Amber Archive Dec 2019 by thread
- [AMBER] On deprotonated Tyr David Sáez (Sun Dec 01 2019 - 20:39:54 PST)
- [AMBER] sequence command ankita mehta (Sun Dec 01 2019 - 22:28:03 PST)
- [AMBER] Charge distribution in molecule Aashish Bhatt (Sun Dec 01 2019 - 23:04:21 PST)
- [AMBER] cpptraj RMS calculations appear to be incorrect Bellesis, Andrew G (Mon Dec 02 2019 - 09:02:50 PST)
- [AMBER] Chemical education for MD articles Lod King (Mon Dec 02 2019 - 12:21:12 PST)
- [AMBER] 34th Molecular Modelling Workshop (MMWS) February 17-19, 2020 in Erlangen, Germany Dr. Anselm Horn (Tue Dec 03 2019 - 01:56:09 PST)
- [AMBER] TI support for CHARMM FF Jose Christian Flores Canales (Tue Dec 03 2019 - 04:58:02 PST)
- Re: [AMBER] Obtaining excess molar volumes using Molecular Dynamics David Case (Tue Dec 03 2019 - 05:51:28 PST)
- Re: [AMBER] help on this error Debarati DasGupta (Tue Dec 03 2019 - 14:06:17 PST)
- [AMBER] Table 21.1 in Thermodynamic Integration section of amber18 manual Debarati DasGupta (Wed Dec 04 2019 - 07:17:42 PST)
- [AMBER] Sequential equilibration versus parallel runs in TI Debarati DasGupta (Wed Dec 04 2019 - 07:45:05 PST)
- Re: [AMBER] TI on gpus Debarati DasGupta (Wed Dec 04 2019 - 10:01:14 PST)
- [AMBER] Fixed Minimization emanuele falbo (Thu Dec 05 2019 - 06:15:49 PST)
- [AMBER] TI calculation steps Debarati DasGupta (Thu Dec 05 2019 - 12:24:56 PST)
- [AMBER] Equilibriation input file for TI Debarati DasGupta (Thu Dec 05 2019 - 14:35:23 PST)
- [AMBER] TI calculations linear scaling of atoms! Debarati DasGupta (Thu Dec 05 2019 - 15:01:21 PST)
- [AMBER] fxyz and outxyz Baker, Joseph (Thu Dec 05 2019 - 19:09:11 PST)
- [AMBER] Warning: 2 or more molecules (3 and 4) share residue numbers (1003). David Sáez (Thu Dec 05 2019 - 21:08:38 PST)
- [AMBER] Conference Announcement: Molecular Modeling Workshop, Feb 17-19, 2020 in Erlangen, Germany Dr. Anselm Horn (Fri Dec 06 2019 - 01:41:01 PST)
- [AMBER] How can I get solute-solute energy information? Zhonghua Xia (Fri Dec 06 2019 - 04:04:38 PST)
- [AMBER] How can I get solute-solute energy information? Zhonghua Xia (Fri Dec 06 2019 - 05:36:35 PST)
- [AMBER] Segmentation Fault when running constant pH Replica Exchange on GPUs Hofer, Florian (Fri Dec 06 2019 - 07:52:01 PST)
- [AMBER] Problems adding molecule on Metal-Water system Lucas Bandeira (Fri Dec 06 2019 - 11:22:44 PST)
- [AMBER] problem of compiling Albert (Sat Dec 07 2019 - 20:23:04 PST)
- [AMBER] Timestep (dt) in TI calculations Debarati DasGupta (Sun Dec 08 2019 - 06:30:03 PST)
- Re: [AMBER] PrmtopError: Complex natom != receptor natom + ligand natom Bill Ross (Sun Dec 08 2019 - 18:02:59 PST)
- [AMBER] error MYRIAN TORRES RICO (Tue Dec 10 2019 - 04:27:02 PST)
- [AMBER] Molecular dynamics of tripeptide like organic molecule Debasish Mandal (Tue Dec 10 2019 - 20:18:56 PST)
- [AMBER] ff19SB with end-caps pmemd.cuda problem Pavlína Pokorná (Wed Dec 11 2019 - 02:37:55 PST)
- [AMBER] Found an invalid periodicity in the prmtop file : MMPBSA venkat (Wed Dec 11 2019 - 08:13:02 PST)
- [AMBER] GPU installation error Sruthi Sudhakar (Wed Dec 11 2019 - 09:47:45 PST)
- [AMBER] Time shift. Petro (Wed Dec 11 2019 - 23:40:55 PST)
- [AMBER] User-defined high precision AMBER trajectory file formats Xin Bai (Thu Dec 12 2019 - 03:12:01 PST)
- [AMBER] Found an invalid periodicity in the prmtop file : MMPBSA venkat (Thu Dec 12 2019 - 03:31:40 PST)
- [AMBER] Ti on pmemd.CUDA Hosein Geraili Daronkola (Thu Dec 12 2019 - 07:22:04 PST)
- [AMBER] Flexible protein! Debarati DasGupta (Thu Dec 12 2019 - 10:26:20 PST)
- [AMBER] GaMD problems with different computers. Seibold, Steve Allan (Thu Dec 12 2019 - 11:12:25 PST)
- [AMBER] mm-gbsa with more than one receptor Neha Gandhi (Thu Dec 12 2019 - 15:50:11 PST)
