Amber Archive Oct 2024: by subject

[AMBER] [Sender Not Verified] Saving trajectory during minimization
- Alexander Hung Lee via AMBER (Tue Oct 08 2024 - 06:05:50 PDT)
[AMBER] AMBER CUDA version support
- Téletchéa Stéphane via AMBER (Mon Oct 21 2024 - 09:58:48 PDT)
- Daniel Roe via AMBER (Thu Oct 17 2024 - 08:04:37 PDT)
- Martin Cuma via AMBER (Wed Oct 16 2024 - 10:45:53 PDT)
[AMBER] AMBER-ORCA Interface
- James Kress via AMBER (Mon Oct 28 2024 - 09:50:26 PDT)
- Martin Juhás via AMBER (Mon Oct 28 2024 - 07:01:33 PDT)
- Ramdhan,Peter A via AMBER (Mon Oct 28 2024 - 06:52:11 PDT)
- Martin Juhás via AMBER (Fri Oct 11 2024 - 11:29:38 PDT)
- Ramdhan,Peter A via AMBER (Fri Oct 11 2024 - 06:08:47 PDT)
[AMBER] AMBER24 compilation - MPI Fortran
- David A Case via AMBER (Thu Oct 31 2024 - 07:59:56 PDT)
- Yasser Almeida via AMBER (Wed Oct 30 2024 - 01:04:08 PDT)
- Masoud Keramati via AMBER (Tue Oct 29 2024 - 10:59:23 PDT)
- Yasser Almeida via AMBER (Tue Oct 29 2024 - 03:25:30 PDT)
- Yasser Almeida via AMBER (Tue Oct 29 2024 - 03:17:35 PDT)
- Masoud Keramati via AMBER (Mon Oct 21 2024 - 09:35:29 PDT)
- Yasser Almeida via AMBER (Mon Oct 21 2024 - 07:35:24 PDT)
[AMBER] Assistance Required with MCPB.py and Non-Standard Residue Handling
- Li, Zhen via AMBER (Mon Oct 21 2024 - 21:19:33 PDT)
- Dr. Anselm Horn via AMBER (Mon Oct 21 2024 - 04:26:25 PDT)
- 郑逸非 via AMBER (Mon Oct 21 2024 - 00:04:49 PDT)
[AMBER] Atommap doesn't change atom names
- Daniel Roe via AMBER (Tue Oct 22 2024 - 08:25:21 PDT)
- Daniel Roe via AMBER (Mon Oct 21 2024 - 12:45:21 PDT)
- Daniel Roe via AMBER (Mon Oct 21 2024 - 11:59:36 PDT)
- Daniel Roe via AMBER (Mon Oct 21 2024 - 11:30:21 PDT)
- Daniel Roe via AMBER (Mon Oct 21 2024 - 11:17:58 PDT)
- Daniel Roe via AMBER (Sun Oct 20 2024 - 07:35:01 PDT)
- Maciej Spiegel via AMBER (Sun Oct 20 2024 - 03:00:23 PDT)
[AMBER] BZIP2 Error when building Amber24
- David A Case via AMBER (Thu Oct 10 2024 - 15:40:42 PDT)
- Téletchéa Stéphane via AMBER (Thu Oct 10 2024 - 05:01:09 PDT)
- Robert Palmere via AMBER (Tue Oct 08 2024 - 08:50:35 PDT)
[AMBER] cpinutil.py error: AmberWarning: Molecule atoms are not contiguous!
