Amber Archive Mar 2026: by thread

[AMBER] AmberTools bug in pyresp_gen.py Vlad via AMBER (Tue Mar 03 2026 - 15:57:38 PST)
- Re: [AMBER] AmberTools bug in pyresp_gen.py David A Case via AMBER (Tue Mar 03 2026 - 19:51:17 PST)
- Re: [AMBER] AmberTools bug in pyresp_gen.py David A Case via AMBER (Thu Mar 05 2026 - 19:49:41 PST)
Re: [AMBER] Imaging question Slimak, Stephen Rudolph via AMBER (Thu Mar 05 2026 - 15:21:40 PST)
[AMBER] OPC water model misread by NAMD Guillaume Petit via AMBER (Fri Mar 06 2026 - 00:18:45 PST)
- Re: [AMBER] OPC water model misread by NAMD Hector A. Baldoni via AMBER (Fri Mar 06 2026 - 04:44:58 PST)
[AMBER] AMBER MD web site down? Téletchéa Stéphane via AMBER (Tue Mar 10 2026 - 01:18:42 PDT)
- Re: [AMBER] AMBER MD web site down? Anders Frederiksen via AMBER (Tue Mar 10 2026 - 01:24:38 PDT)
  - Re: [AMBER] AMBER MD web site down? Maria Nagan via AMBER (Tue Mar 10 2026 - 06:01:31 PDT)
- Re: [AMBER] AMBER MD web site down? David A Case via AMBER (Wed Mar 11 2026 - 07:47:59 PDT)
[AMBER] AmberTools25 Compilation Error Due to Python 3.13 and NumPy 1.26.4 Conflict Zihao Bai via AMBER (Tue Mar 10 2026 - 20:49:04 PDT)
- Re: [AMBER] AmberTools25 Compilation Error Due to Python 3.13 and NumPy 1.26.4 Conflict David A Case via AMBER (Wed Mar 11 2026 - 08:00:44 PDT)
[AMBER] Conflictions of ambertools25 installation 류종혁 via AMBER (Tue Mar 10 2026 - 23:43:06 PDT)
- Re: [AMBER] Conflictions of ambertools25 installation Skanda Sastry via AMBER (Wed Mar 11 2026 - 06:52:19 PDT)
- Re: [AMBER] Conflictions of ambertools25 installation David A Case via AMBER (Wed Mar 11 2026 - 08:03:41 PDT)
Re: [AMBER] pmemd24 problems with RTX5090 David A Case via AMBER (Wed Mar 11 2026 - 14:08:11 PDT)
Re: [AMBER] CUDA compilation after PLUMED patching Höfinger, Siegfried via AMBER (Fri Mar 13 2026 - 08:30:42 PDT)
[AMBER] Question about QM/MM TS optimization Ramdhan,Peter A via AMBER (Sun Mar 15 2026 - 14:35:36 PDT)
[AMBER] Parameters for inorganic pyrophosphate Jenny 148 via AMBER (Tue Mar 17 2026 - 12:50:08 PDT)
[AMBER] Hydration shells from MD simulations Ivana Nikšić-Franjić via AMBER (Wed Mar 18 2026 - 05:49:44 PDT)
- Re: [AMBER] Hydration shells from MD simulations Daniel Roe via AMBER (Thu Mar 19 2026 - 03:07:43 PDT)
[AMBER] Issue with Modified .mdl Charges Not Reflected in Generated .xvv (1D-RISM) angad sharma via AMBER (Wed Mar 18 2026 - 18:52:23 PDT)
[AMBER] Clarification on TI output (DV/DL, logdvdl, MBAR) and convergence in soft-core absolute free energy calculations Rahul Singal via AMBER (Thu Mar 19 2026 - 03:36:10 PDT)
[AMBER] best approaches to parameterize a small molecule Prithviraj Nandigrami via AMBER (Thu Mar 19 2026 - 05:42:33 PDT)
[AMBER] Possible caveats in using HMR with ZAFF modeling saverio lemme via AMBER (Tue Mar 24 2026 - 05:36:22 PDT)
[AMBER] PM6-ML in QM/MM via AMBER Schattenberg, Caspar via AMBER (Wed Mar 25 2026 - 01:21:37 PDT)
- Re: [AMBER] PM6-ML in QM/MM via AMBER Goetz, Andreas via AMBER (Wed Mar 25 2026 - 16:46:37 PDT)
[AMBER] Covalent warhead reactivity using QM workflows Debarati DasGupta via AMBER (Sat Mar 28 2026 - 11:10:30 PDT)
[AMBER] Ligand Prepartion ElBagoury, Abdulrahman Walid Attia Ibrahim via AMBER (Mon Mar 30 2026 - 00:49:03 PDT)
- Re: [AMBER] Ligand Prepartion Sarah Witzke via AMBER (Mon Mar 30 2026 - 06:23:01 PDT)
- Re: [AMBER] Ligand Prepartion David A Case via AMBER (Mon Mar 30 2026 - 07:43:20 PDT)
Re: [AMBER] [EXTERN] Re: Ligand Prepartion Téletchéa Stéphane via AMBER (Mon Mar 30 2026 - 10:04:30 PDT)
- Re: [AMBER] [EXTERN] Re: Ligand Prepartion ElBagoury, Abdulrahman Walid Attia Ibrahim via AMBER (Mon Mar 30 2026 - 11:01:44 PDT)
[AMBER] pmemd24 + ntt=9 Jones De Andrade via AMBER (Tue Mar 31 2026 - 10:51:41 PDT)
- Re: [AMBER] pmemd24 + ntt=9 Carlos Simmerling via AMBER (Tue Mar 31 2026 - 11:11:24 PDT)

Amber Archive Mar 2026 by thread