Amber Archive Feb 2017: by author

ABHIJEET CHOWDHURY
- Re: [AMBER] Installation problem with miniconda (Fri Feb 17 2017 - 04:53:15 PST)
- Re: [AMBER] Installation problem with miniconda (Wed Feb 15 2017 - 09:27:58 PST)
- [AMBER] Installation problem with miniconda (Wed Feb 15 2017 - 05:13:36 PST)
Abhilash J
- Re: [AMBER] Number of threads in MMGBSA/MMPBSA calculations. (Sat Feb 04 2017 - 05:59:06 PST)
- [AMBER] Number of threads in MMGBSA/MMPBSA calculations. (Fri Feb 03 2017 - 22:27:05 PST)
- Re: [AMBER] Thiophosphate paramters - AMBER (Thu Feb 02 2017 - 05:41:23 PST)
- Re: [AMBER] Multiple ligands in MMGBSA (Thu Feb 02 2017 - 00:22:36 PST)
- Re: [AMBER] Multiple ligands in MMGBSA (Wed Feb 01 2017 - 02:39:06 PST)
Adrian Roitberg
- [AMBER] request for input files (Mon Feb 27 2017 - 10:24:56 PST)
- Re: [AMBER] Amber force filed parameter (Wed Feb 22 2017 - 14:32:09 PST)
- Re: [AMBER] Simulations with R_OF_GYRATION (Wed Feb 15 2017 - 11:31:14 PST)
- Re: [AMBER] constant pH caluculations with pmemd.cuda.MPI (Wed Feb 15 2017 - 06:15:32 PST)
- Re: [AMBER] Should ig value be set explicitly? (Mon Feb 13 2017 - 08:42:18 PST)
- Re: [AMBER] Obtain dynamical matrix away from equilibrium (Thu Feb 09 2017 - 10:10:48 PST)
- Re: [AMBER] CpHMD – Effect of explicit ions when calculating the pKa of model compounds (Tue Feb 07 2017 - 05:28:11 PST)
Albert
- Re: [AMBER] MMPBSA failed (Wed Feb 01 2017 - 06:18:38 PST)
- Re: [AMBER] MMPBSA failed (Wed Feb 01 2017 - 03:46:10 PST)
- Re: [AMBER] MMPBSA failed (Wed Feb 01 2017 - 03:11:12 PST)
- Re: [AMBER] MMPBSA failed (Tue Jan 31 2017 - 23:46:48 PST)
Alejandro Sosa
- Re: [AMBER] frequency contact maps (Thu Feb 16 2017 - 13:38:27 PST)
Alfredo Quevedo
- Re: [AMBER] custom directory for DFTB parameter files (Thu Feb 09 2017 - 10:45:23 PST)
- [AMBER] custom directory for DFTB parameter files (Thu Feb 09 2017 - 07:41:36 PST)
Alicia Merlino
- Re: [AMBER] problems with heating (Thu Feb 23 2017 - 20:52:53 PST)
- Re: [AMBER] problems with heating (Thu Feb 23 2017 - 20:09:37 PST)
- Re: [AMBER] problems with heating (Thu Feb 23 2017 - 20:05:04 PST)
- Re: [AMBER] problems with heating (Thu Feb 23 2017 - 18:23:04 PST)
- Re: [AMBER] problems with heating (Wed Feb 22 2017 - 21:01:14 PST)
- Re: [AMBER] problems with heating (Wed Feb 22 2017 - 20:32:36 PST)
- Re: [AMBER] problems with heating (Wed Feb 22 2017 - 20:00:23 PST)
- Re: [AMBER] problems with heating (Wed Feb 22 2017 - 19:30:41 PST)
- Re: [AMBER] problems with heating (Wed Feb 22 2017 - 15:13:10 PST)
- Re: [AMBER] problems with heating (Wed Feb 22 2017 - 14:57:40 PST)
- [AMBER] problems with heating (Wed Feb 22 2017 - 11:24:34 PST)
Andreas Gavrielides
- Re: [AMBER] VdW parameters in AMBER (Thu Feb 09 2017 - 03:25:25 PST)
- [AMBER] VdW parameters in AMBER (Wed Feb 08 2017 - 08:48:12 PST)
Andreas Tosstorff
- Re: [AMBER] APR - atom selection (Tue Feb 07 2017 - 05:38:03 PST)
- Re: [AMBER] APR - atom selection (Wed Feb 01 2017 - 07:10:57 PST)
- [AMBER] APR - atom selection (Wed Feb 01 2017 - 05:05:56 PST)
Andrew Schaub
- Re: [AMBER] Force Field for Ammonia? (Fri Feb 03 2017 - 20:18:22 PST)
Anna Cebrian Prats
- Re: [AMBER] Radical Carbon (Wed Feb 01 2017 - 06:42:14 PST)
Anton Perera
- [AMBER] Error in compiling pmemd.cuda (Wed Feb 01 2017 - 20:06:12 PST)
Antonio Coluccia
- Re: [AMBER] frequency contact maps (Tue Feb 21 2017 - 06:45:00 PST)
- Re: [AMBER] frequency contact maps (Fri Feb 17 2017 - 01:04:42 PST)
- Re: [AMBER] frequency contact maps (Wed Feb 15 2017 - 08:15:50 PST)
antonio.coluccia.uniroma1.it
- [AMBER] frequency contact maps (Wed Feb 15 2017 - 06:28:05 PST)
ARMIN HODAEI
- [AMBER] SO4 molecule xleap (Mon Feb 20 2017 - 02:53:06 PST)
Artem Shekhovtsov
- Re: [AMBER] Free energy calculation SHAKE's failure when heating. (Fri Feb 24 2017 - 11:06:00 PST)
- [AMBER] Free energy calculation SHAKE's failure when heating. (Fri Feb 24 2017 - 08:11:53 PST)
Aseel Bala
- Re: [AMBER] Creating a double bond in a pdb file with xleap (Tue Feb 21 2017 - 08:40:21 PST)
- Re: [AMBER] Creating a double bond in a pdb file with xleap (Tue Feb 21 2017 - 08:40:10 PST)
- Re: [AMBER] Creating a double bond in a pdb file with xleap (Thu Feb 16 2017 - 12:47:27 PST)
- [AMBER] Creating a double bond in a pdb file with xleap (Wed Feb 15 2017 - 11:08:03 PST)
Ayesha Kanwal
- [AMBER] how to solve syntax error issue (Tue Feb 07 2017 - 02:09:57 PST)
Azade Yazdan Yar
- Re: [AMBER] Should ig value be set explicitly? (Mon Feb 13 2017 - 08:45:11 PST)
- [AMBER] Should ig value be set explicitly? (Mon Feb 13 2017 - 08:17:41 PST)
Balaji Selvam
- [AMBER] Thiophosphate paramters - AMBER (Wed Feb 01 2017 - 10:33:12 PST)
Bill Ross
- Re: [AMBER] Cannot convert rst to pdb file after md simulation. (Mon Feb 27 2017 - 10:03:02 PST)
- Re: [AMBER] problems with heating (Fri Feb 24 2017 - 02:00:14 PST)
- Re: [AMBER] problems with heating (Fri Feb 24 2017 - 01:22:23 PST)
- Re: [AMBER] problems with heating (Thu Feb 23 2017 - 20:18:23 PST)
- Re: [AMBER] problems with heating (Thu Feb 23 2017 - 19:12:33 PST)
- Re: [AMBER] problems with heating (Wed Feb 22 2017 - 20:38:06 PST)
- Re: [AMBER] Amber force filed parameter (Wed Feb 22 2017 - 15:13:42 PST)
