Amber Archive Aug 2025: by thread

[AMBER] To calculate the volume of an octahedral box MAMTA YADAV via AMBER (Thu Jul 31 2025 - 11:30:41 PDT)
[AMBER] Previous versions of Amber Adam Huffman via AMBER (Fri Aug 01 2025 - 04:46:01 PDT)
- Re: [AMBER] Previous versions of Amber David A Case via AMBER (Sat Aug 02 2025 - 13:48:12 PDT)
Re: [AMBER] Help with optimizing the time of calculation Christina Bergonzo via AMBER (Fri Aug 01 2025 - 05:00:13 PDT)
[AMBER] MCPB.py Error at Step 2: TypeError with numpy.complex128 in angle parameter generation maciej.spiegel via AMBER (Fri Aug 01 2025 - 08:23:49 PDT)
- Re: [AMBER] MCPB.py Error at Step 2: TypeError with numpy.complex128 in angle parameter generation Jeffrey Wagner via AMBER (Fri Aug 01 2025 - 09:18:28 PDT)
- Re: [AMBER] MCPB.py Error at Step 2: TypeError with numpy.complex128 in angle parameter generation Li, Zhen via AMBER (Fri Aug 01 2025 - 11:27:34 PDT)
  - Re: [AMBER] [Potencjalny SPAM] Re: MCPB.py Error at Step 2: TypeError with numpy.complex128 in angle parameter generation maciej.spiegel via AMBER (Fri Aug 01 2025 - 12:34:26 PDT)
[AMBER] ASMD simulation of protein-protein complex Prithviraj Nandigrami via AMBER (Fri Aug 01 2025 - 09:31:14 PDT)
[AMBER] CCYM missing Simona Saporiti via AMBER (Fri Aug 01 2025 - 09:38:17 PDT)
- Re: [AMBER] CCYM missing David A Case via AMBER (Sat Aug 02 2025 - 14:09:32 PDT)
- Re: [AMBER] CCYM missing Carlos Simmerling via AMBER (Sun Aug 03 2025 - 13:33:02 PDT)
[AMBER] Line minimizer abort while doing mmpbsa and Normal mode analysis Priyasha Majee via AMBER (Fri Aug 01 2025 - 10:29:57 PDT)
- Re: [AMBER] Line minimizer abort while doing mmpbsa and Normal mode analysis Priyasha Majee via AMBER (Fri Aug 01 2025 - 23:24:08 PDT)
  - Re: [AMBER] Line minimizer abort while doing mmpbsa and Normal mode analysis David A Case via AMBER (Sat Aug 02 2025 - 14:13:30 PDT)
[AMBER] Numerical Instability in Umbrella Sampling Sudipti Priyadarsinee via AMBER (Sat Aug 02 2025 - 00:09:14 PDT)
- Re: [AMBER] Numerical Instability in Umbrella Sampling David A Case via AMBER (Sat Aug 02 2025 - 14:21:16 PDT)
[AMBER] Segmentation fault when running on GPU, working fine on CPU Markowska (Sat Aug 02 2025 - 10:49:39 PDT)
- Re: [AMBER] Segmentation fault when running on GPU, working fine on CPU Markowska (Fri Aug 08 2025 - 02:51:18 PDT)
- Re: [AMBER] Segmentation fault when running on GPU, working fine on CPU Markowska (Mon Aug 11 2025 - 02:43:48 PDT)
Re: [AMBER] MD simulations running slowly David A Case via AMBER (Sat Aug 02 2025 - 13:34:29 PDT)
Re: [AMBER] Problems with MMPB/MMGBSA David A Case via AMBER (Sat Aug 02 2025 - 13:39:14 PDT)
- Re: [AMBER] Problems with MMPB/MMGBSA Carmi, Jason R via AMBER (Wed Aug 06 2025 - 17:30:00 PDT)
[AMBER] Compilation with MVAPICH2-GDR Yasser Almeida via AMBER (Mon Aug 04 2025 - 02:05:49 PDT)
- Re: [AMBER] Compilation with MVAPICH2-GDR Scott Brozell via AMBER (Tue Aug 05 2025 - 13:59:41 PDT)
