Amber Archive Oct 2019: by subject

[AMBER] "Could not import Amber Python modules!" error
- sunyeping (Fri Oct 11 2019 - 03:55:21 PDT)
- David A Case (Wed Oct 09 2019 - 08:30:19 PDT)
- Mijiddorj B (Wed Oct 09 2019 - 07:54:22 PDT)
- sunyeping (Wed Oct 09 2019 - 07:43:49 PDT)
- Anthony Cruz-Balberdy (Wed Oct 09 2019 - 06:47:11 PDT)
- Hai Nguyen (Wed Oct 09 2019 - 05:59:38 PDT)
- sunyeping (Wed Oct 09 2019 - 05:28:52 PDT)
[AMBER] (long) OSX/catalina Ambertools19 building success with brew
- David A Case (Fri Oct 18 2019 - 08:13:07 PDT)
- Gustaf Olsson (Thu Oct 17 2019 - 12:02:02 PDT)
- Tru Huynh (Thu Oct 17 2019 - 08:36:36 PDT)
- Gustaf Olsson (Wed Oct 16 2019 - 13:46:00 PDT)
- Hai Nguyen (Tue Oct 15 2019 - 08:08:11 PDT)
- Tru Huynh (Tue Oct 15 2019 - 03:05:31 PDT)
[AMBER] ABMD COM_DISTANCE Help
- Feng Pan (Thu Oct 03 2019 - 10:26:37 PDT)
- Kyle Ghaby (Thu Oct 03 2019 - 09:17:04 PDT)
- Feng Pan (Thu Oct 03 2019 - 08:57:51 PDT)
- Kyle Ghaby (Wed Oct 02 2019 - 08:41:12 PDT)
- Feng Pan (Wed Oct 02 2019 - 08:17:04 PDT)
- Kyle Ghaby (Tue Oct 01 2019 - 14:16:37 PDT)
[AMBER] About STOP PMEMD Terminated Abnormally!
- David Case (Sat Oct 05 2019 - 05:58:36 PDT)
- HOCHEOL LIM (Sat Oct 05 2019 - 02:33:19 PDT)
[AMBER] About the unit of the pressure in the md.out file?
- 邸春艳 (Mon Oct 28 2019 - 00:35:14 PDT)
[AMBER] Adding OH- to a water box
- Lucas Bandeira (Fri Oct 18 2019 - 10:53:06 PDT)
- Matias Machado (Thu Oct 17 2019 - 06:20:19 PDT)
- Lucas Bandeira (Sun Oct 13 2019 - 10:50:48 PDT)
- David Case (Sun Oct 13 2019 - 05:16:49 PDT)
[AMBER] Adding OH⁻ in a water box
- Lucas Bandeira (Sat Oct 12 2019 - 14:05:44 PDT)
- David Case (Fri Oct 11 2019 - 18:45:12 PDT)
- Matias Machado (Fri Oct 11 2019 - 13:37:18 PDT)
- Lucas Bandeira (Fri Oct 11 2019 - 10:11:33 PDT)
[AMBER] Amber Installation Problem on Mac
- David A Case (Fri Oct 04 2019 - 07:10:13 PDT)
- Gustaf Olsson (Thu Oct 03 2019 - 23:06:43 PDT)
- Ray Luo (Thu Oct 03 2019 - 16:50:23 PDT)
- Fanglue Ni (Thu Oct 03 2019 - 16:35:23 PDT)
[AMBER] Amber Installation Problem on Mac: me too
- Mooers, Blaine H.M. (HSC) (Fri Oct 04 2019 - 15:29:15 PDT)
[AMBER] Amber Installation Problem on Mac: update
- David A Case (Fri Oct 04 2019 - 09:17:08 PDT)
[AMBER] Amber18 installation
- Sunita Patel (Mon Sep 30 2019 - 22:14:43 PDT)
[AMBER] amber99sb-disp forcefield in Amber
- Supriyo Bhattacharya (Tue Oct 08 2019 - 12:02:51 PDT)
- Carlos Simmerling (Tue Oct 08 2019 - 11:40:36 PDT)
- Prithvi Raj Pandey (Tue Oct 08 2019 - 10:25:46 PDT)
[AMBER] Any ideas what may be wrong
- Debarati DasGupta (Thu Oct 31 2019 - 05:58:19 PDT)
[AMBER] Assigning am1-bcc charges to a whole library of ligands
- Liao (Sun Oct 27 2019 - 22:55:21 PDT)
- David Case (Sun Oct 27 2019 - 19:12:13 PDT)