- Re: [AMBER] Amber force filed parameter (Wed Feb 22 2017 - 14:58:32 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 01:00:22 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:54:44 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:40:30 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:30:38 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:27:11 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:05:14 PST)
- Re: [AMBER] Fwd: SQM Error (Tue Feb 21 2017 - 23:57:13 PST)
- Re: [AMBER] Fwd: SQM Error (Tue Feb 21 2017 - 23:28:00 PST)
- Re: [AMBER] AMBER Digest, Vol 1852, Issue 1 (Tue Feb 21 2017 - 03:04:41 PST)
- Re: [AMBER] tleap error (Mon Feb 20 2017 - 22:53:16 PST)
- Re: [AMBER] minimization issue (**** in rst file) (Mon Feb 20 2017 - 22:28:26 PST)
- Re: [AMBER] minimization issue (**** in rst file) (Mon Feb 20 2017 - 22:19:23 PST)
- Re: [AMBER] minimization issue (**** in rst file) (Mon Feb 20 2017 - 19:50:52 PST)
- Re: [AMBER] error in the input file (Mon Feb 20 2017 - 05:36:25 PST)
- Re: [AMBER] error in the input file (Mon Feb 20 2017 - 05:23:08 PST)
- Re: [AMBER] error in the input file (Mon Feb 20 2017 - 04:50:26 PST)
- Re: [AMBER] Problem with mmpbsa (Mon Feb 20 2017 - 04:46:38 PST)
- Re: [AMBER] Na cation drifts away from metal chelating protein (Sun Feb 19 2017 - 02:49:09 PST)
- Re: [AMBER] Creating a double bond in a pdb file with xleap (Thu Feb 16 2017 - 22:54:10 PST)
- Re: [AMBER] help in parameters (Tue Feb 14 2017 - 22:32:21 PST)
- Re: [AMBER] Amber Energy Unit Meaning (Mon Feb 13 2017 - 23:06:03 PST)
- Re: [AMBER] Amber Energy Unit Meaning (Mon Feb 13 2017 - 23:02:29 PST)
Brian Radak
- Re: [AMBER] Using CHARMM 36 force field in AMBER (Mon Feb 20 2017 - 07:55:56 PST)
Bruno Falcone
- Re: [AMBER] Charge error in Antechamber. (Fri Feb 24 2017 - 10:13:13 PST)
- Re: [AMBER] Charge error in Antechamber. (Fri Feb 24 2017 - 09:04:54 PST)
- Re: [AMBER] binding energy decomposition (Fri Feb 03 2017 - 06:03:13 PST)
Buteler,Maria del Pilar
- [AMBER] Parameters for nucelotides (Thu Feb 02 2017 - 08:15:12 PST)
Carlos Simmerling
- [AMBER] Call for awards applications for ACS COMP Division Fall meeting in DC (Sat Feb 25 2017 - 03:08:05 PST)
- Re: [AMBER] changing chirality with ParmEd? (Tue Feb 21 2017 - 13:41:36 PST)
- Re: [AMBER] changing chirality with ParmEd? (Tue Feb 21 2017 - 13:33:23 PST)
Chase Zagorec-Marks
- [AMBER] Amber15 Cpinutil.py Bug (Tue Feb 14 2017 - 13:19:09 PST)
chemocev marker
- Re: [AMBER] > source leaprc.water.tip3p (Tue Feb 21 2017 - 07:17:01 PST)
- [AMBER] > source leaprc.water.tip3p (Tue Feb 21 2017 - 05:35:57 PST)
- Re: [AMBER] Fw: Hydrophobic and pi-pi interaction (Thu Feb 16 2017 - 08:05:57 PST)
Chinh Su Tran To
- Re: [AMBER] minimization issue (**** in rst file) (Mon Feb 20 2017 - 23:18:53 PST)
- Re: [AMBER] minimization issue (**** in rst file) (Mon Feb 20 2017 - 21:55:14 PST)
- [AMBER] minimization issue (**** in rst file) (Mon Feb 20 2017 - 19:07:46 PST)
Chris Neale
- Re: [AMBER] pi-pi interaction and hydrophobic (Fri Feb 24 2017 - 14:46:58 PST)
- Re: [AMBER] Alternatives to ambmask that might work with parmed/gromber generated .prmtop files? (Thu Feb 23 2017 - 12:29:02 PST)
- [AMBER] Alternatives to ambmask that might work with parmed/gromber generated .prmtop files? (Thu Feb 23 2017 - 10:13:16 PST)
- Re: [AMBER] 回复： Using CHARMM 36 force field in AMBER (Tue Feb 21 2017 - 19:50:02 PST)
- Re: [AMBER] How to download patches and updates manually (Wed Feb 08 2017 - 07:56:29 PST)
- Re: [AMBER] 8 GPU single pmemd run with amber 16? (Mon Feb 06 2017 - 13:09:28 PST)
- [AMBER] 8 GPU single pmemd run with amber 16? (Mon Feb 06 2017 - 12:31:12 PST)
- [AMBER] parmed gromber issues inappropriate disulfide warning based on CYS/MET approach (Fri Feb 03 2017 - 13:57:39 PST)
Corum, Katharine W
- Re: [AMBER] MTKpp.pdf manual (Thu Feb 02 2017 - 09:11:42 PST)
- [AMBER] MTKpp.pdf manual (Thu Feb 02 2017 - 09:08:19 PST)
Curtis Walker
- [AMBER] IERR CPU hang needing support please (Thu Feb 16 2017 - 14:11:17 PST)
Daniel Roe
- Re: [AMBER] Cannot convert rst to pdb file after md simulation. (Mon Feb 27 2017 - 10:23:20 PST)
- Re: [AMBER] Cannot convert rst to pdb file after md simulation. (Mon Feb 27 2017 - 09:40:44 PST)
- Re: [AMBER] Problems reading in TIP3P parameters (Sun Feb 26 2017 - 10:57:46 PST)
- Re: [AMBER] STRIP (Fri Feb 24 2017 - 11:40:16 PST)
- Re: [AMBER] Sander python API problem (?) (Fri Feb 24 2017 - 11:27:43 PST)
- Re: [AMBER] Sander python API problem (?) (Fri Feb 24 2017 - 06:42:38 PST)
- Re: [AMBER] Alternatives to ambmask that might work with parmed/gromber generated .prmtop files? (Thu Feb 23 2017 - 11:38:50 PST)
- Re: [AMBER] DIMENSION OF BOX (Thu Feb 23 2017 - 05:40:37 PST)
- Re: [AMBER] Distance between of each residues of two chains within trajectory (Tue Feb 21 2017 - 08:52:03 PST)
- Re: [AMBER] frequency contact maps (Tue Feb 21 2017 - 07:16:06 PST)
- Re: [AMBER] When does cpptraj use information from the original pdb file? (Tue Feb 21 2017 - 06:30:27 PST)
- Re: [AMBER] frequency contact maps (Fri Feb 17 2017 - 06:48:19 PST)
- Re: [AMBER] frequency contact maps (Wed Feb 15 2017 - 07:38:57 PST)
- Re: [AMBER] PCA (Mon Feb 13 2017 - 12:15:35 PST)
- Re: [AMBER] H_bond (Mon Feb 13 2017 - 12:12:08 PST)
- Re: [AMBER] CPPTRAJ combined clustering with different topologies (Mon Feb 13 2017 - 06:16:32 PST)
