 - 14:26:19 PDT)
h_sahakyan.mb.sci.am
- [AMBER] 2.5 fs integration time step (Mon Apr 19 2021 - 23:13:34 PDT)
- [AMBER] 2.5 fs integration time step (Mon Apr 19 2021 - 05:48:25 PDT)
Hai Nguyen
- Re: [AMBER] 答复: [ambermd.org代发]Re: 答复: [ambermd.org代发]Re: "No module named pytraj" during make test step (Sat Apr 17 2021 - 22:14:43 PDT)
- Re: [AMBER] 答复: [ambermd.org代发]Re: "No module named pytraj" during make test step (Thu Apr 15 2021 - 21:40:25 PDT)
- Re: [AMBER] "No module named pytraj" during make test step (Thu Apr 15 2021 - 11:38:54 PDT)
Hector A. Baldoni
- Re: [AMBER] Gaussian derived RESP charges and antechamber (Wed Apr 28 2021 - 05:30:24 PDT)
- [AMBER] Covalent bonded inhibitors and mm-pb(gb)sa analys (Mon Apr 26 2021 - 12:58:23 PDT)
Homeo Morphism
- [AMBER] molecular-dynamics docking: when everything docks to the receptor's site, how do you deal with it? (Thu Apr 08 2021 - 00:34:56 PDT)
- [AMBER] error while building non-GPU accelerated mpi version of amber (Thu Apr 01 2021 - 04:35:12 PDT)
jacob wick
- Re: [AMBER] Distance restraints not working (Thu Apr 22 2021 - 14:27:04 PDT)
- [AMBER] Distance restraints not working (Mon Apr 19 2021 - 02:10:44 PDT)
Jaime Rubio Martinez
- Re: [AMBER] Apply Lennar-Jones potential between small molecules (Wed Apr 28 2021 - 01:51:55 PDT)
James Kress
- Re: [AMBER] Make the two ligands independent in one simulation (Fri Apr 23 2021 - 12:00:52 PDT)
- Re: [AMBER] Great news! (Thu Apr 01 2021 - 14:06:59 PDT)
Jatin Kashyap
- Re: [AMBER] MMPBSA per residue decomposition - Calculation speed (Mon Apr 05 2021 - 15:33:24 PDT)
- Re: [AMBER] MMPBSA per residue decomposition - Calculation speed (Fri Apr 02 2021 - 13:43:13 PDT)
- Re: [AMBER] MMPBSA per residue decomposition - Calculation speed (Fri Apr 02 2021 - 13:23:43 PDT)
Jenny 148
- [AMBER] Heating stages ntx = 1 or ntx=5 (Wed Apr 28 2021 - 06:23:26 PDT)
Jutta Rogal
- [AMBER] amber manual - non-bonded terms (Mon Apr 19 2021 - 08:34:47 PDT)
Karl Kirschner
- Re: [AMBER] Great news! (Thu Apr 01 2021 - 08:26:09 PDT)
Kashyap, Jatin
- Re: [AMBER] MMPBSA per residue decomposition - Calculation speed (Wed Apr 07 2021 - 19:02:00 PDT)
Kellon Belfon
- Re: [AMBER] Forcefield loading order and water parameters (Wed Apr 14 2021 - 13:55:41 PDT)
Kenneth Huang
- Re: [AMBER] Gaussian derived RESP charges and antechamber (Wed Apr 28 2021 - 08:50:09 PDT)
- Re: [AMBER] protein sticking out of solvation box causing instability (Tue Apr 20 2021 - 12:32:01 PDT)
Kevin Keane
- [AMBER] Troubleshooting long idle times in pmemd.MPI (Thu Apr 29 2021 - 20:39:00 PDT)
- Re: [AMBER] Adventures installing AMBER 20 in Centos 7 (Thu Apr 29 2021 - 20:27:55 PDT)
Khong, Megan
- [AMBER] Trouble Creating a pdb File (Wed Apr 28 2021 - 14:14:36 PDT)
Lauren Raguette
- Re: [AMBER] Nonstandard Residue (Wed Apr 14 2021 - 08:24:26 PDT)
Li,Haoxi
- [AMBER] Questions about Principle Component Analysis (Thu Apr 15 2021 - 11:56:50 PDT)
Liao
- [AMBER] cpptraj atom definition bug found during RMSD/distance calculation? (Fri Apr 09 2021 - 13:39:38 PDT)
Manisha
- Re: [AMBER] Discrepancy in experimental and MMPBSA pattern of binding energy (Sun Apr 11 2021 - 22:50:16 PDT)
- Re: [AMBER] Discrepancy in experimental and MMPBSA pattern of binding energy (Tue Apr 06 2021 - 23:27:30 PDT)
- [AMBER] Discrepancy in experimental and MMPBSA pattern of binding energy (Tue Apr 06 2021 - 07:55:56 PDT)
Marko Sever
- [AMBER] Questions about using the command "lie" (Thu Apr 01 2021 - 05:48:02 PDT)
