Amber Archive Jun 2021 by thread
242 messages
:
Starting
Tue Jun 01 2021 - 06:30:03 PDT,
Ending
Wed Jun 30 2021 - 20:30:02 PDT
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Re: [AMBER] Error in pca analysis
Daniel Roe
(Tue Jun 01 2021 - 06:03:11 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Tue Jun 01 2021 - 06:51:52 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Tue Jun 01 2021 - 12:22:59 PDT)
Re: [AMBER] Error in pca analysis
Daniel Roe
(Wed Jun 02 2021 - 11:02:18 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Wed Jun 02 2021 - 11:28:57 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Fri Jun 11 2021 - 23:41:41 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Sat Jun 12 2021 - 14:16:10 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Tue Jun 15 2021 - 20:57:22 PDT)
Re: [AMBER] Error in pca analysis
Daniel Roe
(Wed Jun 16 2021 - 06:18:39 PDT)
Re: [AMBER] Error in pca analysis
Dr. Anselm Horn
(Thu Jun 17 2021 - 02:21:40 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Thu Jun 17 2021 - 04:22:36 PDT)
Re: [AMBER] Error in pca analysis
Daniel Roe
(Thu Jun 17 2021 - 08:06:12 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Thu Jun 17 2021 - 09:06:40 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Fri Jun 18 2021 - 23:12:37 PDT)
Re: [AMBER] Error in pca analysis
Daniel Roe
(Mon Jun 21 2021 - 07:33:07 PDT)
Re: [AMBER] Error in pca analysis
Sruthi Sudhakar
(Fri Jun 25 2021 - 22:53:16 PDT)
[AMBER] Identical results from thermodynamics integration runs
zz sheng
(Tue Jun 01 2021 - 08:43:55 PDT)
Re: [AMBER] Identical results from thermodynamics integration runs
Adrian Roitberg
(Tue Jun 01 2021 - 09:06:16 PDT)
Re: [AMBER] Identical results from thermodynamics integration runs
zz sheng
(Tue Jun 01 2021 - 09:14:30 PDT)
Re: [AMBER] APR- Umbrella sampling of Receptor- ligand complex
Rana Rehan Khalid
(Tue Jun 01 2021 - 09:48:07 PDT)
[AMBER] radiopt=1 in not working in MMPBSA.py
Abdul Basit
(Tue Jun 01 2021 - 10:34:41 PDT)
Re: [AMBER] radiopt=1 in not working in MMPBSA.py
Ray Luo
(Tue Jun 01 2021 - 11:57:31 PDT)
Re: [AMBER] xleap
Wu Xu
(Tue Jun 01 2021 - 12:04:20 PDT)
[AMBER] Nastruct reference file format
Robert Molt
(Tue Jun 01 2021 - 13:58:12 PDT)
[AMBER] A40 vs A5000
Fabian Glaser
(Wed Jun 02 2021 - 05:45:55 PDT)
[AMBER] Running cpptraj in hpc
Jenny 148
(Wed Jun 02 2021 - 08:27:13 PDT)
Re: [AMBER] Running cpptraj in hpc
Daniel Roe
(Wed Jun 02 2021 - 10:48:40 PDT)
[AMBER] Regarding MMPBSA calculation
Rinsha Chk
(Wed Jun 02 2021 - 10:42:58 PDT)
Re: [AMBER] Regarding MMPBSA calculation
ABDUL BASIT
(Wed Jun 02 2021 - 12:20:38 PDT)
[AMBER] position coordinate precision
Lambach, Lauren
(Wed Jun 02 2021 - 12:46:46 PDT)
Re: [AMBER] position coordinate precision
Daniel Roe
(Wed Jun 02 2021 - 13:06:54 PDT)
Re: [AMBER] position coordinate precision
Daniel Roe
(Wed Jun 02 2021 - 13:09:50 PDT)
Re: [AMBER] position coordinate precision
Lambach, Lauren
(Wed Jun 02 2021 - 14:55:31 PDT)
Re: [AMBER] position coordinate precision
Carlos Simmerling
(Wed Jun 02 2021 - 13:40:02 PDT)
[AMBER] gti_add_sc
Holly Freedman
(Thu Jun 03 2021 - 11:02:56 PDT)
Re: [AMBER] CMAP topology flag skipped
Daniel Roe
(Fri Jun 04 2021 - 06:20:35 PDT)
Re: [AMBER] CMAP topology flag skipped
Loki
(Fri Jun 04 2021 - 07:57:13 PDT)
Re: [AMBER] CMAP topology flag skipped
Daniel Roe
(Fri Jun 11 2021 - 11:40:36 PDT)
Re: [AMBER] CMAP topology flag skipped
Loki
(Thu Jun 10 2021 - 02:42:40 PDT)
[AMBER] Nastruct reference file format
Robert Molt
(Fri Jun 04 2021 - 08:42:27 PDT)
Re: [AMBER] Nastruct reference file format
Daniel Roe
(Fri Jun 04 2021 - 10:30:57 PDT)
[AMBER] Query on Rmsd between clusters and population
Athena N
(Fri Jun 04 2021 - 10:00:06 PDT)
[AMBER] Adding several Helium atoms to a Lipid bilayer structure in AMBER
Maghsoud, Yazdan
(Fri Jun 04 2021 - 16:12:45 PDT)
Re: [AMBER] Adding several Helium atoms to a Lipid bilayer structure in AMBER
David A Case
(Wed Jun 09 2021 - 06:08:40 PDT)
[AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference.