- Re: [AMBER] RE：RE: Failed to calculate entropy with mm_pbsa.pl in AMBER14, with no error informations reported in nmode_com.1.out (Thu Feb 09 2017 - 17:16:32 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Fri Feb 03 2017 - 05:47:29 PST)
- Re: [AMBER] Methods to count the different species (Thu Feb 02 2017 - 06:59:17 PST)
- Re: [AMBER] [MMPBSA.py.MPI] Two questions (autoimage and parsing of output) (Thu Feb 02 2017 - 06:52:24 PST)
- Re: [AMBER] clustering (Thu Feb 02 2017 - 06:46:02 PST)
- Re: [AMBER] APR - atom selection (Wed Feb 01 2017 - 06:52:56 PST)
- Re: [AMBER] Differences using leaprc.ff14SB from AmberTools15 and oldff/leaprc.ff14SB from AmberTools16 (Tue Jan 31 2017 - 17:27:18 PST)
Danu Fajar
- Re: [AMBER] Fwd: Error during installation process (Wed Feb 01 2017 - 18:03:57 PST)
- Re: [AMBER] Fwd: Error during installation process (Tue Jan 31 2017 - 19:28:45 PST)
- Re: [AMBER] Fwd: Error during installation process (Tue Jan 31 2017 - 09:46:54 PST)
- Re: [AMBER] Fwd: Error during installation process (Tue Jan 31 2017 - 09:37:49 PST)
David Case
- Re: [AMBER] problem about pressure setting (Tue Feb 28 2017 - 05:16:15 PST)
- Re: [AMBER] problems with heating (Sat Feb 25 2017 - 06:33:31 PST)
- Re: [AMBER-Developers] [AMBER] Segmentation fault when starting parmchk2 for a modified aminoacid residue (Fri Feb 24 2017 - 04:54:24 PST)
- Re: [AMBER-Developers] [AMBER] 回复： Using CHARMM 36 force field in AMBER (Thu Feb 23 2017 - 05:28:52 PST)
- Re: [AMBER] Amber force filed parameter (Thu Feb 23 2017 - 05:22:48 PST)
- Re: [AMBER] Antechamber Gaff Am1-bcc charges (Thu Feb 23 2017 - 05:16:40 PST)
- Re: [AMBER-Developers] [AMBER] problems with heating (Wed Feb 22 2017 - 18:26:12 PST)
- Re: [AMBER] problems with heating (Wed Feb 22 2017 - 12:49:35 PST)
- Re: [AMBER] Segmentation fault when starting parmchk2 for a modified aminoacid residue (Wed Feb 22 2017 - 11:27:21 PST)
- Re: [AMBER] > source leaprc.water.tip3p (Tue Feb 21 2017 - 11:05:22 PST)
- Re: [AMBER] Segmentation fault when starting parmchk2 for a modified aminoacid residue (Tue Feb 21 2017 - 06:32:02 PST)
- Re: [AMBER] > source leaprc.water.tip3p (Tue Feb 21 2017 - 06:28:05 PST)
- Re: [AMBER] problem with CpHMD (Tue Feb 21 2017 - 05:22:40 PST)
- Re: [AMBER] binding free energy- error calculation doubt (Tue Feb 21 2017 - 05:19:54 PST)
- Re: [AMBER] minimization issue (**** in rst file) (Tue Feb 21 2017 - 05:15:23 PST)
- Re: [AMBER] Problem with mmpbsa (Mon Feb 20 2017 - 07:33:18 PST)
- Re: [AMBER-Developers] [AMBER] Velocity file output AMBER16 (Sat Feb 18 2017 - 12:34:09 PST)
- Re: [AMBER] [Amber] Frequencies from normal mode analysis in nab (Sat Feb 18 2017 - 12:33:57 PST)
- Re: [AMBER] LeAP and FFs for Hybrid DNA/RNA structure (Sat Feb 18 2017 - 12:33:35 PST)
- Re: [AMBER] makeDIST_RST issue (Fri Feb 17 2017 - 05:24:03 PST)
- Re: [AMBER] Problem using nmropt=1 with CUDA - AMBER 14 (Thu Feb 16 2017 - 19:34:57 PST)
- Re: [AMBER] Creating a double bond in a pdb file with xleap (Thu Feb 16 2017 - 13:50:32 PST)
- Re: [AMBER] help in parameters (Thu Feb 16 2017 - 05:11:43 PST)
- Re: [AMBER] Creating a double bond in a pdb file with xleap (Wed Feb 15 2017 - 18:31:24 PST)
- Re: [AMBER] production error. (Tue Feb 14 2017 - 09:15:36 PST)
- Re: [AMBER] production error. (Tue Feb 14 2017 - 06:15:29 PST)
- Re: [AMBER] Velocity file output AMBER16 (Tue Feb 14 2017 - 06:10:49 PST)
- Re: [AMBER] EPM2 Force field for CO2 (Thu Feb 09 2017 - 13:09:03 PST)
- Re: [AMBER] Failed to calculate entropy with mm_pbsa.pl in AMBER14, with no error informations reported in nmode_com.1.out (Thu Feb 09 2017 - 06:02:35 PST)
- Re: [AMBER] EPM2 Force field for CO2 (Wed Feb 08 2017 - 16:17:14 PST)
- Re: [AMBER] VdW parameters in AMBER (Wed Feb 08 2017 - 10:28:42 PST)
- Re: [AMBER] Amber16 -mpt-2.15-gcc/6.1.0-RHEL7.3- compilation error (Wed Feb 08 2017 - 07:42:55 PST)
- Re: [AMBER] how to solve syntax error issue (Tue Feb 07 2017 - 05:50:43 PST)
- Re: [AMBER] Cannot open the main chain file after prepgen command (Mon Feb 06 2017 - 08:08:00 PST)
- Re: [AMBER] EPM2 Force field for CO2 (Mon Feb 06 2017 - 08:03:16 PST)
- Re: [AMBER] ADDING WATER MOLECULES (Sun Feb 05 2017 - 05:31:31 PST)
- Re: [AMBER] changing water molecules in water box (Thu Feb 02 2017 - 12:54:38 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 12:51:31 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 09:37:35 PST)
- Re: [AMBER] Fwd: Error during installation process (Thu Feb 02 2017 - 05:21:34 PST)
- Re: [AMBER] Amber16 installation error (Thu Feb 02 2017 - 05:17:59 PST)
- Re: [AMBER] Fwd: Error during installation process (Thu Feb 02 2017 - 05:08:31 PST)
- Re: [AMBER] Radical Carbon (Wed Feb 01 2017 - 05:04:07 PST)
Dickson, Callum J
- Re: [AMBER] CHARMM36 force field (Fri Feb 10 2017 - 08:41:45 PST)
Eiros Zamora, Juan
- Re: [AMBER] [MMPBSA.py.MPI] Two questions (autoimage and parsing of output) (Mon Feb 06 2017 - 06:30:11 PST)
- Re: [AMBER] [MMPBSA.py.MPI] Two questions (autoimage and parsing of output) (Mon Feb 06 2017 - 04:16:26 PST)
- Re: [AMBER] [MMPBSA.py.MPI] Two questions (autoimage and parsing of output) (Fri Feb 03 2017 - 08:11:01 PST)
- [AMBER] [MMPBSA.py.MPI] Two questions (autoimage and parsing of output) (Wed Feb 01 2017 - 05:09:02 PST)
Elisa Pieri
- Re: [AMBER] Sander python API problem (?) (Fri Feb 24 2017 - 06:40:46 PST)
- Re: [AMBER] Sander python API problem (?) (Fri Feb 24 2017 - 06:23:19 PST)
