Amber Archive Dec 2024: by thread

[AMBER] Syntax error in Gaussian Input file for ONIOM calculation Priyasha Majee via AMBER (Sat Nov 30 2024 - 21:25:36 PST)
[AMBER] pdb4amber works error LI An-Bang via AMBER (Wed Dec 04 2024 - 01:25:23 PST)
- Re: [AMBER] pdb4amber works error Osadchey Brown, Reilly via AMBER (Wed Dec 04 2024 - 05:57:34 PST)
  - Re: [AMBER] pdb4amber works error Carlos Simmerling via AMBER (Wed Dec 04 2024 - 06:19:14 PST)
  - Re: [AMBER] pdb4amber works error David A Case via AMBER (Wed Dec 04 2024 - 08:50:20 PST)
- Re: [AMBER] pdb4amber works error David A Case via AMBER (Wed Dec 04 2024 - 08:41:03 PST)
[AMBER] LiGaMD cannot apply boost potential applied Marlon Flor via AMBER (Wed Dec 04 2024 - 10:38:47 PST)
- Re: [AMBER] LiGaMD cannot apply boost potential applied Carlos Simmerling via AMBER (Thu Dec 05 2024 - 02:50:40 PST)
  - Re: [AMBER] LiGaMD cannot apply boost potential applied Christian Seitz via AMBER (Thu Dec 05 2024 - 10:54:20 PST)
[AMBER] PCA of WT vs mutants Ramdhan,Peter A via AMBER (Thu Dec 05 2024 - 06:57:05 PST)
- Re: [AMBER] PCA of WT vs mutants Christina Bergonzo via AMBER (Thu Dec 05 2024 - 07:09:28 PST)
[AMBER] viparr-convert-amber error Zeyu Lin via AMBER (Fri Dec 06 2024 - 07:21:16 PST)
- Re: [AMBER] viparr-convert-amber error Carlos Simmerling via AMBER (Sat Dec 07 2024 - 06:59:09 PST)
[AMBER] Convergence failure MCPB.py/GAMESS Dutta, Ankita via AMBER (Fri Dec 06 2024 - 07:42:36 PST)
- Re: [AMBER] Convergence failure MCPB.py/GAMESS James Kress via AMBER (Fri Dec 06 2024 - 09:48:06 PST)
- Re: [AMBER] Convergence failure MCPB.py/GAMESS James Kress via AMBER (Fri Dec 06 2024 - 12:47:45 PST)
- Re: [AMBER] Convergence failure MCPB.py/GAMESS James Kress via AMBER (Fri Dec 13 2024 - 15:28:21 PST)
[AMBER] Difficulty running quick Osman, Roman via AMBER (Fri Dec 06 2024 - 13:14:31 PST)
- Re: [AMBER] Difficulty running quick Goetz, Andreas via AMBER (Fri Dec 06 2024 - 14:50:40 PST)
[AMBER] teLeap: Error! Atom named CA from SEJ did not match ! SUBHASMITA MAHAPATRA MAHAPATRA via AMBER (Sat Dec 07 2024 - 02:46:53 PST)
[AMBER] amber TI edgembar | py generated from xml contains inf Tongtong Li via AMBER (Sun Dec 08 2024 - 19:35:40 PST)
- Re: [AMBER] amber TI edgembar | py generated from xml contains inf Timothy Giese via AMBER (Mon Dec 09 2024 - 07:45:52 PST)
- Re: [AMBER] amber TI edgembar | py generated from xml contains inf Timothy Giese via AMBER (Mon Dec 09 2024 - 13:59:18 PST)
- Re: [AMBER] amber TI edgembar | py generated from xml contains inf Timothy Giese via AMBER (Tue Dec 10 2024 - 16:26:00 PST)
  - [AMBER] Fw: amber TI edgembar | py generated from xml contains inf Tongtong Li via AMBER (Wed Dec 11 2024 - 08:22:33 PST)
[AMBER] teLeap: Error! SUBHASMITA MAHAPATRA MAHAPATRA via AMBER (Sun Dec 08 2024 - 22:09:19 PST)
Re: [AMBER] Error when starting PPI GaMD simulation Stéphane Téletchéa via AMBER (Mon Dec 09 2024 - 01:11:10 PST)
- Re: [AMBER] Error when starting PPI GaMD simulation Nikolay N. Kuzmich via AMBER (Mon Dec 09 2024 - 11:47:32 PST)
Re: [AMBER] imaging membrane system Stéphane Téletchéa via AMBER (Mon Dec 09 2024 - 01:17:39 PST)