Akinyemi Omoniyi
(Sat Jun 05 2021 - 06:22:17 PDT)
Re: [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference.
David A Case
(Sat Jun 05 2021 - 09:28:39 PDT)
Re: [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference.
Akinyemi Omoniyi
(Sat Jun 05 2021 - 15:15:00 PDT)
Re: [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference.
David A Case
(Sun Jun 06 2021 - 05:18:44 PDT)
[AMBER] Possible impact of cryptomining limitations on new NVidia GPUs on pmemd performances
Pietro Amodeo
(Sun Jun 06 2021 - 01:28:40 PDT)
[AMBER] How to fix the numbering of amino acid that got shifted in topology file that created in amber Tleap
priya murugan
(Sun Jun 06 2021 - 21:11:34 PDT)
Re: [AMBER] How to fix the numbering of amino acid that got shifted in topology file that created in amber Tleap
Dr. Anselm Horn
(Mon Jun 07 2021 - 00:42:34 PDT)
Re: [AMBER] How to fix the numbering of amino acid that got shifted in topology file that created in amber Tleap
David A Case
(Mon Jun 07 2021 - 04:46:50 PDT)
Re: [AMBER] How to fix the numbering of amino acid that got shifted in topology file that created in amber Tleap
Daniel Roe
(Mon Jun 07 2021 - 07:10:00 PDT)
[AMBER] Question about ff14SB parameters/atom types for TYR
Dr. Anselm Horn
(Tue Jun 08 2021 - 02:56:36 PDT)
Re: [AMBER] Question about ff14SB parameters/atom types for TYR
Carlos Simmerling
(Tue Jun 08 2021 - 11:19:30 PDT)
[AMBER] [MCPB.py]_KeyError: 'HZ2'
sabrine kh
(Mon Jun 07 2021 - 04:59:00 PDT)
Re: [AMBER] [MCPB.py]_KeyError: 'HZ2'
Pengfei Li
(Tue Jun 08 2021 - 19:14:26 PDT)
[AMBER] What does the UVV file output for a LJ only system and why cant I recreate it?
Daniel Fowles
(Mon Jun 07 2021 - 04:59:26 PDT)
Re: [AMBER] What does the UVV file output for a LJ only system and why cant I recreate it?