- Re: [AMBER] Sander python API problem (?) (Fri Feb 24 2017 - 02:24:33 PST)
- Re: [AMBER] Sander python API problem (?) (Thu Feb 23 2017 - 08:18:05 PST)
- Re: [AMBER] Sander python API problem (?) (Thu Feb 23 2017 - 07:54:52 PST)
- Re: [AMBER] Sander python API problem (?) (Thu Feb 23 2017 - 07:43:05 PST)
- [AMBER] Sander python API problem (?) (Thu Feb 23 2017 - 07:05:15 PST)
- [AMBER] How to download patches and updates manually (Wed Feb 08 2017 - 07:49:21 PST)
Elvis Martis
- Re: [AMBER] Segmentation fault when starting parmchk2 for a modified aminoacid residue (Thu Feb 23 2017 - 08:35:11 PST)
- Re: [AMBER] Segmentation fault when starting parmchk2 for a modified aminoacid residue (Wed Feb 22 2017 - 08:25:20 PST)
- Re: [AMBER] binding free energy- error calculation doubt (Wed Feb 22 2017 - 04:21:12 PST)
- Re: [AMBER] Segmentation fault when starting parmchk2 for a modified aminoacid residue (Tue Feb 21 2017 - 08:21:23 PST)
- Re: [AMBER] tleap error (Tue Feb 21 2017 - 02:06:14 PST)
- Re: [AMBER] Problem with mmpbsa (Mon Feb 20 2017 - 04:15:15 PST)
- Re: [AMBER] SO4 molecule xleap (Mon Feb 20 2017 - 03:35:02 PST)
- Re: [AMBER] Na cation drifts away from metal chelating protein (Sun Feb 19 2017 - 02:41:16 PST)
- Re: [AMBER] production error. (Mon Feb 13 2017 - 23:04:32 PST)
- Re: [AMBER] Velocity file output AMBER16 (Mon Feb 13 2017 - 20:00:55 PST)
- Re: [AMBER] Re：Re: RE：RE: Failed to calculate entropy with mm_pbsa.pl in AMBER14, with no error_informations_reported_in_nmode_com.1.out (Fri Feb 10 2017 - 21:25:07 PST)
- Re: [AMBER] RE：RE: Failed to calculate entropy with mm_pbsa.pl in AMBER14, with no error informations reported in nmode_com.1.out (Thu Feb 09 2017 - 17:31:08 PST)
- Re: [AMBER] PCA (Thu Feb 09 2017 - 17:26:36 PST)
- Re: [AMBER] PCA analysis (Thu Feb 09 2017 - 07:06:41 PST)
- Re: [AMBER] PCA analysis (Thu Feb 09 2017 - 07:02:25 PST)
- Re: [AMBER] Failed to calculate entropy with mm_pbsa.pl in AMBER14, with no error informations reported in nmode_com.1.out (Thu Feb 09 2017 - 04:08:37 PST)
- Re: [AMBER] how to solve syntax error issue (Tue Feb 07 2017 - 04:15:27 PST)
- Re: [AMBER] ADDING WATER MOLECULES (Sat Feb 04 2017 - 03:18:34 PST)
- Re: [AMBER] Number of threads in MMGBSA/MMPBSA calculations. (Sat Feb 04 2017 - 00:25:57 PST)
- Re: [AMBER] protocol for simulating a system in NaCl using xleaP module (Fri Feb 03 2017 - 03:30:24 PST)
- Re: [AMBER] protocol for simulating a system in NaCl using xleaP module (Fri Feb 03 2017 - 03:21:14 PST)
- Re: [AMBER] Error in compiling pmemd.cuda (Wed Feb 01 2017 - 20:11:13 PST)
- Re: [AMBER] Thiophosphate paramters - AMBER (Wed Feb 01 2017 - 19:53:02 PST)
- Re: [AMBER] cannot add bond (Wed Feb 01 2017 - 19:51:04 PST)
- Re: [AMBER] Multiple ligands in MMGBSA (Wed Feb 01 2017 - 04:29:57 PST)
- Re: [AMBER] Multiple ligands in MMGBSA (Tue Jan 31 2017 - 19:13:13 PST)
Eric Lang
- Re: [AMBER] Explicity solvent CpHD, -cprestrt .cpin file (Fri Feb 10 2017 - 13:10:00 PST)
- Re: [AMBER] Explicity solvent CpHD, -cprestrt .cpin file (Fri Feb 10 2017 - 06:56:17 PST)
- Re: [AMBER] CpHMD – Effect of explicit ions when calculating the pKa of model compounds (Fri Feb 10 2017 - 02:34:56 PST)
- Re: [AMBER] CpHMD – Effect of explicit ions when calculating the pKa of model compounds (Wed Feb 08 2017 - 04:16:24 PST)
- Re: [AMBER] CpHMD – Effect of explicit ions when calculating the pKa of model compounds (Tue Feb 07 2017 - 05:22:16 PST)
Eugene Cha
- [AMBER] Amber Energy Unit Meaning (Mon Feb 13 2017 - 22:47:34 PST)
Feng Pan
- Re: [AMBER] Amber16 -mpt-2.15-gcc/6.1.0-RHEL7.3- compilation error (Thu Feb 16 2017 - 11:12:04 PST)
- Re: [AMBER] Simulations with R_OF_GYRATION (Wed Feb 15 2017 - 13:56:40 PST)
- Re: [AMBER] Amber16 -mpt-2.15-gcc/6.1.0-RHEL7.3- compilation error (Thu Feb 09 2017 - 08:09:49 PST)
Florian Hofer
- Re: [AMBER] constant pH caluculations with pmemd.cuda.MPI (Wed Feb 15 2017 - 06:19:34 PST)
FyD
- Re: [AMBER] [q4md-fft] Unknown parameters frcmod.unknown (Sun Feb 26 2017 - 02:05:02 PST)
- Re: [AMBER] Parameters for nucelotides (Fri Feb 03 2017 - 00:53:50 PST)
Geoffrey Gray
- [AMBER] Problems reading in TIP3P parameters (Sun Feb 26 2017 - 09:51:33 PST)
Giovanni Bussi
- [AMBER] PLUMED Meeting 2017 (Tue Feb 14 2017 - 01:03:01 PST)
Goetz, Andreas
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:54:26 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:09:05 PST)
- Re: [AMBER] Fwd: SQM Error (Tue Feb 21 2017 - 23:42:16 PST)
Gustavo Seabra
- Re: [AMBER] custom directory for DFTB parameter files (Thu Feb 09 2017 - 10:37:23 PST)
- Re: [AMBER] Force Field for Ammonia? (Mon Feb 06 2017 - 07:00:24 PST)
- [AMBER] Force Field for Ammonia? (Fri Feb 03 2017 - 08:37:44 PST)
Hai Nguyen
- Re: [AMBER] Sander python API problem (?) (Fri Feb 24 2017 - 06:38:02 PST)
- Re: [AMBER] Sander python API problem (?) (Fri Feb 24 2017 - 06:35:20 PST)
- Re: [AMBER] Sander python API problem (?) (Thu Feb 23 2017 - 09:55:53 PST)
- Re: [AMBER] problems with heating (Wed Feb 22 2017 - 11:29:42 PST)
- Re: [AMBER] Minimisation error and system blowup for a large protein using implicit solvent (Wed Feb 22 2017 - 10:46:41 PST)
- Re: [AMBER] changing chirality with ParmEd? (Tue Feb 21 2017 - 13:39:06 PST)
- Re: [AMBER] AMBER 16 problem with LEaP's addIons command (Tue Feb 21 2017 - 13:23:22 PST)
