Amber Archive Aug 2023 by thread
- [AMBER] Extract energy change contribution for specific mutation from TI simulation. Fanyu Zhao via AMBER (Tue Aug 01 2023 - 03:38:49 PDT)
- [AMBER] The conversion between V and kcal/(mol*A*e) in external electric field. 郭 家藩 via AMBER (Tue Aug 01 2023 - 08:30:01 PDT)
- Re: [AMBER] Aligning MD snapshots excluding loops Daniel Roe via AMBER (Wed Aug 02 2023 - 07:17:19 PDT)
- [AMBER] Parallel AmberTools Build Error: mpi4py.MPI fails to build Meyer, Olivia \(meyerok\) via AMBER (Wed Aug 02 2023 - 10:58:28 PDT)
- [AMBER] Local structure index )LSI) help Zafar,Muhammad Saqlain via AMBER (Wed Aug 02 2023 - 23:04:21 PDT)
- [AMBER] constant pH MD constant pressure ERROR Amber 22 Mahdi Hassankalhori via AMBER (Thu Aug 03 2023 - 03:30:54 PDT)
- [AMBER] Probability density with respect to Local structure index (LSI) Zafar,Muhammad Saqlain via AMBER (Thu Aug 03 2023 - 09:03:43 PDT)
- [AMBER] Scientific Question_Debugging Maryam Foroozmehr via AMBER (Thu Aug 03 2023 - 09:55:35 PDT)
- [AMBER] Amber problem looking for help leveen via AMBER (Thu Aug 03 2023 - 18:54:30 PDT)
- [AMBER] weird simulation behavior when iwrap=1 Delwakkada Liyanage, Senal Dinuka via AMBER (Thu Aug 03 2023 - 19:11:18 PDT)
- Re: [AMBER] Problem with time records in cpout- files in REMD CpHMD simulation Elvira Tarasova via AMBER (Fri Aug 04 2023 - 13:50:15 PDT)
- [AMBER] CpHMD, membrane proteins Matthew Guberman-Pfeffer via AMBER (Fri Aug 04 2023 - 14:49:38 PDT)
- [AMBER] Question about Zinc ions Sayan Poddar via AMBER (Fri Aug 04 2023 - 23:29:36 PDT)
- [AMBER] DNA with two ligand molecules for MD maya nair via AMBER (Sat Aug 05 2023 - 05:12:21 PDT)
- [AMBER] Input file for Curve+ angad sharma via AMBER (Sat Aug 05 2023 - 12:57:27 PDT)
- [AMBER] sqm/mm FEP problem with lambda setting leveen via AMBER (Sat Aug 05 2023 - 17:43:59 PDT)
- [AMBER] Wrong results when using 4070Ti GPU Wang, Yin via AMBER (Mon Aug 07 2023 - 00:41:17 PDT)
- [AMBER] Error running minimization Ritwika Chatterjee via AMBER (Mon Aug 07 2023 - 04:46:43 PDT)
- [AMBER] Issue with deprecated np.float when using packmol-memgen Damas Joao CHST via AMBER (Tue Aug 08 2023 - 02:26:09 PDT)
- [AMBER] QMMM-FEP with sander.MPI 东庚 via AMBER (Tue Aug 08 2023 - 17:31:12 PDT)
- [AMBER] Regarding dU Force Field Priyasha Majee via AMBER (Wed Aug 09 2023 - 00:16:30 PDT)
- [AMBER] questions about AmberTools installation from source Damas Joao CHST via AMBER (Wed Aug 09 2023 - 01:37:51 PDT)
- [AMBER] SHAKE cannot be accomplished? Debarati DasGupta via AMBER (Wed Aug 09 2023 - 13:58:04 PDT)
- [AMBER] Regarding the compatibility of OL15 with protein-RNA-DNA complexes Sruthi Sudhakar via AMBER (Wed Aug 09 2023 - 23:45:05 PDT)
- [AMBER] Query regarding re-weighting in GaMD Munazzah Fatima Ansari via AMBER (Thu Aug 10 2023 - 00:15:23 PDT)
- [AMBER] Position Announcement: Postdoctoral Scientist Opportunity accuratefreeenergy--- via AMBER (Thu Aug 10 2023 - 08:36:06 PDT)
- [AMBER] Problems with post-processing MD simulation with non-standard residues m.bzowka m.bzowka via AMBER (Sat Aug 12 2023 - 01:41:49 PDT)
- [AMBER] the charges and atom numbers are mismatch for the standard model! Emilie Gerard via AMBER (Sat Aug 12 2023 - 10:05:06 PDT)