- Elvis Martis (Sat Oct 26 2019 - 06:39:23 PDT)
- Liao (Sat Oct 26 2019 - 06:31:56 PDT)
[AMBER] atomicfluct/rmsf time
- Daniel Roe (Wed Oct 30 2019 - 07:18:25 PDT)
- Shayna Hilburg (Sat Oct 26 2019 - 16:18:39 PDT)
- David Case (Sat Oct 26 2019 - 05:11:16 PDT)
- Shayna Hilburg (Fri Oct 25 2019 - 13:40:45 PDT)
[AMBER] Calculate MMGBSA keeping water in binding site
- Carlos Simmerling (Mon Oct 21 2019 - 05:48:24 PDT)
- Rosellen, Martin (Mon Oct 21 2019 - 04:39:17 PDT)
- Carlos Simmerling (Thu Oct 10 2019 - 11:06:05 PDT)
- Rosellen, Martin (Sat Oct 05 2019 - 06:40:18 PDT)
- Carlos Simmerling (Fri Oct 04 2019 - 06:35:40 PDT)
- Rosellen, Martin (Fri Oct 04 2019 - 06:27:27 PDT)
[AMBER] Calculation of stacking energy of a RNA containing UUCG tetra loop
- Jiri Sponer (Fri Oct 04 2019 - 00:55:12 PDT)
- Bill Ross (Thu Oct 03 2019 - 23:37:51 PDT)
- Swagata Halder (Thu Oct 03 2019 - 23:20:45 PDT)
- Bill Ross (Thu Oct 03 2019 - 02:09:12 PDT)
- Swagata Halder (Thu Oct 03 2019 - 00:58:58 PDT)
[AMBER] Cataline
- David Case (Wed Oct 16 2019 - 19:19:16 PDT)
- Gustaf Olsson (Wed Oct 16 2019 - 13:43:41 PDT)
- Hai Nguyen (Wed Oct 16 2019 - 13:00:47 PDT)
- Gustaf Olsson (Wed Oct 16 2019 - 12:48:34 PDT)
- Gustaf Olsson (Mon Oct 14 2019 - 13:34:00 PDT)
- David A Case (Mon Oct 14 2019 - 05:52:25 PDT)
- Bill Ross (Mon Oct 14 2019 - 00:34:38 PDT)
- Gustaf Olsson (Sun Oct 13 2019 - 23:48:31 PDT)
- Bill Ross (Sun Oct 13 2019 - 14:52:55 PDT)
- Gustaf Olsson (Sun Oct 13 2019 - 13:01:37 PDT)
[AMBER] CHARMM-GUI now supports Amber
- Paul Westphälinger (Fri Oct 04 2019 - 04:47:48 PDT)
[AMBER] Check for updates failed
- Gustaf Olsson (Thu Oct 17 2019 - 06:25:22 PDT)
- David A Case (Thu Oct 17 2019 - 06:02:23 PDT)
- Gustaf Olsson (Wed Oct 16 2019 - 23:00:32 PDT)
- David Case (Wed Oct 16 2019 - 19:31:03 PDT)
- Gustaf Olsson (Wed Oct 16 2019 - 13:21:15 PDT)
[AMBER] clustering using distance matrix file only
- Tim Davis (Tue Oct 22 2019 - 14:09:54 PDT)
- Daniel Roe (Tue Oct 22 2019 - 05:55:23 PDT)
- Matias Machado (Mon Oct 21 2019 - 20:12:09 PDT)
- Tim Davis (Sat Oct 19 2019 - 15:26:51 PDT)
[AMBER] Combining FF14Sb and ForceField_PTM (FF03)... What could possibly go wrong?
- Gustavo Seabra (Wed Oct 23 2019 - 17:28:59 PDT)
- Carlos Simmerling (Wed Oct 23 2019 - 15:28:22 PDT)
- Gustavo Seabra (Wed Oct 23 2019 - 12:21:55 PDT)
[AMBER] compiling Amber with gcc 9.2 and intel mpi 2019
- Daniel Roe (Wed Oct 30 2019 - 07:03:59 PDT)
- David A Case (Mon Oct 28 2019 - 11:48:46 PDT)
- Vlad Cojocaru (Mon Oct 28 2019 - 07:57:51 PDT)
[AMBER] compiling with -noX11 option
- Swantje Mohr (Tue Oct 22 2019 - 11:22:16 PDT)
[AMBER] constraining ligands to some distance from a target molecule on pmemd.cuda
- Carlos Simmerling (Tue Oct 22 2019 - 14:01:53 PDT)