- Re: [AMBER] minimization issue (**** in rst file) (Mon Feb 20 2017 - 19:33:27 PST)
- Re: [AMBER] LeAP and FFs for Hybrid DNA/RNA structure (Mon Feb 20 2017 - 11:46:02 PST)
- Re: [AMBER] changing chirality with ParmEd? (Mon Feb 20 2017 - 11:42:18 PST)
- Re: [AMBER] Fwd: binding free energy- error calculation (Thu Feb 16 2017 - 19:19:57 PST)
- Re: [AMBER] Installation problem with miniconda (Wed Feb 15 2017 - 10:09:04 PST)
- Re: [AMBER] Installation problem with miniconda (Wed Feb 15 2017 - 05:26:47 PST)
- Re: [AMBER] production error. (Tue Feb 14 2017 - 10:09:42 PST)
- Re: [AMBER] Should ig value be set explicitly? (Mon Feb 13 2017 - 08:40:24 PST)
- Re: [AMBER] Failed to calculate entropy with mm_pbsa.pl in AMBER14, with no error informations reported in nmode_com.1.out (Wed Feb 08 2017 - 20:49:05 PST)
- Re: [AMBER] How to download patches and updates manually (Wed Feb 08 2017 - 08:52:35 PST)
- Re: [AMBER] MTKpp.pdf manual (Thu Feb 02 2017 - 09:13:02 PST)
Hannes Loeffler
- Re: [AMBER] request for input files (Mon Feb 27 2017 - 10:43:51 PST)
- Re: [AMBER] Free energy calculation SHAKE's failure when heating. (Sat Feb 25 2017 - 01:35:04 PST)
- Re: [AMBER] Charge error in Antechamber. (Fri Feb 24 2017 - 09:36:25 PST)
- Re: [AMBER] Free energy calculation SHAKE's failure when heating. (Fri Feb 24 2017 - 08:47:42 PST)
- Re: [AMBER] Free energy calculation SHAKE's failure when heating. (Fri Feb 24 2017 - 08:35:23 PST)
- Re: [AMBER] 12-6-4 potential in TI (Tue Feb 21 2017 - 01:06:03 PST)
- Re: [AMBER] error in the input file (Mon Feb 20 2017 - 05:58:44 PST)
Hofer, Florian
- [AMBER] constant pH caluculations with pmemd.cuda.MPI (Wed Feb 15 2017 - 04:50:44 PST)
Jacopo Sgrignani
- [AMBER] binding energy decomposition (Thu Feb 02 2017 - 12:44:37 PST)
James Kress
- Re: [AMBER] [Amber] Frequencies from normal mode analysis in nab (Sun Feb 19 2017 - 10:07:15 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 19:14:04 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 16:00:19 PST)
Jan Brezovsky
- [AMBER] Two Ph.D. positions in molecular simulations (Wed Feb 01 2017 - 13:35:12 PST)
Jan Ludwiczak
- [AMBER] CPPTRAJ combined clustering with different topologies (Mon Feb 13 2017 - 04:59:02 PST)
Jas Kalayan
- [AMBER] MM energy contributions of atoms in a molecule (Mon Feb 27 2017 - 08:52:51 PST)
Jason Swails
- Re: [AMBER] 回复： Using CHARMM 36 force field in AMBER (Tue Feb 21 2017 - 19:25:52 PST)
- Re: [AMBER] Amber15 Cpinutil.py Bug (Tue Feb 14 2017 - 19:39:20 PST)
- Re: [AMBER] Compilation errors (Sun Feb 12 2017 - 18:37:39 PST)
- Re: [AMBER] MMPBSA failed (Wed Feb 08 2017 - 21:00:28 PST)
- Re: [AMBER] How to download patches and updates manually (Wed Feb 08 2017 - 19:24:10 PST)
- Re: [AMBER] CpHMD – Effect of explicit ions when calculating the pKa of model compounds (Wed Feb 08 2017 - 19:19:24 PST)
- Re: [AMBER] Number of threads in MMGBSA/MMPBSA calculations. (Mon Feb 06 2017 - 17:52:06 PST)
- Re: [AMBER] lj1264 pmemd.cuda (Sun Feb 05 2017 - 21:50:03 PST)
- Re: [AMBER] [MMPBSA.py.MPI] Two questions (autoimage and parsing of output) (Fri Feb 03 2017 - 05:06:23 PST)
- Re: [AMBER] lj1264 pmemd.cuda (Thu Feb 02 2017 - 18:27:23 PST)
Jenner Bonanata
- [AMBER] Problem using nmropt=1 with CUDA - AMBER 14 (Thu Feb 16 2017 - 09:09:16 PST)
Jesmita Dhar
- [AMBER] Distance between of each residues of two chains within trajectory (Mon Feb 20 2017 - 01:22:33 PST)
Jian Yin
- Re: [AMBER] APR - atom selection (Thu Feb 02 2017 - 12:46:22 PST)
Jianping Lin
- Re: [AMBER] pi-pi interaction and hydrophobic (Fri Feb 24 2017 - 14:35:08 PST)
JinpengYang
- [AMBER] This error may be due to faulty Connection atoms when using cationic dummy model (Thu Feb 23 2017 - 03:59:05 PST)
Jiri Sponer
- Re: [AMBER] pi-pi interaction and hydrophobic (Sat Feb 25 2017 - 01:05:39 PST)
- Re: [AMBER] Regarding forcefields for Z-DNA (Sat Feb 04 2017 - 03:13:55 PST)
Joao Damas
- Re: [AMBER] Differences using leaprc.ff14SB from AmberTools15 and oldff/leaprc.ff14SB from AmberTools16 (Wed Feb 01 2017 - 13:27:46 PST)
jojartb.jgypk.u-szeged.hu
- Re: [AMBER] Force Field for Ammonia? (Fri Feb 03 2017 - 22:10:21 PST)
Jorge Iulek
- [AMBER] density and concentration of 8Mureabox (Thu Feb 16 2017 - 08:44:18 PST)
Joseph Salmon
- Re: [AMBER] Minimisation error and system blowup for a large protein using implicit solvent (Thu Feb 23 2017 - 07:08:17 PST)
- Re: [AMBER] Minimisation error and system blowup for a large protein using implicit solvent (Wed Feb 22 2017 - 10:37:16 PST)
- [AMBER] Minimisation error and system blowup for a large protein using implicit solvent (Wed Feb 22 2017 - 06:54:03 PST)
Josh Berryman
- Re: [AMBER] Regarding forcefields for Z-DNA (Wed Feb 01 2017 - 01:38:24 PST)
Karl Kirschner
- Re: [AMBER] QM method used for force constants derivation in GAFF2 ? (Mon Feb 06 2017 - 01:48:03 PST)
Kasprzak, Wojciech (NIH/NCI) [C]
- Re: [AMBER] AMBER 16 problem with LEaP's addIons command (Tue Feb 21 2017 - 14:58:11 PST)
- [AMBER] AMBER 16 problem with LEaP's addIons command (Tue Feb 21 2017 - 13:20:31 PST)
- Re: [AMBER] LeAP and FFs for Hybrid DNA/RNA structure (Mon Feb 20 2017 - 10:36:18 PST)
- [AMBER] LeAP and FFs for Hybrid DNA/RNA structure (Fri Feb 17 2017 - 12:09:39 PST)
Kenneth McGuinness
- Re: [AMBER] pi-pi interaction and hydrophobic (Fri Feb 24 2017 - 14:17:40 PST)
konda003 .