David A Case
(Wed Jun 09 2021 - 05:59:07 PDT)
[AMBER] [MCPB.py]_KeyError: 'HZ3'
sabrine kh
(Mon Jun 07 2021 - 05:03:25 PDT)
Re: [AMBER] [MCPB.py]_KeyError: 'HZ3'
Gustaf Olsson
(Mon Jun 07 2021 - 05:26:57 PDT)
Re: [AMBER] [MCPB.py]_KeyError: 'HZ3'
sabrine kh
(Mon Jun 07 2021 - 08:40:48 PDT)
Re: [AMBER] [MCPB.py]_KeyError: 'HZ3'
sabrine kh
(Tue Jun 08 2021 - 06:16:42 PDT)
Re: [AMBER] [MCPB.py]_KeyError: 'HZ3'
Gustaf Olsson
(Tue Jun 08 2021 - 06:46:26 PDT)
[AMBER] about pytraj/cpptraj
aishen
(Mon Jun 07 2021 - 08:18:41 PDT)
Re: [AMBER] about pytraj/cpptraj
David A Case
(Mon Jun 07 2021 - 11:30:55 PDT)
[AMBER] knlskintest error when using HMR with 4fs
Neville Bethel
(Mon Jun 07 2021 - 09:48:53 PDT)
Re: [AMBER] knlskintest error when using HMR with 4fs
David A Case
(Mon Jun 07 2021 - 11:47:40 PDT)
Re: [AMBER] knlskintest error when using HMR with 4fs
Neville Bethel
(Thu Jun 10 2021 - 15:30:47 PDT)
[AMBER] NAB superimpose issue
Mandar Kulkarni
(Mon Jun 07 2021 - 14:52:04 PDT)
Re: [AMBER] NAB superimpose issue
David A Case
(Tue Jun 08 2021 - 10:07:03 PDT)
Re: [AMBER] NAB superimpose issue
Mandar Kulkarni
(Thu Jun 10 2021 - 02:07:38 PDT)
Re: [AMBER] NAB superimpose issue
David A Case
(Thu Jun 10 2021 - 05:56:38 PDT)
Re: [AMBER] NAB superimpose issue
Mandar Kulkarni
(Thu Jun 10 2021 - 06:39:43 PDT)
Re: [AMBER] NAB superimpose issue
Mandar Kulkarni
(Thu Jun 10 2021 - 13:44:55 PDT)
Re: [AMBER] NAB superimpose issue
David A Case
(Fri Jun 11 2021 - 06:44:42 PDT)
Re: [AMBER] NAB superimpose issue
Mandar Kulkarni
(Sat Jun 12 2021 - 02:01:24 PDT)
[AMBER] Pressure tensor components in the GPU code.
James Moraes de Almeida
(Mon Jun 07 2021 - 15:06:23 PDT)
[AMBER] Error in calculating pair distribution function
Umesh Roy
(Mon Jun 07 2021 - 21:11:42 PDT)
[AMBER] Incomplete trajectory due to calculation halted error
Razil Tahir
(Tue Jun 08 2021 - 12:07:35 PDT)
Re: [AMBER] Incomplete trajectory due to calculation halted error
David A Case
(Wed Jun 09 2021 - 05:48:59 PDT)
[AMBER] tleap error creating prmtop file
Vaibhav Dixit
(Wed Jun 09 2021 - 03:17:00 PDT)
Re: [AMBER] tleap error creating prmtop file
Carlos Simmerling
(Wed Jun 09 2021 - 04:10:44 PDT)
[AMBER] Error in pdb4amber for AmberTools21
Bhattacharjee, Sinjini
(Wed Jun 09 2021 - 06:26:09 PDT)
Re: [AMBER] Error in pdb4amber for AmberTools21
David A Case
(Wed Jun 09 2021 - 07:13:16 PDT)
[AMBER] Pressure tensor components in the GPU code.
James Almeida
(Wed Jun 09 2021 - 06:36:21 PDT)
Re: [AMBER] Error: Could not open file frcmod.ions1lm_126_hfe_opc: not found
Pengfei Li
(Wed Jun 09 2021 - 15:52:32 PDT)
[AMBER] pKa Calculation using PMEMD
Monika Pareek
(Wed Jun 09 2021 - 23:07:14 PDT)
Re: [AMBER] pKa Calculation using PMEMD
David A Case
(Thu Jun 10 2021 - 05:06:47 PDT)
[AMBER] Some Problems by using NAB of AmberTools21 to model Circle-DNA
韩正威
(Thu Jun 10 2021 - 00:17:05 PDT)
Re: [AMBER] Some Problems by using NAB of AmberTools21 to model Circle-DNA
David A Case
(Thu Jun 10 2021 - 05:44:54 PDT)
[AMBER] The code for modeling circular DNA is in the attachment
韩正威
(Thu Jun 10 2021 - 00:19:35 PDT)
[AMBER] TypeError: %c requires int or char
Computational Chemistry
(Thu Jun 10 2021 - 06:20:43 PDT)
Re: [AMBER] TypeError: %c requires int or char
David A Case
(Thu Jun 10 2021 - 07:17:19 PDT)
Re: [AMBER] TypeError: %c requires int or char
Bhattacharjee, Sinjini
(Thu Jun 10 2021 - 07:31:55 PDT)
[AMBER] an illegal memory access
Reza Esmaeeli
(Thu Jun 10 2021 - 07:12:48 PDT)
Re: [AMBER] an illegal memory access
David A Case
(Thu Jun 10 2021 - 13:00:08 PDT)
[AMBER] To increase timesteps in MD simulations
Syeda Amna Arshi
(Thu Jun 10 2021 - 08:05:16 PDT)
Re: [AMBER] To increase timesteps in MD simulations
Carlos Simmerling
(Thu Jun 10 2021 - 08:51:03 PDT)
[AMBER] Norleucine in ff99sb_ildn?