- Homeo Morphism (Tue Oct 22 2019 - 13:11:36 PDT)
[AMBER] Convergence value for GMAX
- David A Case (Thu Oct 17 2019 - 10:36:04 PDT)
- Anuja Ware (Thu Oct 17 2019 - 06:48:53 PDT)
[AMBER] could not find vdW (or other) parameters for type for virtually every amino acid atom
- Dawid das (Wed Oct 09 2019 - 02:05:55 PDT)
- Bill Ross (Wed Oct 09 2019 - 02:03:51 PDT)
- Dawid das (Wed Oct 09 2019 - 01:54:52 PDT)
- Carlos Simmerling (Tue Oct 08 2019 - 12:01:05 PDT)
- Dawid das (Tue Oct 08 2019 - 11:58:29 PDT)
- Carlos Simmerling (Tue Oct 08 2019 - 11:46:37 PDT)
- Dawid das (Tue Oct 08 2019 - 11:00:25 PDT)
- Carlos Simmerling (Tue Oct 08 2019 - 10:33:18 PDT)
- Dawid das (Tue Oct 08 2019 - 09:03:59 PDT)
[AMBER] CPPTRAJ parameter file error
- Rui Chen (Thu Oct 10 2019 - 15:49:43 PDT)
- Daniel Roe (Thu Oct 10 2019 - 07:16:33 PDT)
- Rui Chen (Wed Oct 09 2019 - 15:41:30 PDT)
- Rui Chen (Mon Oct 07 2019 - 21:27:20 PDT)
- Daniel Roe (Mon Oct 07 2019 - 07:47:13 PDT)
- Rui Chen (Fri Oct 04 2019 - 10:31:35 PDT)
- Daniel Roe (Thu Oct 03 2019 - 05:42:13 PDT)
- Rui Chen (Wed Oct 02 2019 - 15:18:04 PDT)
- Rui Chen (Wed Oct 02 2019 - 07:41:54 PDT)
- Daniel Roe (Wed Oct 02 2019 - 06:31:48 PDT)
- Rui Chen (Tue Oct 01 2019 - 15:36:19 PDT)
[AMBER] cpptraj.MPI error
- Daniel Roe (Mon Oct 07 2019 - 12:42:46 PDT)
- Debarati DasGupta (Mon Oct 07 2019 - 12:33:50 PDT)
[AMBER] DNA methylation parameters
- Zhendong Li (Tue Oct 01 2019 - 07:50:20 PDT)
[AMBER] Error adding OH⁻ ions in a simulation box
- Lucas Bandeira (Tue Oct 22 2019 - 14:09:50 PDT)
- David A Case (Tue Oct 22 2019 - 05:42:47 PDT)
- Matias Machado (Mon Oct 21 2019 - 20:05:17 PDT)
- Lucas Bandeira (Mon Oct 21 2019 - 13:44:54 PDT)
[AMBER] Error during the test of amber 18 installation
- Sunita Patel (Thu Oct 10 2019 - 22:43:42 PDT)
- Daniel Roe (Thu Oct 10 2019 - 09:06:57 PDT)
- Sunita Patel (Wed Oct 09 2019 - 04:33:53 PDT)
- David A Case (Mon Oct 07 2019 - 05:26:29 PDT)
- David A Case (Mon Oct 07 2019 - 05:25:35 PDT)
- Sunita Patel (Mon Oct 07 2019 - 04:30:33 PDT)
- Sunita Patel (Fri Oct 04 2019 - 00:10:00 PDT)
- Daniel Roe (Thu Oct 03 2019 - 10:49:53 PDT)
- David Case (Wed Oct 02 2019 - 12:02:34 PDT)
- Sunita Patel (Wed Oct 02 2019 - 07:18:35 PDT)
[AMBER] Error in Step two of MCPB
- Akinpelu Olayinka (Wed Oct 30 2019 - 06:23:22 PDT)
- Sodiq Waheed (Wed Oct 30 2019 - 05:15:04 PDT)
[AMBER] Error using MCPB.py
- Pengfei Li (Mon Oct 07 2019 - 07:16:26 PDT)
- Hafiz Saqib Ali (Mon Oct 07 2019 - 03:58:32 PDT)
[AMBER] error while running pmemd.cuda after reinstallation of amber 16
- Schröder, David Christopher (Wed Oct 23 2019 - 09:16:42 PDT)
- David A Case (Tue Oct 22 2019 - 05:16:30 PDT)
- Schröder, David Christopher (Tue Oct 22 2019 - 01:36:16 PDT)
[AMBER] ERROR: NaNs found in input coordinates.