- Adrian Roitberg via AMBER (Tue Oct 01 2024 - 10:26:58 PDT)
- Abdelrahman, Noureen via AMBER (Tue Oct 01 2024 - 09:24:17 PDT)
[AMBER] CPPTRAJ is unable to handle the specified arguments
- Daniel Roe via AMBER (Sat Oct 12 2024 - 07:39:51 PDT)
- Maciej Spiegel via AMBER (Sat Oct 12 2024 - 06:53:09 PDT)
- Daniel Roe via AMBER (Sat Oct 12 2024 - 06:09:59 PDT)
- Maciej Spiegel via AMBER (Sat Oct 12 2024 - 01:40:25 PDT)
[AMBER] Doing alignment on a specific region and run RMSF on ther reagion with CPPTRAJ
- Daniel Roe via AMBER (Thu Oct 03 2024 - 11:36:34 PDT)
- Daniel Roe via AMBER (Wed Oct 02 2024 - 08:40:50 PDT)
- Maghsoud, Yazdan via AMBER (Tue Oct 01 2024 - 12:56:56 PDT)
[AMBER] Enforcing Chirality in DNA Simulations
- FyD via AMBER (Fri Oct 11 2024 - 14:10:37 PDT)
- Rodrigo Galindo-Murillo via AMBER (Fri Oct 11 2024 - 09:56:27 PDT)
- Carlos Simmerling via AMBER (Fri Oct 11 2024 - 09:44:38 PDT)
- Maciej Spiegel via AMBER (Fri Oct 11 2024 - 09:33:18 PDT)
- David A Case via AMBER (Thu Oct 10 2024 - 15:49:11 PDT)
- Maciej Spiegel via AMBER (Thu Oct 10 2024 - 12:46:39 PDT)
[AMBER] Error when starting PPI GaMD simulation
- Nikolay Kuzmich via AMBER (Wed Oct 09 2024 - 08:47:36 PDT)
[AMBER] How to Derive missing parameters for modified nucleosides (OL15/OL21)
- David A Case via AMBER (Thu Oct 31 2024 - 07:53:13 PDT)
- Maciej Spiegel via AMBER (Fri Oct 25 2024 - 09:28:36 PDT)
[AMBER] Inquiry on problems with CDH2 Zinc Finger Force Field Parameters
- 戚苗苗 via AMBER (Sat Oct 05 2024 - 18:59:14 PDT)
[AMBER] Installation: Amber24 with MVAPICH2-GDR
- Nitin Kulhar via AMBER (Mon Oct 21 2024 - 20:29:41 PDT)
- Scott Brozell via AMBER (Mon Oct 21 2024 - 17:55:26 PDT)
- Nitin Kulhar via AMBER (Sat Oct 19 2024 - 06:00:18 PDT)
- Scott Brozell via AMBER (Fri Oct 18 2024 - 11:44:25 PDT)
- Nitin Kulhar via AMBER (Fri Oct 18 2024 - 09:27:02 PDT)
- Nitin Kulhar via AMBER (Mon Oct 07 2024 - 06:25:30 PDT)
[AMBER] Installing Amber24 and AmberTools24
- Andriy Kovalenko via AMBER (Fri Oct 18 2024 - 07:41:58 PDT)
[AMBER] issue with packmol-memgen from amber-tools 2024
- Enrico Martinez via AMBER (Wed Oct 02 2024 - 03:05:38 PDT)
[AMBER] Length of translation vector from "rmsd" via cpptraj?
- Dr. Anselm Horn via AMBER (Fri Oct 04 2024 - 00:57:52 PDT)
- Daniel Roe via AMBER (Wed Oct 02 2024 - 08:35:19 PDT)
- Dr. Anselm Horn via AMBER (Wed Oct 02 2024 - 04:12:07 PDT)
[AMBER] MBAR options causing error in reading namelist cntrl
- Charlie Holdship via AMBER (Mon Oct 21 2024 - 07:23:50 PDT)
- Timothy Giese via AMBER (Mon Oct 21 2024 - 06:15:42 PDT)
- Charlie Holdship via AMBER (Fri Oct 18 2024 - 08:21:26 PDT)
[AMBER] MCPB.py: GAMESS-US has no fchk file but seminario requires it.