Kenneth Huang
(Thu Jun 10 2021 - 11:02:47 PDT)
Re: [AMBER] Norleucine in ff99sb_ildn?
David A Case
(Thu Jun 10 2021 - 13:05:44 PDT)
[AMBER] how does amber calculate the water bridge fraction
Ming Tang
(Fri Jun 11 2021 - 02:47:02 PDT)
Re: [AMBER] how does amber calculate the water bridge fraction
Daniel Roe
(Fri Jun 11 2021 - 10:48:18 PDT)
Re: [AMBER] how does amber calculate the water bridge fraction
Ming Tang
(Fri Jun 11 2021 - 16:27:16 PDT)
[AMBER] strange tleap error with bond command
Vaibhav Dixit
(Fri Jun 11 2021 - 23:01:45 PDT)
Re: [AMBER] strange tleap error with bond command
David A Case
(Sun Jun 13 2021 - 18:37:14 PDT)
Re: [AMBER] strange tleap error with bond command
Vaibhav Dixit
(Sun Jun 13 2021 - 22:01:25 PDT)
[AMBER] query on principal component analysis trajectory
Sruthi Sudhakar
(Fri Jun 11 2021 - 23:53:33 PDT)
[AMBER] Problem of running a simulation in A100 GPU server.
Jong Young Joung
(Sun Jun 13 2021 - 06:36:48 PDT)
Re: [AMBER] Problem of running a simulation in A100 GPU server.
David A Case
(Sun Jun 13 2021 - 18:47:17 PDT)
[AMBER] use QUICK for QM/MM simulation accelerated by gpu
wangjianing_mail
(Sun Jun 13 2021 - 08:23:40 PDT)
Re: [AMBER] use QUICK for QM/MM simulation accelerated by gpu
wangjianing_mail
(Sun Jun 13 2021 - 09:07:34 PDT)
[AMBER] Which gpu should I select between tesla k80 and RTX30 series
东不拉
(Mon Jun 14 2021 - 06:34:06 PDT)
Re: [AMBER] Which gpu should I select between tesla k80 and RTX30 series
Adrian Roitberg
(Mon Jun 14 2021 - 07:50:03 PDT)
Re: [AMBER] Which gpu should I select between tesla k80 and RTX30 series
Ross Walker
(Mon Jun 14 2021 - 09:27:53 PDT)
[AMBER] mmgbsa results
raissa.conceicao.bol.com.br
(Mon Jun 14 2021 - 12:50:33 PDT)
[AMBER] Amber20 5 times slower than Amber18?
Yu Chen
(Mon Jun 14 2021 - 14:08:12 PDT)
Re: [AMBER] Amber20 5 times slower than Amber18?
David A Case
(Tue Jun 15 2021 - 06:02:19 PDT)
Re: [AMBER] Amber20 5 times slower than Amber18?