- Daniel Roe (Thu Oct 03 2019 - 05:37:58 PDT)
- HOCHEOL LIM (Wed Oct 02 2019 - 17:13:05 PDT)
[AMBER] Extract the last 90ns trajectory
- Daniel Roe (Wed Oct 23 2019 - 10:12:50 PDT)
- Carlos Simmerling (Wed Oct 23 2019 - 03:10:59 PDT)
- Airy Sanjeev (Wed Oct 23 2019 - 02:29:14 PDT)
[AMBER] ff19SB update
- David A Case (Fri Oct 18 2019 - 06:49:50 PDT)
- Åsmund Røhr Kjendseth (Thu Oct 17 2019 - 23:47:44 PDT)
- David A Case (Wed Oct 16 2019 - 07:51:14 PDT)
- Chuan Tian (Wed Oct 16 2019 - 07:04:06 PDT)
- Åsmund Røhr Kjendseth (Wed Oct 16 2019 - 06:10:05 PDT)
[AMBER] Force extension curve from ASMD
- Aravind R (Mon Oct 07 2019 - 00:27:12 PDT)
[AMBER] free energy calculation and leap error
- David A Case (Tue Oct 22 2019 - 11:20:23 PDT)
- Sadaf Rani (Tue Oct 22 2019 - 09:03:04 PDT)
[AMBER] Gaff v2.1 Force Field for n4
- Junmei Wang (Wed Oct 09 2019 - 10:51:22 PDT)
- chaumont (Tue Oct 08 2019 - 05:29:45 PDT)
[AMBER] Generating the parameters of a peptide sequence consisting of non-standard amino-acid
- RITUPARNA ROY (Thu Oct 10 2019 - 08:37:12 PDT)
[AMBER] Gtx 16-series
- Gerardo Zerbetto De Palma (Thu Oct 03 2019 - 07:33:28 PDT)
- Charles-Alexandre Mattelaer (Wed Oct 02 2019 - 09:40:51 PDT)
[AMBER] H - bond tools
- shivangi agarwal (Sat Oct 12 2019 - 22:08:11 PDT)
- Daniel Roe (Thu Oct 10 2019 - 08:00:03 PDT)
- shivangi agarwal (Mon Oct 07 2019 - 23:31:05 PDT)
- Elvis Martis (Mon Oct 07 2019 - 23:22:51 PDT)
- shivangi agarwal (Mon Oct 07 2019 - 23:10:05 PDT)
[AMBER] How can I use modified GAFF?
- Bill Ross (Mon Oct 07 2019 - 01:00:51 PDT)
- Bill Ross (Mon Oct 07 2019 - 00:59:25 PDT)
- 조준범 (Mon Oct 07 2019 - 00:40:13 PDT)
[AMBER] How to check the convergence of NEB calculation?
- Yang JIANG (Fri Oct 25 2019 - 15:19:09 PDT)
[AMBER] How to incorporate new lipid molecules through packmol-memgen
- Chetna Tyagi (Tue Oct 01 2019 - 02:54:35 PDT)
[AMBER] How to obtain the pressure in NVT ensemble
- David A Case (Tue Oct 22 2019 - 05:03:32 PDT)
- Bill Ross (Tue Oct 22 2019 - 00:44:00 PDT)
- jinfeng liu (Mon Oct 21 2019 - 23:37:09 PDT)
[AMBER] hydroxyapatite force field parameters
- Tal Duanias (Mon Oct 07 2019 - 10:09:23 PDT)
- Pengfei Li (Mon Oct 07 2019 - 07:13:38 PDT)
- Tal Duanias (Mon Oct 07 2019 - 00:20:47 PDT)
[AMBER] I add Ions to the system and they don't show up!!!
- Parviz Seifpanahi Shabane (Fri Oct 04 2019 - 09:25:34 PDT)
- Bill Ross (Wed Oct 02 2019 - 17:08:58 PDT)
- Parviz Seifpanahi Shabane (Wed Oct 02 2019 - 06:59:22 PDT)
- David Case (Tue Oct 01 2019 - 18:07:05 PDT)
- Daniel Roe (Tue Oct 01 2019 - 10:01:36 PDT)
- Parviz Seifpanahi Shabane (Tue Oct 01 2019 - 08:34:22 PDT)
[AMBER] if the ligand doesn't bind when it should, what does it say about quality of my simulations and what can I do?
- Wesley Michael Botello-Smith (Tue Oct 29 2019 - 14:37:07 PDT)
- Carlos Simmerling (Tue Oct 29 2019 - 10:33:46 PDT)
- Homeo Morphism (Tue Oct 29 2019 - 07:10:49 PDT)
[AMBER] Imaging issue
- David A Case (Tue Oct 08 2019 - 04:49:53 PDT)
- Hira Jabeen (Tue Oct 08 2019 - 03:58:06 PDT)
[AMBER] Incorrect instructions in tutorial B1
- Cavender, Chapin (Wed Oct 16 2019 - 16:23:27 PDT)
[AMBER] Installaiton of pmemd for Amber16
- Ryoichi Utsumi (Mon Sep 30 2019 - 19:31:35 PDT)
[AMBER] Is it necessary to set "baroscalingdir" in the membrane system?
- xmgign.126.com (Fri Oct 11 2019 - 01:29:06 PDT)
[AMBER] Is there any standard set of parameters to build the topology Iron Sulfur clusters?