- Re: [AMBER] imaging membrane system Daniel Roe via AMBER (Mon Dec 09 2024 - 05:08:40 PST)
  - Re: [AMBER] imaging membrane system Téletchéa Stéphane via AMBER (Tue Dec 10 2024 - 06:32:33 PST)
    - Re: [AMBER] imaging membrane system Daniel Roe via AMBER (Wed Dec 11 2024 - 06:12:32 PST)
[AMBER] Issue with teLeap parameter generation for covalent bond SUBHASMITA MAHAPATRA MAHAPATRA via AMBER (Mon Dec 09 2024 - 01:20:14 PST)
- Re: [AMBER] Issue with teLeap parameter generation for covalent bond Dr. Anselm Horn via AMBER (Mon Dec 09 2024 - 06:04:31 PST)
  - Re: [AMBER] Issue with teLeap parameter generation for covalent bond SUBHASMITA MAHAPATRA MAHAPATRA via AMBER (Mon Dec 09 2024 - 08:47:10 PST)
[AMBER] Issue Running parmchk2 in AmberTools24 on Ubuntu 24.04 ZHENG, siqiong \[Student\] via AMBER (Mon Dec 09 2024 - 01:40:16 PST)
- Re: [AMBER] Issue Running parmchk2 in AmberTools24 on Ubuntu 24.04 David A Case via AMBER (Mon Dec 09 2024 - 13:22:41 PST)
[AMBER] Calculate rmsd for different residue ranges 百毒不侵√ via AMBER (Mon Dec 09 2024 - 20:22:57 PST)
- Re: [AMBER] Calculate rmsd for different residue ranges Dr. Anselm Horn via AMBER (Tue Dec 10 2024 - 03:31:13 PST)
[AMBER] Question about running OMP ( openmp ) versions of amber Wong, Sergio E. via AMBER (Mon Dec 09 2024 - 21:26:49 PST)
- Re: [AMBER] Question about running OMP ( openmp ) versions of amber David A Case via AMBER (Sat Dec 14 2024 - 07:23:20 PST)
[AMBER] Configuration of NSTLIM Pablo Galaz-Davison via AMBER (Tue Dec 10 2024 - 05:52:59 PST)
- Re: [AMBER] Configuration of NSTLIM Carlos Simmerling via AMBER (Tue Dec 10 2024 - 05:55:32 PST)
[AMBER] Fwd: Amber Install Berkley Young via AMBER (Thu Dec 12 2024 - 10:36:13 PST)
- Re: [AMBER] Fwd: Amber Install David A Case via AMBER (Sat Dec 14 2024 - 07:25:36 PST)
[AMBER] Compiling error of Amber24 on Linux Jiang, Wei via AMBER (Thu Dec 12 2024 - 12:10:48 PST)
- Re: [AMBER] Compiling error of Amber24 on Linux Masoud Keramati via AMBER (Thu Dec 12 2024 - 13:05:42 PST)
  - Re: [AMBER] Compiling error of Amber24 on Linux Jiang, Wei via AMBER (Thu Dec 12 2024 - 13:57:05 PST)
    - Re: [AMBER] Compiling error of Amber24 on Linux Masoud Keramati via AMBER (Thu Dec 12 2024 - 14:13:13 PST)
    - Re: [AMBER] Compiling error of Amber24 on Linux Jiang, Wei via AMBER (Fri Dec 13 2024 - 07:38:51 PST)
    - Re: [AMBER] Compiling error of Amber24 on Linux David A Case via AMBER (Sat Dec 14 2024 - 07:29:19 PST)
[AMBER] Calculating dipole vector for charged solvent? Delwakkada Liyanage, Senal Dinuka via AMBER (Thu Dec 12 2024 - 21:28:17 PST)
- Re: [AMBER] Calculating dipole vector for charged solvent? David A Case via AMBER (Sat Dec 14 2024 - 07:40:47 PST)
[AMBER] TI calculations VERONICA MARTIN HERNANDEZ via AMBER (Fri Dec 13 2024 - 01:36:20 PST)
- Re: [AMBER] TI calculations David A Case via AMBER (Sat Dec 14 2024 - 07:36:42 PST)
[AMBER] License for pmemd.cuda Jiang, Wei via AMBER (Sat Dec 14 2024 - 06:07:45 PST)
- Re: [AMBER] License for pmemd.cuda David A Case via AMBER (Sat Dec 14 2024 - 07:20:54 PST)
- Re: [AMBER] License for pmemd.cuda Adrian Roitberg via AMBER (Sat Dec 14 2024 - 07:26:01 PST)