Yu Chen
(Tue Jun 15 2021 - 12:23:49 PDT)
[AMBER] Restart the crashed MD run in Amber18
Amir Zeb
(Mon Jun 14 2021 - 23:42:47 PDT)
Re: [AMBER] Restart the crashed MD run in Amber18
David A Case
(Tue Jun 15 2021 - 06:05:14 PDT)
Re: [AMBER] Restart the crashed MD run in Amber18
Amir Zeb
(Tue Jun 15 2021 - 18:03:07 PDT)
Re: [AMBER] Restart the crashed MD run in Amber18
David A Case
(Wed Jun 16 2021 - 06:00:52 PDT)
Re: [AMBER] Restart the crashed MD run in Amber18
Amir Zeb
(Thu Jun 17 2021 - 18:04:39 PDT)
Re: [AMBER] Restart the crashed MD run in Amber18
David A Case
(Fri Jun 18 2021 - 05:10:10 PDT)
Re: [AMBER] Restart the crashed MD run in Amber18
Amir Zeb
(Sun Jun 20 2021 - 17:54:47 PDT)
[AMBER] Fluctuation in GPU usage
Aravind R
(Tue Jun 15 2021 - 10:34:45 PDT)
Re: [AMBER] Fluctuation in GPU usage
Ross Walker
(Tue Jun 15 2021 - 10:52:10 PDT)
[AMBER] Execution Trouble
ankita mehta
(Tue Jun 15 2021 - 20:04:29 PDT)
Re: [AMBER] Execution Trouble
David A Case
(Wed Jun 16 2021 - 05:46:01 PDT)
Re: [AMBER] Execution Trouble
ankita mehta
(Thu Jun 17 2021 - 20:07:40 PDT)
Re: [AMBER] Execution Trouble
David A Case
(Fri Jun 18 2021 - 05:13:11 PDT)
[AMBER] issues in non-bonded and bonded force parameters
Dr. Srinivasa B. Ramisetti
(Wed Jun 16 2021 - 02:58:54 PDT)
[AMBER] cpptraj align using the same numbering
Martin Rosellen
(Wed Jun 16 2021 - 04:09:09 PDT)
Re: [AMBER] cpptraj align using the same numbering
David A Case
(Wed Jun 16 2021 - 05:55:05 PDT)
Re: [AMBER] cpptraj align using the same numbering
Daniel Roe
(Wed Jun 16 2021 - 06:23:08 PDT)
Re: [AMBER] cpptraj align using the same numbering
Martin Rosellen
(Wed Jun 16 2021 - 09:05:42 PDT)
Re: [AMBER] cpptraj align using the same numbering
Daniel Roe
(Wed Jun 16 2021 - 12:15:34 PDT)
[AMBER] Can not locate tordef.lib file
Souvik Dey
(Wed Jun 16 2021 - 16:28:31 PDT)
[AMBER] Calculation of ligand restraints in TI
Josiah Bones
(Wed Jun 16 2021 - 18:13:46 PDT)
Re: [AMBER] Troubleshooting long idle times in pmemd.MPI
Kevin Keane
(Wed Jun 16 2021 - 21:45:31 PDT)
[AMBER] compilation error
jamal kazazi
(Wed Jun 16 2021 - 22:36:40 PDT)
[AMBER] issues with non-bonded and bonded force field parameterisation for Arsenic
Dr. Srinivasa B. Ramisetti
(Wed Jun 16 2021 - 22:45:06 PDT)
Re: [AMBER] issues with non-bonded and bonded force field parameterisation for Arsenic
Pengfei Li
(Thu Jun 17 2021 - 15:21:59 PDT)
[AMBER] Amber20 installation, Amber.pip file broken
Balogh Álex Kálmán
(Thu Jun 17 2021 - 01:34:45 PDT)
Re: [AMBER] Amber20 installation, Amber.pip file broken
aishen
(Thu Jun 17 2021 - 09:11:14 PDT)
Re: [AMBER] Amber20 installation, Amber.pip file broken
jamal kazazi
(Thu Jun 17 2021 - 09:55:05 PDT)
Re: [AMBER] Amber20 installation, Amber.pip file broken
Balogh Álex Kálmán
(Mon Jun 21 2021 - 07:54:30 PDT)
Re: [AMBER] Amber20 installation, Amber.pip file broken
aishen
(Mon Jun 21 2021 - 08:57:40 PDT)
Re: [AMBER] Amber20 installation, Amber.pip file broken
aishen
(Mon Jun 21 2021 - 09:03:37 PDT)
Re: [AMBER] Amber20 installation, Amber.pip file broken
David A Case
(Mon Jun 21 2021 - 13:37:54 PDT)
Re: [AMBER] Amber20 installation, Amber.pip file broken