- David Sáez (Tue Oct 01 2019 - 06:37:24 PDT)
[AMBER] iwrap
- David A Case (Tue Oct 22 2019 - 05:34:24 PDT)
- Andrea H. Kasun (Tue Oct 22 2019 - 03:55:21 PDT)
- Carlos Simmerling (Tue Oct 22 2019 - 03:21:48 PDT)
- Andrea H. Kasun (Tue Oct 22 2019 - 03:11:50 PDT)
[AMBER] Lennard-Jones parameters in amber and gromacs
- Carlos Simmerling (Thu Oct 24 2019 - 09:55:02 PDT)
- Hadi Rahmaninejad (Thu Oct 24 2019 - 08:58:09 PDT)
[AMBER] make install errors
- Hai Nguyen (Tue Oct 29 2019 - 19:15:06 PDT)
- David Case (Tue Oct 29 2019 - 18:59:16 PDT)
- Alen Ahmetovic (Tue Oct 29 2019 - 16:49:24 PDT)
- Alen Ahmetovic (Wed Oct 16 2019 - 15:44:52 PDT)
- Alen Ahmetovic (Wed Oct 16 2019 - 15:34:49 PDT)
- Hai Nguyen (Mon Oct 14 2019 - 20:27:24 PDT)
- Alen Ahmetovic (Mon Oct 14 2019 - 19:28:33 PDT)
[AMBER] MD simulation system
- Sudad Dayl (Sat Oct 26 2019 - 07:26:36 PDT)
[AMBER] minimization using restrain weight
- David A Case (Wed Oct 16 2019 - 07:56:53 PDT)
- Debarati DasGupta (Wed Oct 16 2019 - 06:54:50 PDT)
[AMBER] minimize protein with a small molecule tethered at a fixed location
- Bill Ross (Wed Oct 16 2019 - 06:47:21 PDT)
- Debarati DasGupta (Wed Oct 16 2019 - 06:40:42 PDT)
- Bill Ross (Wed Oct 16 2019 - 06:34:58 PDT)
- Debarati DasGupta (Wed Oct 16 2019 - 06:32:02 PDT)
- David A Case (Wed Oct 16 2019 - 05:22:46 PDT)
- Debarati DasGupta (Tue Oct 15 2019 - 16:34:01 PDT)
[AMBER] mmpbsa
- MYRIAN TORRES RICO (Thu Oct 10 2019 - 01:16:59 PDT)
- MYRIAN TORRES RICO (Mon Oct 07 2019 - 08:27:12 PDT)
[AMBER] MMPBSA.py resulted in DELTA TOTAL= 1414 kcal/mole
- Seketoulie Keretsu (Sun Oct 13 2019 - 16:55:20 PDT)
[AMBER] More ... problems in compilation: fftw3a | Case1 - Using GNU
- Margarita I. Bernal-Uruchurtu (Mon Oct 14 2019 - 10:12:03 PDT)
[AMBER] More ... problems in compilation: fftw3a | Case2 - Using intel
- David A Case (Tue Oct 15 2019 - 05:05:12 PDT)
- Margarita I. Bernal-Uruchurtu (Mon Oct 14 2019 - 10:42:36 PDT)
[AMBER] more efficient TI rerun over existing trajectory
- David A Case (Tue Oct 29 2019 - 05:42:47 PDT)
- 杨明俊 (Mon Oct 28 2019 - 06:12:56 PDT)
- Carlos Simmerling (Thu Oct 17 2019 - 10:44:04 PDT)
- Charles Lin (Thu Oct 17 2019 - 07:37:35 PDT)
- 杨明俊 (Thu Oct 17 2019 - 06:35:27 PDT)
- Carlos Simmerling (Thu Oct 17 2019 - 03:54:45 PDT)
- 杨明俊 (Wed Oct 16 2019 - 20:25:04 PDT)
[AMBER] Multiple simulations on one GPU
- Aiden Aceves (Wed Oct 30 2019 - 07:27:54 PDT)
- David Cerutti (Tue Oct 29 2019 - 10:46:10 PDT)
- Piotr Fajer (Tue Oct 29 2019 - 09:59:54 PDT)
- Aiden Aceves (Tue Oct 29 2019 - 08:55:12 PDT)
[AMBER] NAN error
- Hira Jabeen (Thu Oct 24 2019 - 03:56:06 PDT)
- David A Case (Wed Oct 23 2019 - 05:01:17 PDT)
- Bill Ross (Mon Oct 21 2019 - 14:22:50 PDT)
- Hira Jabeen (Mon Oct 21 2019 - 09:41:44 PDT)
- Bill Ross (Mon Oct 21 2019 - 08:01:50 PDT)
- Hira Jabeen (Mon Oct 21 2019 - 07:14:14 PDT)
- Bill Ross (Mon Oct 21 2019 - 06:45:48 PDT)
- Hira Jabeen (Mon Oct 21 2019 - 06:33:56 PDT)
- Bill Ross (Mon Oct 21 2019 - 06:17:54 PDT)