- Li, Zhen via AMBER (Wed Oct 23 2024 - 05:33:50 PDT)
[AMBER] multiple solvent system
- FyD via AMBER (Fri Oct 18 2024 - 03:40:37 PDT)
- Enrico Martinez via AMBER (Thu Oct 17 2024 - 01:40:02 PDT)
[AMBER] Paramfit X ForceBalance - Was: Forcefield Builder analogs in Amber
- Jones de Andrade via AMBER (Tue Oct 01 2024 - 15:29:22 PDT)
[AMBER] patch plumed in amber24
- Adrian Roitberg via AMBER (Tue Oct 29 2024 - 14:03:36 PDT)
- Dulal Mondal via AMBER (Tue Oct 29 2024 - 10:44:11 PDT)
- Dulal Mondal via AMBER (Mon Oct 28 2024 - 07:04:32 PDT)
[AMBER] plumed patch with amber24
- Dulal Mondal via AMBER (Tue Oct 01 2024 - 05:50:44 PDT)
[AMBER] Problems building Amber
- David A Case via AMBER (Fri Oct 18 2024 - 08:32:11 PDT)
- Martin Cuma via AMBER (Fri Oct 11 2024 - 08:51:22 PDT)
[AMBER] QM/MM simulation with SHAKE using Sander QUICK module
- Ramdhan,Peter A via AMBER (Fri Oct 04 2024 - 09:42:42 PDT)
- Dutta, Ankita via AMBER (Fri Oct 04 2024 - 09:13:05 PDT)
[AMBER] Question about MCPB.py tutorial with GAMESS-US
- FyD via AMBER (Thu Oct 24 2024 - 03:39:39 PDT)
- Li, Zhen via AMBER (Wed Oct 23 2024 - 13:03:09 PDT)
- Silva Carvalho, Felipe via AMBER (Wed Oct 23 2024 - 10:46:08 PDT)
- Li, Zhen via AMBER (Wed Oct 23 2024 - 07:51:16 PDT)
- Silva Carvalho, Felipe via AMBER (Tue Oct 22 2024 - 20:45:04 PDT)
[AMBER] Question about protein-ligand system: how to add copy of ligands to the solvent ?
- Enrico Martinez via AMBER (Fri Oct 25 2024 - 06:37:38 PDT)
- Enrico Martinez via AMBER (Fri Oct 25 2024 - 05:58:46 PDT)
- Enrico Martinez via AMBER (Fri Oct 25 2024 - 01:58:14 PDT)
[AMBER] Question about QM with Gaussian using GPU
- Ramdhan,Peter A via AMBER (Fri Oct 04 2024 - 05:26:02 PDT)
[AMBER] Question about Steered QM/MM/MD
- Ramdhan,Peter A via AMBER (Wed Oct 02 2024 - 06:04:35 PDT)
[AMBER] Question about the use of MCPB.py(Handling of proteins with non-standard residues in the chain)
- Li, Zhen via AMBER (Sat Oct 26 2024 - 12:05:13 PDT)
[AMBER] Saving trajectory during minimization
- Alexander Hung Lee via AMBER (Mon Oct 07 2024 - 11:58:07 PDT)
[AMBER] Seeking Automated Torsional Re-parameterization Tools for GAFF/GAFF2
- Carlos Simmerling via AMBER (Mon Oct 21 2024 - 09:55:39 PDT)
- Marawan Hussien via AMBER (Mon Oct 21 2024 - 09:14:12 PDT)
- Juraj Dobias via AMBER (Mon Oct 21 2024 - 03:42:32 PDT)
- Carlos Simmerling via AMBER (Sun Oct 20 2024 - 12:52:07 PDT)
- Carlos Simmerling via AMBER (Sun Oct 20 2024 - 11:04:11 PDT)
- Marawan Hussien via AMBER (Sun Oct 20 2024 - 10:13:11 PDT)
[AMBER] segmentation faults and randomly stopping simulations
- Daniel Roe via AMBER (Thu Oct 24 2024 - 06:21:01 PDT)
- Daniel Roe via AMBER (Thu Oct 17 2024 - 06:26:34 PDT)
- David A Case via AMBER (Sat Oct 12 2024 - 07:17:15 PDT)
- Ryan Woltz via AMBER (Thu Oct 10 2024 - 15:35:14 PDT)
- Masoud Keramati via AMBER (Thu Oct 10 2024 - 15:25:04 PDT)
- Ryan Woltz via AMBER (Thu Oct 10 2024 - 15:16:26 PDT)
[AMBER] Send pmemd output to stdout?
- Gard Nelson via AMBER (Thu Oct 03 2024 - 12:39:50 PDT)
[AMBER] System Administrator Position, NIH/NHLBI
- Daniel Roe via AMBER (Thu Oct 10 2024 - 06:10:54 PDT)
[AMBER] Using Steered MD in NPT vs NVT vs NVE
- Ramdhan,Peter A via AMBER (Wed Oct 16 2024 - 10:49:21 PDT)
[AMBER] What forcefield for DNA-RNA duplex
- Mlynsky Vojtech via AMBER (Wed Oct 16 2024 - 01:44:47 PDT)
- Christina Bergonzo via AMBER (Tue Oct 15 2024 - 11:55:19 PDT)
- Maciej Spiegel via AMBER (Tue Oct 15 2024 - 11:41:00 PDT)

Amber Archive Oct 2024 by subject