  - Re: [AMBER] License for pmemd.cuda Jiang, Wei via AMBER (Sat Dec 14 2024 - 07:36:21 PST)
    - Re: [AMBER] License for pmemd.cuda Jiang, Wei via AMBER (Sat Dec 14 2024 - 08:20:46 PST)
    - Re: [AMBER] License for pmemd.cuda David A Case via AMBER (Sat Dec 14 2024 - 08:43:33 PST)
[AMBER] How to deal with heme(CPDI) -CYS in tleap 王宇轩 via AMBER (Sun Dec 15 2024 - 03:01:38 PST)
- Re: [AMBER] How to deal with heme(CPDI) -CYS in tleap David A Case via AMBER (Mon Dec 16 2024 - 12:08:30 PST)
[AMBER] AMBER TI calculations VERONICA MARTIN HERNANDEZ via AMBER (Mon Dec 16 2024 - 01:58:27 PST)
- [AMBER] 回复: AMBER TI calculations Huang ZiJian via AMBER (Mon Dec 16 2024 - 04:43:16 PST)
- Re: [AMBER] AMBER TI calculations Daniel Roe via AMBER (Mon Dec 16 2024 - 05:47:35 PST)
[AMBER] Peptidoglycan Angelo Gallo via AMBER (Mon Dec 16 2024 - 07:41:19 PST)
- Re: [AMBER] Peptidoglycan PD Dr. Anselm Horn via AMBER (Mon Dec 16 2024 - 08:00:35 PST)
- Re: [AMBER] Peptidoglycan David A Case via AMBER (Thu Dec 19 2024 - 08:06:54 PST)
[AMBER] What is meant by buffer overflow message when running tleap Debarati DasGupta via AMBER (Mon Dec 16 2024 - 07:40:40 PST)
- Re: [AMBER] What is meant by buffer overflow message when running tleap Debarati DasGupta via AMBER (Mon Dec 16 2024 - 07:42:25 PST)
  - Re: [AMBER] What is meant by buffer overflow message when running tleap Timothy Giese via AMBER (Mon Dec 16 2024 - 09:01:11 PST)
    - Re: [AMBER] What is meant by buffer overflow message when running tleap David A Case via AMBER (Mon Dec 16 2024 - 12:00:50 PST)
[AMBER] Accelerated Molecular Dynamics (aMD) Dulal Mondal via AMBER (Tue Dec 17 2024 - 00:18:08 PST)
- Re: [AMBER] Accelerated Molecular Dynamics (aMD) Masoud Keramati via AMBER (Tue Dec 17 2024 - 09:15:58 PST)
  - Re: [AMBER] Accelerated Molecular Dynamics (aMD) Dulal Mondal via AMBER (Tue Dec 17 2024 - 10:46:27 PST)
[AMBER] Problem in covalently attached ligands Airy Sanjeev via AMBER (Tue Dec 17 2024 - 01:37:35 PST)
[AMBER] Questions about the tishake flag for TI Anna Herz via AMBER (Tue Dec 17 2024 - 09:32:05 PST)
[AMBER] Custom Residue Parameterization for Cyclic peptide Zeyu Lin via AMBER (Tue Dec 17 2024 - 17:10:24 PST)
[AMBER] Regarding QM-MM_MD setup calculation: Kankana Bhattacharjee via AMBER (Tue Dec 17 2024 - 22:14:47 PST)
- Re: [AMBER] Regarding QM-MM_MD setup calculation: David A Case via AMBER (Thu Dec 19 2024 - 08:04:54 PST)
[AMBER] Regarding QM-MM-MD setup using amber22: Kankana Bhattacharjee via AMBER (Wed Dec 18 2024 - 22:54:26 PST)
- Re: [AMBER] Regarding QM-MM-MD setup using amber22: SATYAJIT KHATUA via AMBER (Wed Dec 18 2024 - 23:34:15 PST)
[AMBER] Question about obtaining PMEMD.CUDA for AMBER 2024 Angel David Montijo Valdés via AMBER (Thu Dec 19 2024 - 15:06:29 PST)
- Re: [AMBER] Question about obtaining PMEMD.CUDA for AMBER 2024 David A Case via AMBER (Thu Dec 19 2024 - 15:32:45 PST)
[AMBER] Fix cpptraj command to add residue number to output Abdelrahman, Noureen via AMBER (Sat Dec 21 2024 - 16:28:31 PST)
- Re: [AMBER] Fix cpptraj command to add residue number to output Hocine El Khaoudi Enyoury via AMBER (Sun Dec 22 2024 - 12:50:23 PST)

Amber Archive Dec 2024 by thread