- [AMBER] MMPBSA error (Thu Feb 16 2017 - 12:02:35 PST)
- Re: [AMBER] MMPBSA error (Mon Feb 06 2017 - 12:43:36 PST)
- [AMBER] MMPBSA error (Mon Feb 06 2017 - 09:08:42 PST)
Korey M Reid
- Re: [AMBER] Velocity file output AMBER16 (Tue Feb 14 2017 - 11:39:04 PST)
- [AMBER] Velocity file output AMBER16 (Mon Feb 13 2017 - 13:14:46 PST)
Lachele Foley
- Re: [AMBER] changing chirality with ParmEd? (Tue Feb 21 2017 - 13:26:32 PST)
Lara rajam
- Re: [AMBER] changing water molecules in water box (Thu Feb 02 2017 - 13:07:45 PST)
- [AMBER] changing water molecules in water box (Thu Feb 02 2017 - 07:24:08 PST)
Liyang Zhu
- Re: [AMBER] Methods to count the different species (Tue Feb 28 2017 - 10:59:53 PST)
- Re: [AMBER] EPM2 Force field for CO2 (Thu Feb 09 2017 - 15:42:21 PST)
- Re: [AMBER] EPM2 Force field for CO2 (Thu Feb 09 2017 - 09:54:25 PST)
- Re: [AMBER] EPM2 Force field for CO2 (Mon Feb 06 2017 - 13:28:43 PST)
- [AMBER] EPM2 Force field for CO2 (Sun Feb 05 2017 - 17:34:59 PST)
Manjula Saravanan
- [AMBER] tleap error (Mon Feb 20 2017 - 22:48:03 PST)
Maral Aminpour
- [AMBER] Non standrad residue unknown parameters and atomtypes (Fri Feb 24 2017 - 09:22:37 PST)
Marek Havrila
- Re: [AMBER] parmed add12_6_4 command error (Sat Feb 04 2017 - 14:25:14 PST)
- [AMBER] parmed add12_6_4 command error (Sat Feb 04 2017 - 13:41:19 PST)
Marek Maly
- Re: [AMBER] QM method used for force constants derivation in GAFF2 ? (Thu Feb 09 2017 - 18:20:19 PST)
- Re: [AMBER] Possible BUG in pmemd.cuda - minimization with igb eq 6 (Thu Feb 09 2017 - 09:24:22 PST)
- Re: [AMBER] Possible BUG in pmemd.cuda - minimization with igb eq 6 (Thu Feb 09 2017 - 07:58:12 PST)
- [AMBER] Possible BUG in pmemd.cuda - minimization with igb eq 6 (Thu Feb 09 2017 - 07:09:32 PST)
- Re: [AMBER] QM method used for force constants derivation in GAFF2 ? (Sat Feb 04 2017 - 19:24:56 PST)
Markowska
- [AMBER] When does cpptraj use information from the original pdb file? (Tue Feb 21 2017 - 05:54:17 PST)
Markus Kaukonen
- Re: [AMBER] DFTB3 in Amber is not there, but it may be in gromacs. (Tue Feb 07 2017 - 03:04:17 PST)
Mary Varughese
- Re: [AMBER] binding free energy- error calculation doubt (Wed Feb 22 2017 - 03:00:02 PST)
- [AMBER] binding free energy- error calculation doubt (Tue Feb 21 2017 - 02:08:15 PST)
- [AMBER] Fwd: binding free energy- error calculation (Thu Feb 16 2017 - 19:02:04 PST)
- [AMBER] binding free energy- error calculation (Tue Feb 14 2017 - 21:01:57 PST)
Matteo Uggeri
- Re: [AMBER] Give the correct charge to heme using antechamber (Wed Feb 01 2017 - 06:36:41 PST)
Michael Shokhen
- Re: [AMBER] problem with CpHMD (Tue Feb 21 2017 - 05:31:21 PST)
- Re: [AMBER] problem with CpHMD (Tue Feb 21 2017 - 05:19:07 PST)
- [AMBER] problem with CpHMD (Tue Feb 21 2017 - 04:03:39 PST)
- Re: [AMBER] error in the input file (Mon Feb 20 2017 - 06:38:08 PST)
- Re: [AMBER] error in the input file (Mon Feb 20 2017 - 05:47:09 PST)
- Re: [AMBER] error in the input file (Mon Feb 20 2017 - 05:31:26 PST)
- Re: [AMBER] error in the input file (Mon Feb 20 2017 - 05:11:57 PST)
- [AMBER] error in the input file (Mon Feb 20 2017 - 04:47:03 PST)
- Re: [AMBER] Na cation drifts away from metal chelating protein (Sun Feb 19 2017 - 02:59:11 PST)
- [AMBER] Na cation drifts away from metal chelating protein (Sun Feb 19 2017 - 01:45:13 PST)
Miguel Garavís
- Re: [AMBER] makeDIST_RST issue (Fri Feb 17 2017 - 05:32:48 PST)
- [AMBER] makeDIST_RST issue (Fri Feb 17 2017 - 04:29:00 PST)
Mitul Srivastava
- Re: [AMBER] Antechamber Gaff Am1-bcc charges (Thu Feb 23 2017 - 00:38:43 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:45:30 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:36:12 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:28:48 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:24:37 PST)
- Re: [AMBER] Fwd: SQM Error (Wed Feb 22 2017 - 00:00:22 PST)
- Re: [AMBER] Fwd: SQM Error (Tue Feb 21 2017 - 23:52:04 PST)
- [AMBER] Fwd: SQM Error (Tue Feb 21 2017 - 22:53:01 PST)
Naiem Issa
- Re: [AMBER] ZAFF LEAP Carbonic Anhydrase II Protein Topology & Coordinate Preparation (Fri Feb 10 2017 - 13:04:53 PST)
- [AMBER] ZAFF LEAP Carbonic Anhydrase II Protein Topology & Coordinate Preparation (Fri Feb 10 2017 - 12:43:53 PST)
Neha Gandhi
- [AMBER] periodic boundary conditions (Mon Feb 27 2017 - 17:19:56 PST)
- [AMBER] Antechamber Gaff Am1-bcc charges (Thu Feb 23 2017 - 00:22:07 PST)
Nhai
- Re: [AMBER] Sander python API problem (?) (Thu Feb 23 2017 - 08:10:14 PST)
- Re: [AMBER] Sander python API problem (?) (Thu Feb 23 2017 - 07:36:37 PST)
- Re: [AMBER] Minimisation error and system blowup for a large protein using implicit solvent (Wed Feb 22 2017 - 09:12:13 PST)
- Re: [AMBER] Minimisation error and system blowup for a large protein using implicit solvent (Wed Feb 22 2017 - 08:44:13 PST)