Re: [AMBER] Problem of water breaking in coordinate file. YASHIKA . via AMBER (Wed Aug 06 2025 - 03:46:02 PDT)
- Re: [AMBER] Problem of water breaking in coordinate file. Timothy Giese via AMBER (Wed Aug 06 2025 - 07:00:28 PDT)
  - Re: [AMBER] Problem of water breaking in coordinate file. Timothy Giese via AMBER (Thu Aug 07 2025 - 08:58:20 PDT)
[AMBER] findgrep.py error Dulal Mondal via AMBER (Wed Aug 06 2025 - 23:12:10 PDT)
- Re: [AMBER] findgrep.py error Dulal Mondal via AMBER (Fri Aug 08 2025 - 01:05:55 PDT)
- Re: [AMBER] findgrep.py error Dulal Mondal via AMBER (Fri Aug 08 2025 - 01:55:23 PDT)
  - Re: [AMBER] findgrep.py error Vinicius Cruzeiro via AMBER (Fri Aug 08 2025 - 19:19:54 PDT)
    - Re: [AMBER] findgrep.py error Dulal Mondal via AMBER (Fri Aug 08 2025 - 20:35:03 PDT)
    - Re: [AMBER] findgrep.py error Vinicius Cruzeiro via AMBER (Fri Aug 08 2025 - 20:54:12 PDT)
    - Re: [AMBER] findgrep.py error Dulal Mondal via AMBER (Sat Aug 09 2025 - 01:04:22 PDT)
    - Re: [AMBER] findgrep.py error Vinicius Cruzeiro via AMBER (Sat Aug 09 2025 - 01:18:25 PDT)
    - Re: [AMBER] findgrep.py error Dulal Mondal via AMBER (Sat Aug 09 2025 - 02:25:46 PDT)
    - Re: [AMBER] findgrep.py error Vinicius Cruzeiro via AMBER (Sat Aug 09 2025 - 12:05:56 PDT)
[AMBER] How to define pseudodihedral angle in the DISANG file for Umbrella Sampling Simulation in AMBER? Gourav Das via AMBER (Fri Aug 08 2025 - 02:27:11 PDT)
- Re: [AMBER] How to define pseudodihedral angle in the DISANG file for Umbrella Sampling Simulation in AMBER? Carlos Simmerling via AMBER (Fri Aug 08 2025 - 02:32:44 PDT)
- Re: [AMBER] How to define pseudodihedral angle in the DISANG file for Umbrella Sampling Simulation in AMBER? Carlos Simmerling via AMBER (Fri Aug 08 2025 - 05:12:18 PDT)
[AMBER] .rst file not generated during heating step, simulation stops YASHIKA . via AMBER (Fri Aug 08 2025 - 23:03:45 PDT)
- Re: [AMBER] .rst file not generated during heating step, simulation stops David A Case via AMBER (Sat Aug 09 2025 - 07:01:10 PDT)
[AMBER] Error: Incompatible CUDA and GNU versions when trying to install Amber Cherry, Kendall via AMBER (Mon Aug 11 2025 - 14:21:06 PDT)
- Re: [AMBER] Error: Incompatible CUDA and GNU versions when trying to install Amber Li, Zhen via AMBER (Tue Aug 12 2025 - 08:32:34 PDT)
- Re: [AMBER] Error: Incompatible CUDA and GNU versions when trying to install Amber David A Case via AMBER (Tue Aug 12 2025 - 10:23:09 PDT)
[AMBER] LEaP inconsistent peripheral improper atom ordering Evan Pretti via AMBER (Mon Aug 11 2025 - 15:57:27 PDT)
- Re: [AMBER] LEaP inconsistent peripheral improper atom ordering Daniel Roe via AMBER (Tue Aug 12 2025 - 06:02:34 PDT)
[AMBER] Parameterizing cisplatin with MCPB.py Stefan Ivanov via AMBER (Wed Aug 13 2025 - 05:09:31 PDT)
- Re: [AMBER] Parameterizing cisplatin with MCPB.py Charo del Genio via AMBER (Wed Aug 13 2025 - 05:27:15 PDT)

Amber Archive Aug 2025 by thread