- Hira Jabeen (Mon Oct 21 2019 - 06:13:32 PDT)
[AMBER] netcdf: issue with timestamp
- Daniel Roe (Tue Oct 01 2019 - 09:59:41 PDT)
- Sarath Dantu (Staff) (Tue Oct 01 2019 - 06:26:27 PDT)
[AMBER] PARMFIT and CHARMM
- David Ricardo Figueroa Blanco (Thu Oct 24 2019 - 12:55:47 PDT)
[AMBER] Paste command for xleap
- Gert Kruger (Thu Oct 17 2019 - 23:45:01 PDT)
- Bill Ross (Tue Oct 15 2019 - 06:17:09 PDT)
- Gert Kruger (Tue Oct 15 2019 - 04:13:28 PDT)
[AMBER] PDB CONECT issues with OpenBabel 3.0 and antechamber
- Hai Nguyen (Fri Oct 11 2019 - 07:32:31 PDT)
- Suruzhon M. (Fri Oct 11 2019 - 07:31:11 PDT)
- David A Case (Fri Oct 11 2019 - 07:24:45 PDT)
- Elvis Martis (Thu Oct 10 2019 - 08:53:44 PDT)
- Miroslav Suruzhon (Thu Oct 10 2019 - 08:41:57 PDT)
[AMBER] Post-doc position in molecular simulations and structural bioinformatics
- Jan Brezovsky (Mon Oct 21 2019 - 02:35:18 PDT)
[AMBER] Prmtop file creation for thermodynamic integration
- Debarati DasGupta (Tue Oct 22 2019 - 13:51:12 PDT)
- Sadaf Rani (Tue Oct 22 2019 - 11:07:42 PDT)
- Debarati DasGupta (Tue Oct 22 2019 - 10:50:56 PDT)
[AMBER] Problem in extracting pdb file from mdcrd file
- Daniel Roe (Wed Oct 16 2019 - 07:48:28 PDT)
- Elvis Martis (Mon Oct 14 2019 - 01:21:43 PDT)
- Airy Sanjeev (Mon Oct 14 2019 - 01:07:15 PDT)
[AMBER] Problem in Leap PDB Reading
- David A Case (Fri Oct 25 2019 - 09:09:18 PDT)
- Bill Ross (Wed Oct 23 2019 - 21:53:37 PDT)
- Robert Molt (Wed Oct 23 2019 - 19:13:41 PDT)
[AMBER] Problem in MMPBSA analysis
- 崔佳文 (Tue Oct 08 2019 - 19:39:30 PDT)
[AMBER] Problem in running MMPBSA
- David A Case (Wed Oct 16 2019 - 05:27:13 PDT)
- Airy Sanjeev (Wed Oct 16 2019 - 02:47:10 PDT)
- Bill Ross (Wed Oct 16 2019 - 02:34:47 PDT)
- Airy Sanjeev (Wed Oct 16 2019 - 02:23:43 PDT)
[AMBER] Problem in the x-axis of SASA analysis
- Daniel Roe (Wed Oct 30 2019 - 06:56:06 PDT)
- David A Case (Tue Oct 29 2019 - 05:32:45 PDT)
- Airy Sanjeev (Mon Oct 28 2019 - 22:47:03 PDT)
[AMBER] Problem with installation of AMBER
- Bill Ross (Mon Oct 21 2019 - 05:38:15 PDT)
- David A Case (Mon Oct 21 2019 - 05:30:20 PDT)
- 조준범 (Mon Oct 21 2019 - 02:56:02 PDT)
- David Case (Sat Oct 19 2019 - 09:46:51 PDT)
- 조준범 (Sat Oct 19 2019 - 08:02:01 PDT)
[AMBER] Problems in compilation: fftw3.a ??
- David Case (Sat Oct 12 2019 - 05:22:38 PDT)
- David Cerutti (Fri Oct 11 2019 - 13:12:49 PDT)
- Margarita I. Bernal-Uruchurtu (Fri Oct 11 2019 - 13:05:19 PDT)
[AMBER] PTRAJ (clustering)-Segmentation fault
- Thomas Cheatham (Tue Oct 15 2019 - 13:11:10 PDT)
- Rui Chen (Tue Oct 15 2019 - 08:35:56 PDT)
[AMBER] Query regarding DNA
- Matias Machado (Fri Oct 11 2019 - 14:10:47 PDT)
- David A Case (Fri Oct 11 2019 - 10:31:52 PDT)
- Saikat Pal (Fri Oct 11 2019 - 08:21:20 PDT)
[AMBER] Question about ff14SB and parameter files
- Carlos Simmerling (Mon Oct 07 2019 - 18:09:20 PDT)
- Nate Guerin (Mon Oct 07 2019 - 17:45:40 PDT)
[AMBER] regarding amber licensed version and free version.