- [AMBER] mm-gbsa with more than one receptor Liao (Thu Dec 12 2019 - 17:42:08 PST)
- [AMBER] mm-gbsa with more than one receptor Liao (Thu Dec 12 2019 - 17:37:41 PST)
- [AMBER] mm-gbsa with more than one receptor Liao (Thu Dec 12 2019 - 17:39:01 PST)
- [AMBER] mm-gbsa with more than one receptor Liao (Thu Dec 12 2019 - 17:42:54 PST)
- [AMBER] MM-GBSA error Rui Chen (Thu Dec 12 2019 - 18:31:57 PST)
- [AMBER] intel compiling failed Albert (Thu Dec 12 2019 - 19:47:28 PST)
- [AMBER] Error when running MD maya nair (Fri Dec 13 2019 - 09:51:34 PST)
- [AMBER] Any way of making protein rigid in MD simulation? Liao (Fri Dec 13 2019 - 20:59:40 PST)
- [AMBER] FESetup Debarati DasGupta (Sun Dec 15 2019 - 14:14:34 PST)
- [AMBER] Virtual box with imin = 1 or imin = 5 Jerome Eberhardt (Sun Dec 15 2019 - 21:24:26 PST)
- [AMBER] NVT equilibriation followed by NPT in TI Debarati DasGupta (Mon Dec 16 2019 - 06:30:48 PST)
- [AMBER] question about Tleap Rui Chen (Mon Dec 16 2019 - 10:19:27 PST)
- [AMBER] Any idea on this error and how to troubleshoot Debarati DasGupta (Mon Dec 16 2019 - 10:43:46 PST)
- [AMBER] MMGBSA script file Rui Chen (Mon Dec 16 2019 - 16:27:40 PST)
- [AMBER] nuc.nab:no such file found error Sruthi Sudhakar (Mon Dec 16 2019 - 20:44:15 PST)
- [AMBER] tip4p-d water forcefield parameters Luca Codutti (Tue Dec 17 2019 - 08:03:25 PST)
- [AMBER] If there is a method that can just use the soft-core potential for VDW interaction but not for electrostatic part wangjianing_mail (Tue Dec 17 2019 - 22:17:07 PST)
- [AMBER] Attaching Methoxy (OMe) Capping at C-terminal Pallab Dutta (Thu Dec 19 2019 - 04:15:47 PST)
- [AMBER] cpptraj.MPI versus cpptraj Debarati DasGupta (Thu Dec 19 2019 - 11:51:47 PST)
- [AMBER] amber 18 installation error Saikat Pal (Thu Dec 19 2019 - 22:46:05 PST)
- [AMBER] amber update issue Saikat Pal (Thu Dec 19 2019 - 23:39:52 PST)
- Re: [AMBER] imin=5 fails to produce output Casalini Tommaso (Fri Dec 20 2019 - 01:29:12 PST)
- [AMBER] Amber18 installation problem Billiot, Eugene (Fri Dec 20 2019 - 13:22:02 PST)
- Re: [AMBER] Amber18 download instructions Billiot, Eugene (Fri Dec 20 2019 - 14:10:18 PST)
- [AMBER] How to use AMBER on Supercomputer MUHAMMAD KHATTAB FATHI KHATTAB (Fri Dec 20 2019 - 22:49:44 PST)
- [AMBER] How to deal with Dummy atoms of 4-coordinated Zinc in QM/MM Qing Lv (Fri Dec 20 2019 - 23:13:44 PST)
- [AMBER] Definition of restraints to avoid ligand aggregation Giulio RASTELLI (Sun Dec 22 2019 - 08:06:16 PST)
- [AMBER] AMBER 18 cuda installation Saikat Pal (Mon Dec 23 2019 - 05:33:19 PST)
- [AMBER] MMGB/PBSA parameters Rui Chen (Mon Dec 23 2019 - 09:12:44 PST)
- [AMBER] Minimization equilibration of protein+ligand prior to TI setup Debarati DasGupta (Mon Dec 23 2019 - 12:33:03 PST)
- [AMBER] Amber18-bash: logFile: command not found... 辛志宏 (Mon Dec 23 2019 - 19:03:49 PST)
- [AMBER] Error during installation ARITRA MITRA (Tue Dec 24 2019 - 01:23:12 PST)
- [AMBER] Interaction entropy program （Geng Dong） 东庚 (Wed Dec 25 2019 - 17:52:55 PST)
- [AMBER] Tleap naming problem Rui Chen (Wed Dec 25 2019 - 19:53:49 PST)
- [AMBER] Which language could tleap know? mwli.mail.ustc.edu.cn (Thu Dec 26 2019 - 00:06:22 PST)
- [AMBER] Parameters to be used for protein in implicit solvent SHAUNAK BADANI (Fri Dec 27 2019 - 03:54:08 PST)
- [AMBER] some queries Ayesha Fatima (Sun Dec 29 2019 - 08:41:39 PST)
- [AMBER] reinstalling Amber 16 + Ambertools 16 on a Mac erik zuiderweg (Mon Dec 30 2019 - 03:38:59 PST)
- [AMBER] Figured Amber 16 installation on Mac Erik Zuiderweg (Mon Dec 30 2019 - 04:44:19 PST)
- Last message date: Mon Dec 30 2019 - 06:30:04 PST
- Archived on: Fri Oct 11 2024 - 05:55:48 PDT