- Re: [AMBER] AMBER 16 problem with LEaP's addIons command (Tue Feb 21 2017 - 15:05:34 PST)
- Re: [AMBER] Amber16 installation error (Wed Feb 01 2017 - 22:47:19 PST)
Nikolay N. Kuzmich
- Re: [AMBER] Segmentation fault when starting parmchk2 for a modified aminoacid residue (Thu Feb 23 2017 - 06:49:01 PST)
- Re: [AMBER] Segmentation fault when starting parmchk2 for a modified aminoacid residue (Wed Feb 22 2017 - 07:20:16 PST)
- [AMBER] Segmentation fault when starting parmchk2 for a modified aminoacid residue (Tue Feb 21 2017 - 06:03:32 PST)
- [AMBER] Cannot open the main chain file after prepgen command (Mon Feb 06 2017 - 04:09:52 PST)
nti.georgetown.edu
- Re: [AMBER] ZAFF LEAP Carbonic Anhydrase II Protein Topology & Coordinate Preparation (Mon Feb 13 2017 - 09:03:49 PST)
Osman, Roman
- Re: [AMBER] changing chirality with ParmEd? (Tue Feb 21 2017 - 13:39:13 PST)
- Re: [AMBER] Simulations with R_OF_GYRATION (Wed Feb 15 2017 - 16:53:12 PST)
- Re: [AMBER] Simulations with R_OF_GYRATION (Wed Feb 15 2017 - 16:53:15 PST)
- Re: [AMBER] Simulations with R_OF_GYRATION (Wed Feb 15 2017 - 11:34:10 PST)
- [AMBER] Simulations with R_OF_GYRATION (Wed Feb 15 2017 - 11:29:30 PST)
paul
- [AMBER] Memory usage of NMR center of mass restreaints on GPUs (Tue Feb 21 2017 - 05:33:15 PST)
Paulo Costa
- [AMBER] pbsa EDISPER with radiopt=0 vs radiopt=1 (Fri Feb 24 2017 - 01:32:23 PST)
- [AMBER] pbsa EDISPER with radiopt=0 vs radiopt=1 (Thu Feb 23 2017 - 06:57:40 PST)
Pengfei Li
- Re: [AMBER] ParmEd problem: LJ12_6_4Error: Could not find parameters for ATOM_TYPE CL (Tue Feb 21 2017 - 13:33:46 PST)
- Re: [AMBER] ZAFF LEAP Carbonic Anhydrase II Protein Topology & Coordinate Preparation (Fri Feb 10 2017 - 14:56:56 PST)
- Re: [AMBER] ZAFF LEAP Carbonic Anhydrase II Protein Topology & Coordinate Preparation (Fri Feb 10 2017 - 12:50:57 PST)
- Re: [AMBER] lj1264 pmemd.cuda (Sat Feb 04 2017 - 14:20:55 PST)
- Re: [AMBER] parmed add12_6_4 command error (Sat Feb 04 2017 - 14:03:21 PST)
- Re: [AMBER] MTKpp.pdf manual (Thu Feb 02 2017 - 09:10:23 PST)
- Re: [AMBER] constrain nitrate as bound and neutral (Wed Feb 01 2017 - 07:48:35 PST)
Qinghua Liao
- [AMBER] scale part of the system with Parmed (Thu Feb 23 2017 - 04:42:11 PST)
- Re: [AMBER] This error may be due to faulty Connection atoms when using cationic dummy model (Thu Feb 23 2017 - 04:11:37 PST)
- Re: [AMBER] 12-6-4 potential in TI (Tue Feb 21 2017 - 02:09:00 PST)
- [AMBER] 12-6-4 potential in TI (Mon Feb 20 2017 - 14:37:24 PST)
- Re: [AMBER] error in the input file (Mon Feb 20 2017 - 05:51:16 PST)
Ravi Abrol
- Re: [AMBER] clustering (Wed Feb 01 2017 - 15:08:37 PST)
Ray Luo
- Re: [AMBER] pbsa EDISPER with radiopt=0 vs radiopt=1 (Fri Feb 24 2017 - 08:35:37 PST)
- Re: [AMBER] MMPBSA error (Mon Feb 06 2017 - 10:31:26 PST)
Robin Jain
- [AMBER] help in parameters (Tue Feb 14 2017 - 22:08:34 PST)
Roitberg,Adrian E
- Re: [AMBER] problem with CpHMD (Tue Feb 21 2017 - 05:23:58 PST)
- Re: [AMBER] problem with CpHMD (Tue Feb 21 2017 - 04:36:47 PST)
Ross Walker
- Re: [AMBER] IERR CPU hang needing support please (Fri Feb 17 2017 - 08:35:57 PST)
- Re: [AMBER] Amber Energy Unit Meaning (Tue Feb 14 2017 - 04:40:45 PST)
- Re: [AMBER] Possible BUG in pmemd.cuda - minimization with igb eq 6 (Thu Feb 09 2017 - 08:43:07 PST)
- Re: [AMBER] Possible BUG in pmemd.cuda - minimization with igb eq 6 (Thu Feb 09 2017 - 07:43:18 PST)
- Re: [AMBER] 8 GPU single pmemd run with amber 16? (Mon Feb 06 2017 - 12:56:13 PST)
- Re: [AMBER] Error in compiling pmemd.cuda (Wed Feb 01 2017 - 20:15:21 PST)
- Re: [AMBER] Error in compiling pmemd.cuda (Wed Feb 01 2017 - 20:14:28 PST)
Saman Yousuf ali
- Re: [AMBER] antechamber warning (Wed Feb 22 2017 - 20:08:12 PST)
- Re: [AMBER] antechamber warning (Wed Feb 22 2017 - 00:11:57 PST)
- [AMBER] antechamber warning (Tue Feb 21 2017 - 22:18:13 PST)
- [AMBER] antechamber warning (Tue Feb 21 2017 - 08:16:31 PST)
- Re: [AMBER] production error. (Tue Feb 14 2017 - 09:42:42 PST)
- Re: [AMBER] production error. (Tue Feb 14 2017 - 07:50:26 PST)
- [AMBER] production error. (Mon Feb 13 2017 - 21:37:46 PST)
sarah colin
- [AMBER] REMD potential energy fluctuation (Fri Feb 24 2017 - 03:18:15 PST)
Scott Brozell
- Re: [AMBER] antechamber warning (Wed Feb 22 2017 - 11:22:58 PST)
- Re: [AMBER] antechamber warning (Tue Feb 21 2017 - 23:11:36 PST)
Scott Le Grand
- Re: [AMBER] 8 GPU single pmemd run with amber 16? (Mon Feb 06 2017 - 12:59:33 PST)
SeungHyun Kim
- [AMBER] Amber16 installation error (Wed Feb 01 2017 - 22:39:28 PST)
Shanghaitech University WuMeng
- [AMBER] 回复： Using CHARMM 36 force field in AMBER (Tue Feb 21 2017 - 17:56:37 PST)
- [AMBER] CHARMM36 force field (Thu Feb 09 2017 - 05:08:38 PST)
Siwei Wang
- [AMBER] How to define a "Dihedral parameters" crossing a C-C triple bond? (Due to two fragment's interaction) (Fri Feb 24 2017 - 18:32:11 PST)
Song-Ho Chong
