Amber Archive Jan 2019 by author
279 messages
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Starting
Mon Dec 31 2018 - 21:30:03 PST,
Ending
Thu Jan 31 2019 - 13:00:02 PST
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ABEL Stephane
Re: [AMBER] Unusual separation between protein and ligand
(Sat Jan 26 2019 - 04:36:28 PST)
Re: [AMBER] Abrupt peaks in the RMSD plot of heating trajectory
(Wed Jan 16 2019 - 10:40:05 PST)
Abhilash J
[AMBER] Water bridge analysis using cpptraj (hbond)
(Fri Jan 18 2019 - 06:04:06 PST)
Adrian Roitberg
Re: [AMBER] Abrupt peaks in the RMSD plot of heating trajectory
(Wed Jan 16 2019 - 10:31:42 PST)
Re: [AMBER] Separate work values for each restraint in SMD
(Wed Jan 16 2019 - 07:15:05 PST)
Akshay Prabhakant
[AMBER] RMSF in amber
(Sun Jan 06 2019 - 01:23:41 PST)
Alechania Misturini
Re: [AMBER] How to convert a NetCDF format trajectory to separate PDB files in sequential order frame by frame
(Thu Jan 17 2019 - 15:35:57 PST)
Amartya Pradhan
[AMBER] Abrupt peaks in the RMSD plot of heating trajectory
(Wed Jan 16 2019 - 10:29:36 PST)
Andrea H. Kasun
Re: [AMBER] Can't put position restrains on ions
(Wed Jan 16 2019 - 11:02:45 PST)
[AMBER] Can't put position restrains on ions
(Wed Jan 16 2019 - 07:33:48 PST)
Andreas Tosstorff
Re: [AMBER] recovering amber binaries
(Tue Jan 22 2019 - 06:56:31 PST)
[AMBER] recovering amber binaries
(Tue Jan 22 2019 - 04:12:17 PST)
Anthony Bogetti
[AMBER] Unnatural nucleic acid in DNA chain
(Thu Jan 24 2019 - 12:52:19 PST)
[AMBER] orca failure in mdgx: QM grid file not found
(Tue Jan 01 2019 - 18:10:04 PST)
Ara R
[AMBER] Understanding Distance Restraint
(Wed Jan 02 2019 - 06:19:54 PST)
Aravind R
[AMBER] Using Distance Restraints in TMD
(Tue Jan 22 2019 - 00:30:25 PST)
[AMBER] Using Distance Restraints in TMD
(Mon Jan 14 2019 - 06:40:13 PST)
Arkajyoti Sengupta
[AMBER] DMF
(Sun Jan 13 2019 - 03:59:43 PST)
[AMBER] DMF
(Wed Jan 02 2019 - 15:37:25 PST)
Batuhan Kav
[AMBER] steered md at constant force
(Wed Jan 09 2019 - 03:00:56 PST)
Bellesis, Andrew G
Re: [AMBER] Testing AMBER16 installation in parallel; possible bug in testing scripts
(Thu Jan 03 2019 - 08:26:19 PST)
Bill Ross
Re: [AMBER] simple minimization error of a acetonitrile molecule in water (TIP3P water)
(Fri Jan 25 2019 - 14:59:33 PST)
Re: [AMBER] simple minimization error of a acetonitrile molecule in water (TIP3P water)
(Fri Jan 25 2019 - 09:35:43 PST)
Re: [AMBER] simple minimization error of a acetonitrile molecule in water (TIP3P water)
(Fri Jan 25 2019 - 08:31:11 PST)
Re: [AMBER] Unnatural nucleic acid in DNA chain
(Thu Jan 24 2019 - 13:15:04 PST)
Re: [AMBER] Simulation setup for LIE
(Thu Jan 24 2019 - 13:08:21 PST)
Re: [AMBER] Simulation setup for LIE
(Thu Jan 24 2019 - 12:23:19 PST)
Re: [AMBER] DNA-ligand system
(Sun Jan 20 2019 - 23:20:04 PST)
Braden Kelly
Re: [AMBER] calculating am1-bcc charges from user generated mulliken charges
(Sun Jan 13 2019 - 19:10:47 PST)
[AMBER] calculating am1-bcc charges from user generated mulliken charges
(Sun Jan 13 2019 - 14:32:19 PST)
Bundit BOONYARIT
[AMBER] Error Amber18 installation with Intel 19 compiler
(Fri Jan 25 2019 - 12:56:55 PST)
Cecilia Lindgren
Re: [AMBER] Combining CpHMD and aMD
(Mon Jan 28 2019 - 05:13:49 PST)
Re: [AMBER] Combining CpHMD and aMD
(Sun Jan 27 2019 - 23:26:49 PST)
[AMBER] Combining CpHMD and aMD
(Thu Jan 24 2019 - 07:37:26 PST)
changseo park
Re: [AMBER] "make test" 1 errors occur
(Tue Jan 15 2019 - 04:16:46 PST)
[AMBER] "make test" 1 errors occur
(Fri Jan 11 2019 - 04:30:31 PST)
Charles Lin
Re: [AMBER] Failed to compile mcres.F90 of Amber18+update.10 with ifort
(Fri Jan 25 2019 - 07:09:19 PST)
Re: [AMBER] Understanding Distance Restraint
(Wed Jan 02 2019 - 08:43:04 PST)
Charles-Alexandre Mattelaer
Re: [AMBER] dihedral angles
(Wed Jan 30 2019 - 08:17:55 PST)
Charu Sharma (JRF)
[AMBER] regarding change in time
(Mon Jan 21 2019 - 00:36:19 PST)
Chetna Tyagi
Re: [AMBER] How to load and visualize large trajectories?