David A Case
(Mon Jun 21 2021 - 05:43:37 PDT)
[AMBER] use QUICK for QM/MM simulation accelerated by gpu
wangjianing_mail
(Thu Jun 17 2021 - 03:37:40 PDT)
[AMBER] TI for inclusion complexes
Eduardo R. Almeida
(Thu Jun 17 2021 - 06:27:28 PDT)
[AMBER] issues with non-bonded and bonded force field parameterisation for Arsenic
Srinivasa Ramisetti
(Thu Jun 17 2021 - 07:52:26 PDT)
[AMBER] error with solvate.sh at remove command tleap
Vaibhav Dixit
(Thu Jun 17 2021 - 10:23:52 PDT)
Re: [AMBER] error with solvate.sh at remove command tleap
Vaibhav Dixit
(Fri Jun 18 2021 - 02:07:45 PDT)
Re: [AMBER] error with solvate.sh at remove command tleap
Daniel Roe
(Sun Jun 20 2021 - 07:14:39 PDT)
Re: [AMBER] error with solvate.sh at remove command tleap
David A Case
(Fri Jun 18 2021 - 05:02:21 PDT)
Re: [AMBER] error with solvate.sh at remove command tleap
Vaibhav Dixit
(Fri Jun 18 2021 - 06:12:37 PDT)
[AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI]
Josiah Bones
(Thu Jun 17 2021 - 15:08:33 PDT)
Re: [AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI]
accuratefreeenergy.gmail.com
(Mon Jun 21 2021 - 10:46:33 PDT)
Re: [AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI]
Josiah Bones
(Tue Jun 29 2021 - 22:36:44 PDT)
Re: [AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI]
Josiah Bones
(Tue Jun 29 2021 - 23:17:46 PDT)
Re: [AMBER] Fw: [josiah.bones.anu.edu.au: Calculation of ligand restraints in TI]
accuratefreeenergy.gmail.com
(Wed Jun 30 2021 - 11:00:21 PDT)
[AMBER] Absolute Binding Free Energy of Protein+Ligand Complex in AMBER20 - Boresch restraints, Smoothstep
Josiah Bones
(Thu Jun 17 2021 - 23:29:58 PDT)
Re: [AMBER] Absolute Binding Free Energy of Protein+Ligand Complex in AMBER20 - Boresch restraints, Smoothstep
Dickson, Callum
(Fri Jun 18 2021 - 07:48:02 PDT)
[AMBER] install Amber20 GPU Centos 7
Sebastian Brickel
(Fri Jun 18 2021 - 02:30:20 PDT)
Re: [AMBER] install Amber20 GPU Centos 7
David A Case
(Fri Jun 18 2021 - 05:22:30 PDT)
Re: [AMBER] Preparation of i-Motif structures
Sruthi Sudhakar
(Sat Jun 19 2021 - 00:36:31 PDT)
Re: [AMBER] Preparation of i-Motif structures
Petr Stadlbauer
(Sat Jun 19 2021 - 02:58:20 PDT)
Re: [AMBER] Preparation of i-Motif structures
Sruthi Sudhakar
(Tue Jun 22 2021 - 11:37:02 PDT)
Re: [AMBER] Preparation of i-Motif structures
David A Case
(Tue Jun 22 2021 - 12:58:54 PDT)
Re: [AMBER] Preparation of i-Motif structures
Daniel Roe
(Wed Jun 23 2021 - 06:08:34 PDT)
[AMBER] RMSD plot in ns
Sadaf Rani
(Sun Jun 20 2021 - 04:58:20 PDT)
Re: [AMBER] RMSD plot in ns
Reza Esmaeeli
(Sun Jun 20 2021 - 05:10:06 PDT)
Re: [AMBER] RMSD plot in ns
Daniel Roe
(Sun Jun 20 2021 - 07:22:25 PDT)
Re: [AMBER] RMSD plot in ns
Dr. Anselm Horn
(Mon Jun 21 2021 - 00:11:27 PDT)
[AMBER] Installation error AMBERTOOLS21
Mandar Kulkarni
(Sun Jun 20 2021 - 05:22:22 PDT)
Re: [AMBER] Installation error AMBERTOOLS21
David A Case
(Mon Jun 21 2021 - 05:50:27 PDT)
Re: [AMBER] Installation error AMBERTOOLS21
Mandar Kulkarni
(Wed Jun 23 2021 - 01:47:10 PDT)
Re: [AMBER] Installation error AMBERTOOLS21
David A Case
(Wed Jun 23 2021 - 05:41:49 PDT)
Re: [AMBER] Installation error AMBERTOOLS21