Markowska
- Re: [AMBER] How to track oxygen molecules in MD (Wed Apr 14 2021 - 08:27:13 PDT)
- Re: [AMBER] How to track oxygen molecules in MD (Mon Apr 12 2021 - 10:12:06 PDT)
Markus Metz
- [AMBER] FW: AMBER Digest, Vol 3348, Issue 1 (Thu Apr 29 2021 - 12:09:23 PDT)
- [AMBER] CPPTRAJ configuration is failing (Wed Apr 28 2021 - 12:04:56 PDT)
Maschietto, Federica
- [AMBER] Error using MCPB (Wed Apr 07 2021 - 08:08:02 PDT)
Matias Machado
- Re: [AMBER] Problem with incomplete solvation with tleap (Thu Apr 22 2021 - 09:27:27 PDT)
- Re: [AMBER] Add molecule to prmtop/inpcrd ? (Wed Apr 07 2021 - 06:30:28 PDT)
- Re: [AMBER] Great news! (Fri Apr 02 2021 - 14:14:55 PDT)
Matthew Guberman-Pfeffer
- Re: [AMBER] Discrepancy in experimental and MMPBSA pattern of (Tue Apr 06 2021 - 12:06:43 PDT)
Miguel Garavís
- Re: [AMBER] Problems to install AmberTools20 (Thu Apr 29 2021 - 03:43:12 PDT)
- Re: [AMBER] Problems to install AmberTools20 (Wed Apr 28 2021 - 05:14:49 PDT)
- [AMBER] Problems to install AmberTools20 (Wed Apr 28 2021 - 04:33:42 PDT)
Neville Bethel
- Re: [AMBER] protein sticking out of solvation box causing instability (Wed Apr 21 2021 - 13:37:59 PDT)
- [AMBER] protein sticking out of solvation box causing instability (Tue Apr 20 2021 - 10:34:53 PDT)
Ojet
- [AMBER] About cpptraj (v18) extracting temperature trajectory from REMD trajectory (Thu Apr 29 2021 - 21:02:49 PDT)
- [AMBER] Questions about REMD extracting temperature trajectory (Fri Apr 23 2021 - 18:07:20 PDT)
- [AMBER] About REMD extracting temperature trajectory (Thu Apr 15 2021 - 19:32:57 PDT)
Ojet
- [AMBER] Questions about REMD extracting temperature trajectory (Wed Apr 28 2021 - 23:26:12 PDT)
Otto Sievert
- [AMBER] Hack to install AmberTools20 on macOS (Sun Apr 18 2021 - 18:45:36 PDT)
Patil Pranita Uttamrao
- [AMBER] Regarding the forcefield parameters for cytochrome P450 heme group (Sun Apr 25 2021 - 03:53:50 PDT)
Piotr Fajer
- Re: [AMBER] Great news! (Thu Apr 01 2021 - 14:08:58 PDT)
Qinghua Liao
- Re: [AMBER] installation of AmberTools 21 (Fri Apr 30 2021 - 10:54:32 PDT)
- [AMBER] installation of AmberTools 21 (Fri Apr 30 2021 - 07:54:17 PDT)
Rafał Madaj
- [AMBER] TI error on last window of calculations (Wed Apr 14 2021 - 01:35:43 PDT)
Ramin Mehrani
- Re: [AMBER] Umbrella sampling on Amber 18 vs Amber 20 (Sat Apr 17 2021 - 10:20:32 PDT)
- [AMBER] Umbrella sampling on Amber 18 vs Amber 20 (Sat Apr 17 2021 - 08:59:56 PDT)
Ravi Abrol
- [AMBER] AMBER installation on multiple computers (Mon Apr 26 2021 - 01:12:22 PDT)
Reza Esmaeeli
- [AMBER] Forcefield loading order and water parameters (Wed Apr 14 2021 - 10:24:26 PDT)
Robert Molt
- [AMBER] Citation for LEaP (Tue Apr 27 2021 - 16:52:43 PDT)
Roberts, Amy L2
- Re: [AMBER] .rst file not produced during production run (Wed Apr 21 2021 - 14:16:42 PDT)
- Re: [AMBER] .rst file not produced during production run (Fri Apr 16 2021 - 12:04:57 PDT)
- [AMBER] .rst file not produced during production run (Wed Apr 14 2021 - 09:51:07 PDT)
Ross Walker
- Re: [AMBER] Error installing AMBER18 with RTX3070 and CUDA 10.2 and NVIDIA 460.67 driver (Fri Apr 09 2021 - 06:14:09 PDT)
- Re: [AMBER] Great news! (Thu Apr 01 2021 - 08:05:58 PDT)
Samanta M
- [AMBER] Protein dimension (Sat Apr 03 2021 - 05:42:45 PDT)
Sangita Kachhap
- Re: [AMBER] Amber Tool (Mon Apr 19 2021 - 10:12:50 PDT)
- [AMBER] Amber Tool (Mon Apr 19 2021 - 09:54:59 PDT)
SARAH JEANNE LEFAVE