(Mon Jan 21 2019 - 01:08:11 PST)
Re: [AMBER] How to load and visualize large trajectories?
(Wed Jan 09 2019 - 08:09:51 PST)
Re: [AMBER] How to load and visualize large trajectories?
(Wed Jan 09 2019 - 04:32:41 PST)
Re: [AMBER] How to load and visualize large trajectories?
(Wed Jan 09 2019 - 04:58:53 PST)
[AMBER] How to load and visualize large trajectories?
(Wed Jan 09 2019 - 04:22:29 PST)
Cruzeiro,Vinicius Wilian D
Re: [AMBER] Combining CpHMD and aMD
(Mon Jan 28 2019 - 06:22:58 PST)
Re: [AMBER] Combining CpHMD and aMD
(Mon Jan 28 2019 - 04:36:28 PST)
Re: [AMBER] Combining CpHMD and aMD
(Fri Jan 25 2019 - 14:00:13 PST)
Daniel Roe
Re: [AMBER] pytraj time
(Thu Jan 31 2019 - 12:32:17 PST)
Re: [AMBER] Energy Calculation Mathematical Formula.
(Tue Jan 29 2019 - 05:21:51 PST)
Re: [AMBER] lipidscd S.D.
(Mon Jan 28 2019 - 11:57:29 PST)
Re: [AMBER] lipidscd S.D.
(Mon Jan 28 2019 - 08:53:42 PST)
Re: [AMBER] PCA Analyze mode evec.pev
(Thu Jan 24 2019 - 08:28:44 PST)
Re: [AMBER] detecting bridging waters and ions with cpptraj
(Thu Jan 24 2019 - 08:16:07 PST)
Re: [AMBER] Xplor file generation
(Thu Jan 24 2019 - 08:08:38 PST)
Re: [AMBER] pytraj native contacts
(Thu Jan 24 2019 - 07:55:04 PST)
Re: [AMBER] Creating a coarse-grained trajectory from an all atomistic simulation
(Thu Jan 24 2019 - 07:50:36 PST)
Re: [AMBER] Lifetime structural waters CPPTRAJ error
(Thu Jan 24 2019 - 07:45:05 PST)
Re: [AMBER] recovering amber binaries
(Tue Jan 22 2019 - 16:28:54 PST)
Re: [AMBER] lipidscd S.D.
(Tue Jan 22 2019 - 16:19:50 PST)
Re: [AMBER] Autoimage command not working
(Tue Jan 15 2019 - 11:46:23 PST)
Re: [AMBER] Autoimage command not working
(Tue Jan 15 2019 - 10:51:52 PST)
Re: [AMBER] RMSD of independent trajectories using cpptraj
(Tue Jan 15 2019 - 06:27:50 PST)
Re: [AMBER] RMSD of independent trajectories using cpptraj
(Mon Jan 14 2019 - 16:41:58 PST)
Re: [AMBER] Installation error on cray machine
(Fri Jan 11 2019 - 17:06:31 PST)
Re: [AMBER] Installation error on cray machine
(Fri Jan 11 2019 - 05:52:16 PST)
Re: [AMBER] How to load and visualize large trajectories?
(Wed Jan 09 2019 - 08:13:52 PST)
Re: [AMBER] Cpptraj: std::bad_alloc error
(Wed Jan 09 2019 - 06:48:05 PST)
Re: [AMBER] CUDA and Restraint Error
(Mon Jan 07 2019 - 09:02:44 PST)
Re: [AMBER] RMSF in amber
(Mon Jan 07 2019 - 07:31:05 PST)
Re: [AMBER] Calculated dipole moment in AMBER
(Thu Jan 03 2019 - 05:26:13 PST)
Re: [AMBER] Calculated dipole moment in AMBER
(Wed Jan 02 2019 - 10:52:13 PST)
David A Case
Re: [AMBER] Amber force-filed parameters for amino-acid side chain analogues
(Thu Jan 31 2019 - 04:46:22 PST)
Re: [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference.