Mandar Kulkarni
(Wed Jun 23 2021 - 13:48:47 PDT)
Re: [AMBER] Installation error AMBERTOOLS21
David A Case
(Wed Jun 23 2021 - 14:45:26 PDT)
Re: [AMBER] Installation error AMBERTOOLS21
Mandar Kulkarni
(Thu Jun 24 2021 - 11:38:46 PDT)
Re: [AMBER] Installation error AMBERTOOLS21
David A Case
(Fri Jun 25 2021 - 05:31:12 PDT)
Re: [AMBER] Installation error AMBERTOOLS21
Mandar Kulkarni
(Sat Jun 26 2021 - 07:59:51 PDT)
[AMBER] 3080Ti Nvidia
Jaime Rubio Martinez
(Mon Jun 21 2021 - 14:06:57 PDT)
Re: [AMBER] 3080Ti Nvidia
Ross Walker
(Mon Jun 21 2021 - 14:14:44 PDT)
[AMBER] HREMD with similar replicas
Richard Kullmann
(Tue Jun 22 2021 - 06:29:41 PDT)
Re: [AMBER] HREMD with similar replicas
Jason Swails
(Wed Jun 30 2021 - 20:02:20 PDT)
[AMBER] .rst7 output coordinate file error
GALLO FACUNDO NAHUEL
(Tue Jun 22 2021 - 12:36:37 PDT)
Re: [AMBER] .rst7 output coordinate file error
Carlos Simmerling
(Tue Jun 22 2021 - 15:04:54 PDT)
Re: [AMBER] .rst7 output coordinate file error
David A Case
(Wed Jun 23 2021 - 05:34:22 PDT)
Re: [AMBER] .rst7 output coordinate file error
Daniel Roe
(Wed Jun 23 2021 - 06:12:54 PDT)
[AMBER] Breaking of complex molecule
richa anand
(Tue Jun 22 2021 - 21:00:27 PDT)
Re: [AMBER] Breaking of complex molecule
Dr. Anselm Horn
(Wed Jun 23 2021 - 05:35:32 PDT)
Re: [AMBER] Breaking of complex molecule
Daniel Roe
(Wed Jun 23 2021 - 06:09:58 PDT)
[AMBER] How to use a relatively smaller cutoff in the GB simulation
jinfeng liu
(Wed Jun 23 2021 - 03:16:11 PDT)
Re: [AMBER] How to use a relatively smaller cutoff in the GB simulation
Carlos Simmerling
(Wed Jun 23 2021 - 03:14:17 PDT)
Re: [AMBER] How to use a relatively smaller cutoff in the GB simulation
David A Case
(Wed Jun 23 2021 - 05:48:49 PDT)
Re: [AMBER] How to use a relatively smaller cutoff in the GB simulation
jinfeng liu
(Thu Jun 24 2021 - 02:10:35 PDT)
Re: [AMBER] How to use a relatively smaller cutoff in the GB simulation
David A Case
(Thu Jun 24 2021 - 05:46:31 PDT)
[AMBER] ambertools20 - request for older version
Ruben Cruz
(Wed Jun 23 2021 - 04:57:52 PDT)
Re: [AMBER] ambertools20 - request for older version
David A Case
(Wed Jun 23 2021 - 06:07:12 PDT)
[AMBER] Antechamber error when attempting Tutorial B5
David Wright
(Wed Jun 23 2021 - 08:41:22 PDT)
Re: [AMBER] Antechamber error when attempting Tutorial B5
David A Case
(Wed Jun 23 2021 - 08:56:48 PDT)
Re: [AMBER] Antechamber error when attempting Tutorial B5
David Wright
(Thu Jun 24 2021 - 03:16:04 PDT)
[AMBER] regarding parameters for protonated guanosine
Sayilpreet Kaur
(Wed Jun 23 2021 - 22:28:49 PDT)
[AMBER] Constant pH for large number of titratable residues
Matthew Guberman-Pfeffer
(Thu Jun 24 2021 - 09:35:28 PDT)
Re: [AMBER] Constant pH for large number of titratable residues
Cruzeiro, Vinicius
(Thu Jun 24 2021 - 11:03:34 PDT)
Re: [AMBER] Constant pH for large number of titratable residues
Matthew Guberman-Pfeffer
(Thu Jun 24 2021 - 11:22:20 PDT)
Re: [AMBER] Constant pH for large number of titratable residues
Cruzeiro, Vinicius
(Thu Jun 24 2021 - 11:41:40 PDT)
Re: [AMBER] Constant pH for large number of titratable residues
Matthew Guberman-Pfeffer
(Thu Jun 24 2021 - 11:47:06 PDT)