- [AMBER] parmchk vs. parmchk2 for metal-ligand parameterization (Wed Apr 07 2021 - 08:00:11 PDT)
Scott Brozell
- [AMBER] trpcage benchmark: reduce 32x or dimerize ? (Thu Apr 29 2021 - 18:26:12 PDT)
- Re: [AMBER] Antechamber and mol2 file with .<TRIPOS>UNITY_ATOM_ATTR (Fri Apr 16 2021 - 19:03:52 PDT)
Shirin Jamshidi
- [AMBER] MD Simulation of Ribosome including Protein & RNA (Mon Apr 26 2021 - 11:16:44 PDT)
Sruthi Sudhakar
- [AMBER] Obtaining 3D structures from Reweighted PMF plots of accelerated MD (Mon Apr 12 2021 - 03:33:48 PDT)
Suchetana Gupta
- [AMBER] Error in using ambpdb to convert rst to pdb (Wed Apr 21 2021 - 07:41:23 PDT)
Swisher, Justin S
- [AMBER] Forcefield File and Adding My Own Polymer Unit (Fri Apr 23 2021 - 12:00:47 PDT)
- [AMBER] Heat Output File Issue (Fri Apr 02 2021 - 12:35:35 PDT)
Tainah Dorina Marforio
- [AMBER] R: Cyclic Peptides: leap keeps adding missing atoms (Mon Apr 19 2021 - 07:17:46 PDT)
- [AMBER] Cyclic Peptides: leap keeps adding missing atoms (Thu Apr 15 2021 - 03:34:07 PDT)
Thomas Cheatham
- Re: [AMBER] parmchk2 (Thu Apr 22 2021 - 20:50:59 PDT)
- Re: [AMBER] protein sticking out of solvation box causing instability (Wed Apr 21 2021 - 19:52:49 PDT)
- Re: [AMBER] Questions about Principle Component Analysis (Thu Apr 15 2021 - 13:17:00 PDT)
Thomas Gaillard
- [AMBER] cleaning after installation (Tue Apr 06 2021 - 08:23:44 PDT)
Tru Huynh
- Re: [AMBER] 答复: Problems when installing AMBER20 on CentOS 7: multiple definition of 'cifpin' (Tue Apr 13 2021 - 03:04:59 PDT)
Vaibhav Dixit
- Re: [AMBER] polarizable FF in amber18 or 20 (Thu Apr 29 2021 - 21:03:38 PDT)
- Re: [AMBER] unusually high entropy values MMPBSA quasi-harmonic (Tue Apr 20 2021 - 00:17:26 PDT)
- Re: [AMBER] unusually high entropy values MMPBSA quasi-harmonic (Mon Apr 19 2021 - 10:18:24 PDT)
- Re: [AMBER] unusually high entropy values MMPBSA quasi-harmonic (Mon Apr 19 2021 - 07:19:04 PDT)
- Re: [AMBER] unusually high entropy values MMPBSA quasi-harmonic (Mon Apr 19 2021 - 07:10:59 PDT)
- [AMBER] unusually high entropy values MMPBSA quasi-harmonic (Sun Apr 18 2021 - 10:20:59 PDT)
- [AMBER] halted quasi-harmonic MMPBSA calculation (Sat Apr 17 2021 - 08:35:44 PDT)
- Re: [AMBER] force field balance vs accuracy (Mon Apr 05 2021 - 09:10:52 PDT)
Vishal Singh
- Re: [AMBER] SMD analysing question (Xiaodong) (Tue Apr 13 2021 - 19:23:07 PDT)
waleed zalloum
- Re: [AMBER] AMBER Digest, Vol 3336, Issue 1 (Sat Apr 17 2021 - 13:01:10 PDT)
- [AMBER] RMSIP (Thu Apr 15 2021 - 21:01:28 PDT)
WW
- Re: [AMBER] Thermodynamic integration for protein-protein interactions (Sun Apr 18 2021 - 09:37:40 PDT)
- Re: [AMBER] Thermodynamic integration for protein-protein interactions (Sat Apr 10 2021 - 19:43:48 PDT)
- Re: [AMBER] Thermodynamic integration for protein-protein interactions (Thu Apr 08 2021 - 15:32:04 PDT)
zz sheng
- Re: [AMBER] TI free energy calculation issue after applying smoothstep in Amber20 (Mon Apr 26 2021 - 07:44:14 PDT)
- [AMBER] TI free energy calculation issue after applying smoothstep in Amber20 (Sun Apr 25 2021 - 20:32:38 PDT)
- Re: [AMBER] Distance tolerance for identifying common atoms in thermodynamics integration (Mon Apr 05 2021 - 08:00:43 PDT)
余鸿艳
- [AMBER] Help for NETCDF Error :Input/Output error (Wed Apr 07 2021 - 04:51:19 PDT)
吴晓东
- [AMBER] SMD analysing question (Xiaodong) (Tue Apr 13 2021 - 18:26:04 PDT)
周丽萍
- [AMBER] WARNING: INCONSISTENCIES EXIST WITHIN INTERNAL POTENTIAL TERMS. THE VALIDITY OF THESE RESULTS ARE HIGHLY QUESTIONABLE (Fri Apr 23 2021 - 20:28:24 PDT)