(Mon Jan 28 2019 - 04:59:18 PST)
Re: [AMBER] simple minimization error of a acetonitrile molecule in water (TIP3P water)
(Mon Jan 28 2019 - 04:57:05 PST)
Re: [AMBER] Interpreting MM-(GB)PBSA results
(Mon Jan 28 2019 - 04:54:33 PST)
Re: [AMBER] Zeolite simulations
(Fri Jan 25 2019 - 07:59:49 PST)
Re: [AMBER] questions on VDW parameters
(Fri Jan 25 2019 - 07:56:52 PST)
Re: [AMBER] Failed to compile mcres.F90 of Amber18+update.10 with ifort
(Fri Jan 25 2019 - 07:36:09 PST)
Re: [AMBER] NMOD is not running for MM PBSA
(Fri Jan 25 2019 - 04:56:15 PST)
Re: [AMBER] Unnatural nucleic acid in DNA chain
(Fri Jan 25 2019 - 04:53:26 PST)
Re: [AMBER] Creating a coarse-grained trajectory from an all atomistic simulation
(Wed Jan 23 2019 - 10:32:44 PST)
Re: [AMBER] 2 types of Chlorine atom (one charge is -1 and other is -0.8)
(Wed Jan 23 2019 - 04:46:10 PST)
Re: [AMBER] MD with different velocities.
(Mon Jan 21 2019 - 06:01:23 PST)
Re: [AMBER] regarding change in time
(Mon Jan 21 2019 - 05:54:52 PST)
Re: [AMBER] DNA-ligand system
(Mon Jan 21 2019 - 05:52:36 PST)
Re: [AMBER] AMBER v18 on BG/Q
(Fri Jan 18 2019 - 05:57:09 PST)
Re: [AMBER] time-dependent distance restraints
(Fri Jan 18 2019 - 05:51:47 PST)
Re: [AMBER] Can't put position restrains on ions
(Wed Jan 16 2019 - 10:28:24 PST)
Re: [AMBER] Printing distance values to a file
(Wed Jan 16 2019 - 07:17:44 PST)
Re: [AMBER] NO and CO parameters from Antechamber
(Fri Jan 11 2019 - 05:49:50 PST)
Re: [AMBER] makeDIST_RST
(Wed Jan 09 2019 - 05:45:28 PST)
Re: [AMBER] Clipping radius in AddToBox
(Tue Jan 08 2019 - 06:07:09 PST)
Re: [AMBER] Problem with AMP atom separating in equilibration
(Tue Jan 08 2019 - 06:01:02 PST)
Re: [AMBER] Amber installation
(Tue Jan 08 2019 - 05:56:16 PST)
Re: [AMBER-Developers] [AMBER] Error with mdnab from amberlite
(Thu Jan 03 2019 - 06:09:33 PST)
Re: [AMBER] error with HEM parm
(Wed Jan 02 2019 - 05:37:33 PST)
David Case
Re: [AMBER] simple minimization error of a acetonitrile molecule in water (TIP3P water)
(Tue Jan 29 2019 - 18:10:52 PST)
Re: [AMBER] Error Amber18 installation with Intel 19 compiler
(Sat Jan 26 2019 - 14:02:25 PST)
Re: [AMBER] QM/MM dynamics: metal oxides
(Sat Jan 26 2019 - 07:18:27 PST)
Re: [AMBER] Fwd: Amber parameters for Boron atom
(Sat Jan 19 2019 - 17:47:46 PST)
Re: [AMBER] Amber parameters for Boron atom
(Sat Jan 19 2019 - 06:34:42 PST)
Re: [AMBER] pmemd18 mpi installation error
(Sat Jan 19 2019 - 06:26:20 PST)
Re: [AMBER] Virtual Spin Labels in Amber
(Sat Jan 12 2019 - 14:00:57 PST)
Re: [AMBER] "make test" 1 errors occur
(Sat Jan 12 2019 - 13:48:30 PST)
Re: [AMBER] Problems with cutoff (?)