- Carlos Simmerling (Tue Oct 01 2019 - 09:09:55 PDT)
- Seketoulie Keretsu (Tue Oct 01 2019 - 09:06:48 PDT)
[AMBER] Regarding GIST analysis
- Steven Ramsey (Tue Oct 22 2019 - 08:23:47 PDT)
- MR. RABINDRANATH PAUL (Tue Oct 22 2019 - 00:11:44 PDT)
[AMBER] REMD Error
- Rinsha Chk (Tue Oct 29 2019 - 20:21:23 PDT)
- Carlos Simmerling (Tue Oct 29 2019 - 10:35:08 PDT)
- Rinsha Chk (Mon Oct 28 2019 - 20:57:23 PDT)
- Carlos Simmerling (Mon Oct 28 2019 - 07:23:07 PDT)
- Rinsha Chk (Sun Oct 27 2019 - 20:42:57 PDT)
- Rinsha Chk (Sun Oct 27 2019 - 20:42:42 PDT)
- Carlos Simmerling (Sat Oct 26 2019 - 04:33:43 PDT)
- Rinsha Chk (Sat Oct 26 2019 - 04:10:44 PDT)
- Carlos Simmerling (Sat Oct 26 2019 - 03:26:35 PDT)
- Rinsha Chk (Fri Oct 25 2019 - 20:34:01 PDT)
- Carlos Simmerling (Fri Oct 25 2019 - 12:33:46 PDT)
- Rinsha Chk (Thu Oct 24 2019 - 22:19:55 PDT)
- Elvis Martis (Thu Oct 24 2019 - 22:09:30 PDT)
- Rinsha Chk (Thu Oct 24 2019 - 21:23:26 PDT)
[AMBER] restraining a peptide to devoid of any secondary structure
- Vlad Cojocaru (Wed Oct 02 2019 - 07:11:06 PDT)
[AMBER] Rotational/torsion energy
- Gustaf Olsson (Thu Oct 03 2019 - 23:01:10 PDT)
- Daniel Roe (Thu Oct 03 2019 - 12:33:08 PDT)
[AMBER] RTX 2080 slower then 1080 Ti with pmemd 18 ?
- Charles-Alexandre Mattelaer (Sun Oct 06 2019 - 23:01:19 PDT)
- Ross Walker (Sun Oct 06 2019 - 13:22:33 PDT)
- Charles-Alexandre Mattelaer (Sat Oct 05 2019 - 14:11:52 PDT)
[AMBER] sander/lmod parallel execution
- Charles-Alexandre Mattelaer (Tue Oct 22 2019 - 00:39:09 PDT)
- Scott Brozell (Mon Oct 21 2019 - 11:20:49 PDT)
- Charles-Alexandre Mattelaer (Mon Oct 21 2019 - 07:07:29 PDT)
[AMBER] seek help for mmpbsa
- Liao (Wed Oct 02 2019 - 04:47:52 PDT)
- 石娜 (Wed Oct 02 2019 - 03:42:48 PDT)
[AMBER] Some short Catalina experience
- Gustaf Olsson (Tue Oct 29 2019 - 06:09:05 PDT)
- David A Case (Tue Oct 29 2019 - 05:59:41 PDT)
- Gustaf Olsson (Thu Oct 17 2019 - 23:57:22 PDT)
- David Case (Thu Oct 17 2019 - 18:42:18 PDT)
- Hai Nguyen (Thu Oct 17 2019 - 11:41:13 PDT)
- Scott Brozell (Thu Oct 17 2019 - 11:02:02 PDT)
- David A Case (Thu Oct 17 2019 - 10:49:13 PDT)
[AMBER] strip problem in cpptraj
- Sadaf Rani (Fri Oct 25 2019 - 10:58:30 PDT)
[AMBER] symmetry corrected rms fitting
- Venkata Krishnan Ramaswamy (Mon Oct 14 2019 - 06:30:56 PDT)
[AMBER] Thermodynamic integration
- Charles Lin (Thu Oct 17 2019 - 07:26:50 PDT)
- Sadaf Rani (Thu Oct 17 2019 - 04:19:01 PDT)
- Charles Lin (Mon Oct 14 2019 - 13:03:26 PDT)
- Sadaf Rani (Mon Oct 14 2019 - 12:02:52 PDT)
- Charles Lin (Mon Oct 14 2019 - 09:58:35 PDT)
- Sadaf Rani (Mon Oct 14 2019 - 08:10:46 PDT)
- Charles Lin (Mon Oct 14 2019 - 07:20:10 PDT)
- Sadaf Rani (Mon Oct 14 2019 - 03:59:22 PDT)
- Charles Lin (Thu Oct 10 2019 - 11:51:20 PDT)
- Sadaf Rani (Thu Oct 10 2019 - 07:45:13 PDT)
- Charles Lin (Thu Oct 10 2019 - 06:13:11 PDT)
- Sadaf Rani (Thu Oct 10 2019 - 05:16:31 PDT)
- Debarati DasGupta (Wed Oct 09 2019 - 11:36:18 PDT)
- David Case (Thu Oct 03 2019 - 12:59:54 PDT)
- Charles Lin (Thu Oct 03 2019 - 12:23:16 PDT)
- Debarati DasGupta (Thu Oct 03 2019 - 10:48:49 PDT)
- Charles Lin (Thu Oct 03 2019 - 09:15:51 PDT)
- Charles Lin (Thu Oct 03 2019 - 09:13:44 PDT)
- Sadaf Rani (Thu Oct 03 2019 - 08:06:17 PDT)
- Debarati DasGupta (Thu Oct 03 2019 - 06:41:17 PDT)
- Charles Lin (Wed Oct 02 2019 - 08:19:52 PDT)
- Debarati DasGupta (Tue Oct 01 2019 - 13:25:59 PDT)
[AMBER] Thermodynamic integration more questions!
