Amber Archive Dec 2024 by date

96 messages: Starting Sat Nov 30 2024 - 21:31:19 PST, Ending Tue Dec 31 2024 - 11:00:02 PST
This period: Most recent messages
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Saturday, 30 November 2024
- [AMBER] Syntax error in Gaussian Input file for ONIOM calculation Priyasha Majee via AMBER
Wednesday, 4 December 2024
- [AMBER] pdb4amber works error LI An-Bang via AMBER
- Re: [AMBER] pdb4amber works error Osadchey Brown, Reilly via AMBER
- Re: [AMBER] pdb4amber works error Carlos Simmerling via AMBER
- Re: [AMBER] pdb4amber works error David A Case via AMBER
- Re: [AMBER] pdb4amber works error David A Case via AMBER
- [AMBER] LiGaMD cannot apply boost potential applied Marlon Flor via AMBER
Thursday, 5 December 2024
- Re: [AMBER] LiGaMD cannot apply boost potential applied Carlos Simmerling via AMBER
- [AMBER] PCA of WT vs mutants Ramdhan,Peter A via AMBER
- Re: [AMBER] PCA of WT vs mutants Christina Bergonzo via AMBER
- Re: [AMBER] LiGaMD cannot apply boost potential applied Christian Seitz via AMBER
Friday, 6 December 2024
- [AMBER] viparr-convert-amber error Zeyu Lin via AMBER
- [AMBER] Convergence failure MCPB.py/GAMESS Dutta, Ankita via AMBER
- Re: [AMBER] Convergence failure MCPB.py/GAMESS James Kress via AMBER
- Re: [AMBER] Convergence failure MCPB.py/GAMESS James Kress via AMBER
- [AMBER] Difficulty running quick Osman, Roman via AMBER
- Re: [AMBER] Difficulty running quick Goetz, Andreas via AMBER
Saturday, 7 December 2024
- [AMBER] teLeap: Error! Atom named CA from SEJ did not match ! SUBHASMITA MAHAPATRA MAHAPATRA via AMBER
- Re: [AMBER] viparr-convert-amber error Carlos Simmerling via AMBER
Sunday, 8 December 2024
- [AMBER] amber TI edgembar | py generated from xml contains inf Tongtong Li via AMBER
- [AMBER] teLeap: Error! SUBHASMITA MAHAPATRA MAHAPATRA via AMBER
Monday, 9 December 2024
- Re: [AMBER] Error when starting PPI GaMD simulation Stéphane Téletchéa via AMBER
- Re: [AMBER] imaging membrane system Stéphane Téletchéa via AMBER
- [AMBER] Issue with teLeap parameter generation for covalent bond SUBHASMITA MAHAPATRA MAHAPATRA via AMBER
- [AMBER] Issue Running parmchk2 in AmberTools24 on Ubuntu 24.04 ZHENG, siqiong \[Student\] via AMBER
- Re: [AMBER] imaging membrane system Daniel Roe via AMBER
- Re: [AMBER] Issue with teLeap parameter generation for covalent bond Dr. Anselm Horn via AMBER
- Re: [AMBER] amber TI edgembar | py generated from xml contains inf Timothy Giese via AMBER
- Re: [AMBER] Issue with teLeap parameter generation for covalent bond SUBHASMITA MAHAPATRA MAHAPATRA via AMBER
- Re: [AMBER] Error when starting PPI GaMD simulation Nikolay N. Kuzmich via AMBER
- Re: [AMBER] Issue Running parmchk2 in AmberTools24 on Ubuntu 24.04 David A Case via AMBER
- Re: [AMBER] amber TI edgembar | py generated from xml contains inf Timothy Giese via AMBER
- [AMBER] Calculate rmsd for different residue ranges 百毒不侵√ via AMBER
- [AMBER] Question about running OMP ( openmp ) versions of amber Wong, Sergio E. via AMBER
Tuesday, 10 December 2024
- Re: [AMBER] Calculate rmsd for different residue ranges Dr. Anselm Horn via AMBER
- [AMBER] Configuration of NSTLIM Pablo Galaz-Davison via AMBER
- Re: [AMBER] Configuration of NSTLIM Carlos Simmerling via AMBER
- Re: [AMBER] imaging membrane system Téletchéa Stéphane via AMBER
- Re: [AMBER] amber TI edgembar | py generated from xml contains inf Timothy Giese via AMBER
Wednesday, 11 December 2024
- Re: [AMBER] imaging membrane system Daniel Roe via AMBER
- [AMBER] Fw: amber TI edgembar | py generated from xml contains inf Tongtong Li via AMBER
Thursday, 12 December 2024
- [AMBER] Fwd: Amber Install Berkley Young via AMBER
- [AMBER] Compiling error of Amber24 on Linux Jiang, Wei via AMBER
- Re: [AMBER] Compiling error of Amber24 on Linux Masoud Keramati via AMBER
- Re: [AMBER] Compiling error of Amber24 on Linux Jiang, Wei via AMBER
- Re: [AMBER] Compiling error of Amber24 on Linux Masoud Keramati via AMBER
- [AMBER] Calculating dipole vector for charged solvent? Delwakkada Liyanage, Senal Dinuka via AMBER