Re: [AMBER] Constant pH for large number of titratable residues
Adrian Roitberg
(Mon Jun 28 2021 - 07:27:37 PDT)
Re: [AMBER] Constant pH for large number of titratable residues
Matthew Guberman-Pfeffer
(Mon Jun 28 2021 - 07:47:01 PDT)
[AMBER] Multi-Monomer Polymer
Swisher, Justin S
(Thu Jun 24 2021 - 12:54:04 PDT)
Re: [AMBER] Multi-Monomer Polymer
Dr. Anselm Horn
(Fri Jun 25 2021 - 03:55:24 PDT)
[AMBER] How to create a model of a G-Quadruplex and imotif structure using the sequence information
Ramanathan Rajesh
(Fri Jun 25 2021 - 07:48:58 PDT)
Re: [AMBER] How to create a model of a G-Quadruplex and imotif structure using the sequence information
David A Case
(Mon Jun 28 2021 - 05:31:22 PDT)
[AMBER] Error in TI analysis
Ephraim Marondedze
(Sat Jun 26 2021 - 04:22:37 PDT)
[AMBER] sqm seeks the Boron parameter file instead of Bromine
Thomas Evangelidis
(Sat Jun 26 2021 - 08:31:25 PDT)
Re: [AMBER] sqm seeks the Boron parameter file instead of Bromine
Roitberg,Adrian E
(Sat Jun 26 2021 - 12:13:09 PDT)
Re: [AMBER] sqm seeks the Boron parameter file instead of Bromine
Thomas Evangelidis
(Mon Jun 28 2021 - 05:29:41 PDT)
Re: [AMBER] sqm seeks the Boron parameter file instead of Bromine
Thomas Evangelidis
(Mon Jun 28 2021 - 05:33:06 PDT)
[AMBER] How to set a check point in Amber
Ramin Mehrani
(Mon Jun 28 2021 - 11:04:30 PDT)
Re: [AMBER] How to set a check point in Amber
Dr. Anselm Horn
(Tue Jun 29 2021 - 01:20:45 PDT)
[AMBER] Installing compilers/libraries on Ubuntu 18.04 without root access
Smith, Ally
(Mon Jun 28 2021 - 11:52:52 PDT)
Re: [AMBER] Installing compilers/libraries on Ubuntu 18.04 without root access
Gerald Monard
(Tue Jun 29 2021 - 22:43:47 PDT)
Re: [AMBER] Installing compilers/libraries on Ubuntu 18.04 without root access
Åke Sandgren
(Wed Jun 30 2021 - 01:09:10 PDT)
[AMBER] AMBER-Reflector e-mails being sent to SPAM
Gustavo Seabra
(Mon Jun 28 2021 - 13:48:53 PDT)
Re: [AMBER] AMBER-Reflector e-mails being sent to SPAM
Carlos Simmerling
(Mon Jun 28 2021 - 13:53:14 PDT)
Re: [AMBER] AMBER-Reflector e-mails being sent to SPAM
Gustavo Seabra
(Mon Jun 28 2021 - 13:56:26 PDT)
Re: [AMBER] AMBER-Reflector e-mails being sent to SPAM
Jason Swails
(Wed Jun 30 2021 - 20:04:20 PDT)
[AMBER] Estimating protein-protein interactions
Matthew Guberman-Pfeffer
(Mon Jun 28 2021 - 19:21:44 PDT)
Re: [AMBER] Estimating protein-protein interactions
David A Case
(Wed Jun 30 2021 - 06:01:29 PDT)
Re: [AMBER] Estimating protein-protein interactions
Matthew Guberman-Pfeffer
(Wed Jun 30 2021 - 06:31:19 PDT)
[AMBER] Regarding protein - nucleic acid contacts
Sruthi Sudhakar
(Tue Jun 29 2021 - 03:44:17 PDT)
[AMBER] Amber for AMD GPUs?
Shenglong Wang
(Tue Jun 29 2021 - 09:31:19 PDT)
Re: [AMBER] Amber for AMD GPUs?
David A Case
(Wed Jun 30 2021 - 06:07:16 PDT)
[AMBER] Apply negative lateral pressure to membrane
Amir Zeb
(Wed Jun 30 2021 - 06:31:42 PDT)
[AMBER] Error charges ligand having Selenium
Renato Araujo
(Wed Jun 30 2021 - 14:44:05 PDT)
Last message date
:
Wed Jun 30 2021 - 20:30:02 PDT
Archived on
: Fri Dec 20 2024 - 05:56:07 PST
242 messages
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