- Re: [AMBER] running sander.MPI :forrtl: severe (174): SIGSEGV, segmentation fault occurred (Wed Apr 21 2021 - 22:13:02 PDT)
- Re: [AMBER] running sander.MPI :forrtl: severe (174): SIGSEGV, segmentation fault occurred (Wed Apr 21 2021 - 05:29:55 PDT)
- [AMBER] running sander.MPI :forrtl: severe (174): SIGSEGV, segmentation fault occurred (Wed Apr 21 2021 - 01:32:23 PDT)
库米尔
- Re: [AMBER] Calculation halted on pmemd.cuda (Fri Apr 09 2021 - 09:44:04 PDT)
李明玉
- Re: [AMBER] Make the two ligands independent in one simulation (Fri Apr 23 2021 - 19:47:05 PDT)
- Re: [AMBER] Make the two ligands independent in one simulation (Fri Apr 23 2021 - 08:00:38 PDT)
- [AMBER] Make the two ligands independent in one simulation (Fri Apr 23 2021 - 07:18:35 PDT)
石谷沁
- [AMBER] 答复: [ambermd.org代发]Re: 答复: [ambermd.org代发]Re: Max relative errors questions in parallel and cuda.serial test (Wed Apr 28 2021 - 17:57:46 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: Max relative errors questions in parallel and cuda.serial test (Tue Apr 27 2021 - 17:54:26 PDT)
- Re: [AMBER] [ambermd.org代发]Re: [ambermd.org代发]Re: Max relative errors questions in parallel and cuda.serial test (Sun Apr 25 2021 - 17:37:13 PDT)
- Re: [AMBER] [ambermd.org代发]Re: Max relative errors questions in parallel and cuda.serial test (Sat Apr 24 2021 - 17:37:12 PDT)
- Re: [AMBER] Max relative errors questions in parallel and cuda.serial test (Wed Apr 21 2021 - 19:56:57 PDT)
- [AMBER] Max relative errors questions in parallel and cuda.serial test (Wed Apr 21 2021 - 19:50:16 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: 答复: [ambermd.org代发]Re: "No module named pytraj" during make test step (Thu Apr 15 2021 - 23:27:01 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: 答复: [ambermd.org代发]Re: "No module named pytraj" during make test step (Thu Apr 15 2021 - 22:55:45 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: "No module named pytraj" during make test step (Thu Apr 15 2021 - 20:31:59 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: "No module named pytraj" during make test step (Thu Apr 15 2021 - 20:25:23 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: "No module named pytraj" during make test step (Thu Apr 15 2021 - 20:02:47 PDT)
- Re: [AMBER] "No module named pytraj" during make test step (Thu Apr 15 2021 - 00:56:57 PDT)
- [AMBER] "No module named pytraj" during make test step (Wed Apr 14 2021 - 18:33:18 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: 答复: [ambermd.org代发]Re: 答复: Problems when installing AMBER20 on CentOS 7: multiple definition of 'cifpin' (Wed Apr 14 2021 - 03:22:35 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: 答复: Problems when installing AMBER20 on CentOS 7: multiple definition of 'cifpin' (Tue Apr 13 2021 - 06:34:34 PDT)
- [AMBER] 答复: Problems when installing AMBER20 on CentOS 7: multiple definition of 'cifpin' (Mon Apr 12 2021 - 23:17:53 PDT)
- [AMBER] Problems when installing AMBER20 on CentOS 7: multiple definition of 'cifpin' (Mon Apr 12 2021 - 20:48:20 PDT)
马芳芳
- Re: [AMBER] Questions about amber-adding counterions (Carlos Simmerling and David A Case) (Mon Apr 12 2021 - 19:13:55 PDT)
- Re: [AMBER] Questions about amber-adding counterions (Carlos Simmerling) (Sun Apr 11 2021 - 17:16:00 PDT)
- [AMBER] Questions about amber-adding counterions (Sat Apr 10 2021 - 18:54:21 PDT)

Amber Archive Apr 2021 by author