- [AMBER] Warning in compilation: integer conversion resulted in change of sign Marcos Verissimo Alves via AMBER (Mon Aug 14 2023 - 05:51:29 PDT)
- [AMBER] Error: Fast 3-point water residue, name and bond data incorrect! Derek M Shore via AMBER (Tue Aug 15 2023 - 17:18:59 PDT)
- [AMBER] Tetrahedral Order Parameter Q Zafar,Muhammad Saqlain via AMBER (Wed Aug 16 2023 - 00:33:16 PDT)
- [AMBER] Regarding-MMPBSA: Kankana Bhattacharjee via AMBER (Wed Aug 16 2023 - 04:58:10 PDT)
- [AMBER] MMPBSA-error: Kankana Bhattacharjee via AMBER (Thu Aug 17 2023 - 01:36:13 PDT)
- [AMBER] Blank frcmod file is generating KAJAL ABROL via AMBER (Thu Aug 17 2023 - 22:14:57 PDT)
- [AMBER] LEaP scripting amber--- via AMBER (Fri Aug 18 2023 - 09:17:42 PDT)
- [AMBER] Regarding error in the tleap output file KAJAL ABROL via AMBER (Sat Aug 19 2023 - 05:09:22 PDT)
- [AMBER] Simulation error when using pmemd.cuda Loftus, Alec via AMBER (Mon Aug 21 2023 - 11:57:20 PDT)
- [AMBER] Trouble installing MPI version - ./configure_mpich not found Kovács Richárd Dezső via AMBER (Tue Aug 22 2023 - 03:25:05 PDT)
- [AMBER] Benchmarks for new NVIDIA cards? Tucker Burgin via AMBER (Tue Aug 22 2023 - 11:21:17 PDT)
- [AMBER] Zinc ions bonded with Glutamic acid Sayan Poddar via AMBER (Tue Aug 22 2023 - 12:37:28 PDT)
- [AMBER] Applying external electric field in the simulation Markowska (Wed Aug 23 2023 - 03:56:25 PDT)
- [AMBER] Run problem in constant pH REMD in amber22 with pmemd.cuda.MPI in explicit solvent Dulal Mondal via AMBER (Wed Aug 23 2023 - 06:26:44 PDT)
- [AMBER] simulated annealing of DNA-ligand complex using NMR restrain Anirban Ghosh via AMBER (Wed Aug 23 2023 - 11:35:34 PDT)
- [AMBER] Question regarding PBC simulations with ions Prithviraj Nandigrami via AMBER (Wed Aug 23 2023 - 12:57:37 PDT)
- [AMBER] minimisation with pmemd.cuda Enrico Martinez via AMBER (Thu Aug 24 2023 - 08:07:04 PDT)
- [AMBER] Paths with spaces in cpptraj Mark Mackey via AMBER (Fri Aug 25 2023 - 09:40:29 PDT)
- [AMBER] MMPBSA-Nonpolar-solvation-energy-parameters: Kankana Bhattacharjee via AMBER (Fri Aug 25 2023 - 12:47:27 PDT)
- [AMBER] gamma_ln in simulated annealing Anirban Ghosh via AMBER (Sat Aug 26 2023 - 05:24:59 PDT)
- [AMBER] Adding new atom type in PARMCHK.DAT Priyasha Majee via AMBER (Mon Aug 28 2023 - 07:23:02 PDT)
- [AMBER] How to place extra point of charge to simulate sigma hole on halogens Friederike Leßmöllmann via AMBER (Mon Aug 28 2023 - 12:27:03 PDT)
- [AMBER] Compiling AMBER23 Javier O Sanlley-hernandez via AMBER (Mon Aug 28 2023 - 16:22:19 PDT)
- [AMBER] CpHMD run in explicit solvent in cuda Dulal Mondal via AMBER (Mon Aug 28 2023 - 23:17:15 PDT)
- [AMBER] H-bond analysis Neelanjana via AMBER (Tue Aug 29 2023 - 23:47:15 PDT)
- [AMBER] cpptraj: offset option for trajout Enrico Martinez via AMBER (Wed Aug 30 2023 - 03:36:17 PDT)
- [AMBER] ATTN, need revision Priyasha Majee via AMBER (Wed Aug 30 2023 - 04:08:57 PDT)
- [AMBER] Error in energy minimization step KAJAL ABROL via AMBER (Wed Aug 30 2023 - 05:59:45 PDT)
- [AMBER] Membrane protein tutorial: dimensions of the system Enrico Martinez via AMBER (Thu Aug 31 2023 - 06:24:32 PDT)
- [AMBER] Cross Correlation Analysis Shah, Tejas V. via AMBER (Thu Aug 31 2023 - 13:21:45 PDT)
- Last message date: Thu Aug 31 2023 - 13:30:02 PDT
- Archived on: Fri Apr 26 2024 - 05:56:20 PDT