- Debarati DasGupta (Wed Oct 23 2019 - 06:50:29 PDT)
[AMBER] thermodynamic integration parameters in input file
- David A Case (Tue Oct 22 2019 - 11:17:23 PDT)
- Debarati DasGupta (Tue Oct 22 2019 - 08:44:41 PDT)
[AMBER] Thermodynamic integration questions questions and questions
- Debarati DasGupta (Tue Oct 29 2019 - 08:59:12 PDT)
[AMBER] TI on gpus
- Debarati DasGupta (Fri Oct 25 2019 - 12:51:01 PDT)
- David A Case (Fri Oct 25 2019 - 08:59:58 PDT)
- Debarati DasGupta (Fri Oct 25 2019 - 06:26:43 PDT)
- Ross Walker (Thu Oct 24 2019 - 17:56:06 PDT)
- Debarati DasGupta (Thu Oct 24 2019 - 10:45:55 PDT)
[AMBER] TI tutorial for preparation of ligand
- Debarati DasGupta (Sun Oct 20 2019 - 09:03:15 PDT)
[AMBER] tip4pew water module in different version performs different
- 钟海洋 (Thu Oct 31 2019 - 01:54:42 PDT)
[AMBER] tleap changes order of atoms in the parm file
- Bill Ross (Thu Oct 10 2019 - 11:48:34 PDT)
- David A Case (Thu Oct 10 2019 - 09:50:54 PDT)
- Dawid das (Thu Oct 10 2019 - 08:14:53 PDT)
- Bill Ross (Thu Oct 10 2019 - 07:46:50 PDT)
- Dawid das (Thu Oct 10 2019 - 07:36:12 PDT)
- Bill Ross (Thu Oct 10 2019 - 07:13:08 PDT)
- Dawid das (Thu Oct 10 2019 - 07:09:16 PDT)
[AMBER] tleap hangs when tries to read new residue
- Dawid das (Mon Oct 07 2019 - 14:52:30 PDT)
- Matias Machado (Mon Oct 07 2019 - 14:35:45 PDT)
- Dawid das (Mon Oct 07 2019 - 05:31:01 PDT)
- David A Case (Mon Oct 07 2019 - 05:21:41 PDT)
- Bill Ross (Mon Oct 07 2019 - 02:52:14 PDT)
- Dawid das (Mon Oct 07 2019 - 02:40:27 PDT)
- Bill Ross (Sun Oct 06 2019 - 12:49:51 PDT)
- Bill Ross (Sun Oct 06 2019 - 12:48:28 PDT)
- Dawid das (Sun Oct 06 2019 - 10:09:05 PDT)
[AMBER] Trouble Installing Amber on Mac
- David A Case (Mon Oct 14 2019 - 05:25:11 PDT)
- Bill Ross (Sat Oct 12 2019 - 00:23:09 PDT)
- Faisal Malik (Fri Oct 11 2019 - 23:35:18 PDT)
- Bill Ross (Fri Oct 11 2019 - 22:31:39 PDT)
- Faisal Malik (Fri Oct 11 2019 - 21:19:09 PDT)
[AMBER] umbrella sampling question
- 钟海洋 (Wed Oct 30 2019 - 20:45:42 PDT)
- diego.soler.uam.es (Wed Oct 30 2019 - 07:10:23 PDT)
- 钟海洋 (Tue Oct 29 2019 - 23:59:38 PDT)
[AMBER] What is the correction in amber99SB-*-ILDN?
- David A Case (Mon Oct 14 2019 - 05:40:09 PDT)
- Dawid das (Sat Oct 12 2019 - 09:33:06 PDT)
- Carlos Simmerling (Fri Oct 11 2019 - 08:29:08 PDT)
- Dawid das (Fri Oct 11 2019 - 08:23:57 PDT)
[AMBER] WHere do I modify the charge of a standard residue?
- David Case (Wed Oct 02 2019 - 11:48:03 PDT)
- David Sáez (Wed Oct 02 2019 - 06:42:54 PDT)

Amber Archive Oct 2019 by subject