Friday, 13 December 2024
- [AMBER] TI calculations VERONICA MARTIN HERNANDEZ via AMBER
- Re: [AMBER] Compiling error of Amber24 on Linux Jiang, Wei via AMBER
- Re: [AMBER] Convergence failure MCPB.py/GAMESS James Kress via AMBER
Saturday, 14 December 2024
- [AMBER] License for pmemd.cuda Jiang, Wei via AMBER
- Re: [AMBER] License for pmemd.cuda David A Case via AMBER
- Re: [AMBER] Question about running OMP ( openmp ) versions of amber David A Case via AMBER
- Re: [AMBER] Fwd: Amber Install David A Case via AMBER
- Re: [AMBER] License for pmemd.cuda Adrian Roitberg via AMBER
- Re: [AMBER] Compiling error of Amber24 on Linux David A Case via AMBER
- Re: [AMBER] License for pmemd.cuda Jiang, Wei via AMBER
- Re: [AMBER] TI calculations David A Case via AMBER
- Re: [AMBER] Calculating dipole vector for charged solvent? David A Case via AMBER
- Re: [AMBER] License for pmemd.cuda Jiang, Wei via AMBER
- Re: [AMBER] License for pmemd.cuda David A Case via AMBER
Sunday, 15 December 2024
- [AMBER] How to deal with heme(CPDI) -CYS in tleap 王宇轩 via AMBER
Monday, 16 December 2024
- [AMBER] AMBER TI calculations VERONICA MARTIN HERNANDEZ via AMBER
- [AMBER] 回复: AMBER TI calculations Huang ZiJian via AMBER
- Re: [AMBER] AMBER TI calculations Daniel Roe via AMBER
- [AMBER] Peptidoglycan Angelo Gallo via AMBER
- [AMBER] What is meant by buffer overflow message when running tleap Debarati DasGupta via AMBER
- Re: [AMBER] What is meant by buffer overflow message when running tleap Debarati DasGupta via AMBER
- Re: [AMBER] Peptidoglycan PD Dr. Anselm Horn via AMBER
- Re: [AMBER] What is meant by buffer overflow message when running tleap Timothy Giese via AMBER
- Re: [AMBER] What is meant by buffer overflow message when running tleap David A Case via AMBER
- Re: [AMBER] How to deal with heme(CPDI) -CYS in tleap David A Case via AMBER
Tuesday, 17 December 2024
- [AMBER] Accelerated Molecular Dynamics (aMD) Dulal Mondal via AMBER
- [AMBER] Problem in covalently attached ligands Airy Sanjeev via AMBER
- Re: [AMBER] Accelerated Molecular Dynamics (aMD) Masoud Keramati via AMBER
- [AMBER] Questions about the tishake flag for TI Anna Herz via AMBER
- Re: [AMBER] Accelerated Molecular Dynamics (aMD) Dulal Mondal via AMBER
- [AMBER] Custom Residue Parameterization for Cyclic peptide Zeyu Lin via AMBER
- [AMBER] Regarding QM-MM_MD setup calculation: Kankana Bhattacharjee via AMBER
Wednesday, 18 December 2024
- [AMBER] Regarding QM-MM-MD setup using amber22: Kankana Bhattacharjee via AMBER
- Re: [AMBER] Regarding QM-MM-MD setup using amber22: SATYAJIT KHATUA via AMBER
Thursday, 19 December 2024
- Re: [AMBER] Regarding QM-MM_MD setup calculation: David A Case via AMBER
- Re: [AMBER] Peptidoglycan David A Case via AMBER
- [AMBER] Question about obtaining PMEMD.CUDA for AMBER 2024 Angel David Montijo Valdés via AMBER
- Re: [AMBER] Question about obtaining PMEMD.CUDA for AMBER 2024 David A Case via AMBER
Saturday, 21 December 2024
- [AMBER] Fix cpptraj command to add residue number to output Abdelrahman, Noureen via AMBER
Sunday, 22 December 2024
- Re: [AMBER] Fix cpptraj command to add residue number to output Hocine El Khaoudi Enyoury via AMBER
Thursday, 26 December 2024
- [AMBER] Regarding amber24 installation issue: Kankana Bhattacharjee via AMBER
- Re: [AMBER] Regarding amber24 installation issue: David A Case via AMBER
- [AMBER] CPPTRAJ grid output units Cianna Calia via AMBER
Sunday, 29 December 2024
- [AMBER] amber24 cuda install errors James Kress via AMBER
- Re: [AMBER] amber24 cuda install errors David A Case via AMBER
Tuesday, 31 December 2024
- [AMBER] Regarding polarizable continuum solvation model: Kankana Bhattacharjee via AMBER
- [AMBER] Antechamber setup for PDS Debarati DasGupta via AMBER
- Re: [AMBER] Antechamber setup for PDS Adrian Roitberg via AMBER
- Re: [AMBER] Antechamber setup for PDS Debarati DasGupta via AMBER

Last message date: Tue Dec 31 2024 - 11:00:02 PST
Archived on: Mon Feb 03 2025 - 05:56:16 PST