- [AMBER] building premed for Intel Xeon Phi coprocessors (offload mode) (Tue Feb 14 2017 - 23:04:21 PST)
Sowmya Indrakumar
- Re: [AMBER] cannot add bond (Thu Feb 02 2017 - 00:49:20 PST)
- Re: [AMBER] clustering (Thu Feb 02 2017 - 00:46:57 PST)
- Re: [AMBER] clustering (Wed Feb 01 2017 - 03:41:39 PST)
Statics Eng
- Re: [AMBER] Amber force filed parameter (Thu Feb 23 2017 - 04:29:29 PST)
- [AMBER] Amber force filed parameter (Wed Feb 22 2017 - 14:30:14 PST)
Stregone
- [AMBER] LES, Umbrella sampling and/or NEB (Thu Feb 16 2017 - 03:50:59 PST)
Subashini .K
- [AMBER] DIMENSION OF BOX (Thu Feb 23 2017 - 04:58:15 PST)
- [AMBER] ADDING WATER MOLECULES (Sat Feb 04 2017 - 02:54:49 PST)
Sudhakar Lakkaraju
- Re: [AMBER] Amber16 -mpt-2.15-gcc/6.1.0-RHEL7.3- compilation error (Thu Feb 16 2017 - 09:23:50 PST)
- [AMBER] Compilation errors (Sun Feb 12 2017 - 18:06:07 PST)
- Re: [AMBER] Amber16 -mpt-2.15-gcc/6.1.0-RHEL7.3- compilation error (Thu Feb 09 2017 - 09:43:43 PST)
- Re: [AMBER] Amber16 -mpt-2.15-gcc/6.1.0-RHEL7.3- compilation error (Wed Feb 08 2017 - 09:56:14 PST)
- [AMBER] Amber16 -mpt-2.15-gcc/6.1.0-RHEL7.3- compilation error (Wed Feb 08 2017 - 07:07:58 PST)
Thakur, Abhishek
- [AMBER] pi-pi interaction and hydrophobic (Fri Feb 24 2017 - 12:59:02 PST)
- [AMBER] STRIP (Fri Feb 24 2017 - 11:36:55 PST)
- [AMBER] Fw: Hydrophobic and pi-pi interaction (Thu Feb 16 2017 - 05:08:58 PST)
- [AMBER] Hydrophobic and pi-pi interaction (Wed Feb 15 2017 - 07:40:14 PST)
- [AMBER] H_bond (Sun Feb 12 2017 - 08:22:13 PST)
- [AMBER] PCA (Thu Feb 09 2017 - 14:20:48 PST)
- Re: [AMBER] PCA analysis (Thu Feb 09 2017 - 07:30:02 PST)
- [AMBER] PCA analysis (Thu Feb 09 2017 - 06:58:24 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Fri Feb 03 2017 - 06:49:10 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 16:45:00 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 14:23:57 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 14:22:23 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 13:56:50 PST)
- Re: [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 09:46:30 PST)
- [AMBER] Tleap is making C instaed of Cl (Thu Feb 02 2017 - 09:09:45 PST)
- [AMBER] cannot add bond (Wed Feb 01 2017 - 14:26:09 PST)
The Cromicus Productions
- [AMBER] [Amber] Frequencies from normal mode analysis in nab (Tue Feb 14 2017 - 00:03:38 PST)
- [AMBER] Obtain dynamical matrix away from equilibrium (Thu Feb 09 2017 - 10:00:37 PST)
Thomas Fox
- [AMBER] cpptraj: dihcovar and projection need trajin to work properly? - FollowUp (Tue Feb 28 2017 - 07:42:48 PST)
- [AMBER] cpptraj: dihcovar and projection need trajin to work properly? (Tue Feb 28 2017 - 07:33:54 PST)
Thomas Pochapsky
- [AMBER] changing chirality with ParmEd? (Mon Feb 20 2017 - 07:14:48 PST)
Tiffani Rovira
- Re: [AMBER] AMBER Digest, Vol 1852, Issue 1 (Tue Feb 21 2017 - 02:41:48 PST)
- [AMBER] Problem with mmpbsa (Mon Feb 20 2017 - 04:11:04 PST)
Tsibela German Tebello Mofokeng
- Re: [AMBER] Explicity solvent CpHD, -cprestrt .cpin file (Fri Feb 10 2017 - 07:33:12 PST)
- [AMBER] Explicity solvent CpHD, -cprestrt .cpin file (Fri Feb 10 2017 - 06:40:18 PST)
Vaibhav Dixit
- Re: [AMBER] Creating a double bond in a pdb file with xleap (Thu Feb 16 2017 - 22:40:03 PST)
Vatsal Purohit
- Re: [AMBER] Cannot convert rst to pdb file after md simulation. (Mon Feb 27 2017 - 10:54:52 PST)
- Re: [AMBER] Cannot convert rst to pdb file after md simulation. (Mon Feb 27 2017 - 09:52:04 PST)
- [AMBER] Cannot convert rst to pdb file after md simulation. (Mon Feb 27 2017 - 09:29:13 PST)
- Re: [AMBER] Charge error in Antechamber. (Fri Feb 24 2017 - 09:28:16 PST)
- [AMBER] Charge error in Antechamber. (Fri Feb 24 2017 - 08:50:57 PST)
Vlad Cojocaru
- Re: [AMBER] MMPBSA failed (Wed Feb 01 2017 - 06:35:00 PST)
- Re: [AMBER] MMPBSA failed (Wed Feb 01 2017 - 04:37:32 PST)
- Re: [AMBER] MMPBSA failed (Wed Feb 01 2017 - 03:21:27 PST)
Wang, Yin
- Re: [AMBER] pmemd.cuda.MPI not running well with SGE (Tue Feb 14 2017 - 08:12:15 PST)
wei
- [AMBER] RE：RE: Failed to calculate entropy with mm_pbsa.pl in AMBER14, with no error informations reported in nmode_com.1.out (Thu Feb 09 2017 - 15:48:42 PST)
- [AMBER] Failed to calculate entropy with mm_pbsa.pl in AMBER14, with no error informations reported in nmode_com.1.out (Wed Feb 08 2017 - 20:36:47 PST)
zeba firdows
- Re: [AMBER] protocol for simulating a system in NaCl using xleaP module (Fri Feb 03 2017 - 03:33:42 PST)
- Re: [AMBER] protocol for simulating a system in NaCl using xleaP module (Fri Feb 03 2017 - 03:25:58 PST)
- [AMBER] protocol for simulating a system in NaCl using xleaP module (Thu Feb 02 2017 - 23:27:08 PST)
吴萌
- [AMBER] problem about pressure setting (Mon Feb 27 2017 - 19:40:24 PST)
杨金鹏
- [AMBER] ParmEd problem: LJ12_6_4Error: Could not find parameters for ATOM_TYPE CL (Tue Feb 21 2017 - 05:42:20 PST)

Amber Archive Feb 2017 by author