(Sat Jan 12 2019 - 13:45:47 PST)
Re: [AMBER] CUDA and Restraint Error
(Sat Jan 05 2019 - 06:40:39 PST)
David Cerutti
Re: [AMBER] Amber force-filed parameters for amino-acid side chain analogues
(Thu Jan 31 2019 - 05:34:13 PST)
Re: [AMBER] gpu_shuttle_post_data can't work in the implicit solvent
(Sat Jan 12 2019 - 02:08:26 PST)
Re: [AMBER] Clipping radius in AddToBox
(Tue Jan 08 2019 - 07:13:18 PST)
Re: [AMBER] Clipping radius in AddToBox
(Tue Jan 08 2019 - 06:26:38 PST)
Debarati DasGupta
Re: [AMBER] simple minimization error of a acetonitrile molecule in water (TIP3P water)
(Fri Jan 25 2019 - 11:54:12 PST)
Re: [AMBER] simple minimization error of a acetonitrile molecule in water (TIP3P water)
(Fri Jan 25 2019 - 08:00:31 PST)
[AMBER] Simulation setup for LIE
(Thu Jan 24 2019 - 11:27:04 PST)
[AMBER] Xplor file generation
(Fri Jan 18 2019 - 07:47:28 PST)
[AMBER] LIE calculation in FEW workflow
(Thu Jan 17 2019 - 12:46:36 PST)
[AMBER] Post to amber mailing list
(Thu Jan 17 2019 - 12:31:31 PST)
DHEERAJ CHITARA
[AMBER] Energy Calculation Mathematical Formula.
(Tue Jan 29 2019 - 03:57:32 PST)
diego.soler.uam.es
Re: [AMBER] dihedral angles
(Wed Jan 30 2019 - 08:03:55 PST)
Dr. Anselm Horn
[AMBER] [MGMS-DS]: Molecular Modelling Workshop + Tim Clark Birthday Symposium: April 08-11, 2019 in Erlangen, Germany
(Fri Jan 18 2019 - 01:13:18 PST)
Dylan Novack
Re: [AMBER] MCPB.py Error
(Wed Jan 30 2019 - 07:29:55 PST)
[AMBER] MCPB.py Error
(Tue Jan 22 2019 - 16:53:40 PST)
Eduardo Almeida Costa
[AMBER] Set the correct number of CPUs and GPU - benchmark - Amber 14
(Tue Jan 29 2019 - 10:34:02 PST)
Elvis Martis
Re: [AMBER] RMSF in amber
(Mon Jan 07 2019 - 20:46:36 PST)
Re: [AMBER] RMSF in amber
(Sun Jan 06 2019 - 03:01:49 PST)
Re: [AMBER] Obtaining necessary *.top for MMPBSA.py
(Mon Dec 31 2018 - 21:05:54 PST)
emanuele
Re: [AMBER] QM/MM dynamics: metal oxides
(Sun Jan 27 2019 - 03:43:17 PST)
emanuele falbo
Re: [AMBER] QM/MM dynamics: metal oxides
(Fri Jan 25 2019 - 12:57:23 PST)
[AMBER] QM/MM dynamics: metal oxides
(Fri Jan 25 2019 - 09:03:49 PST)
Emmett Leddin
Re: [AMBER] Introduction to dummy atoms needed
(Wed Jan 16 2019 - 09:39:14 PST)
Fulbabu Sk
[AMBER] Entropy calculation with Interaction Entropy (IE) method
(Fri Jan 18 2019 - 12:03:36 PST)
Re: [AMBER] Calculated dipole moment in AMBER
(Thu Jan 03 2019 - 19:21:14 PST)
Re: [AMBER] Calculated dipole moment in AMBER
(Wed Jan 02 2019 - 20:39:01 PST)
gaohanlu
[AMBER] MCPB.py problem
(Wed Jan 16 2019 - 17:46:53 PST)
[AMBER] Metal center molecule
(Mon Jan 14 2019 - 19:22:02 PST)
Gustaf Olsson
Re: [AMBER] recovering amber binaries
(Tue Jan 22 2019 - 05:20:54 PST)
Hai Nguyen
Re: [AMBER] dihedral angles
(Wed Jan 30 2019 - 07:57:52 PST)
Re: [AMBER] pytraj native contacts
(Wed Jan 23 2019 - 08:31:44 PST)
Re: [AMBER] How to load and visualize large trajectories?
(Tue Jan 22 2019 - 20:55:04 PST)
Re: [AMBER] How to load and visualize large trajectories?
(Fri Jan 18 2019 - 12:46:26 PST)
Re: [AMBER] pytraj Error: No reference set, cannot select by distance.
(Fri Jan 18 2019 - 12:38:44 PST)
Re: [AMBER] mutation using pdb4amber
(Mon Jan 14 2019 - 16:26:29 PST)
Hunter Wilson
Re: [AMBER] RMSD of independent trajectories using cpptraj
(Tue Jan 15 2019 - 12:09:20 PST)
Re: [AMBER] RMSD of independent trajectories using cpptraj
(Tue Jan 15 2019 - 05:51:24 PST)
[AMBER] RMSD of independent trajectories using cpptraj
(Mon Jan 14 2019 - 13:24:30 PST)
Jacopo Sgrignani
[AMBER] simulation with glycans
(Wed Jan 16 2019 - 02:47:44 PST)
James Kress
Re: [AMBER] How to load and visualize large trajectories?
(Fri Jan 18 2019 - 13:50:55 PST)
Jason Swails
Re: [AMBER] steered md at constant force
(Thu Jan 10 2019 - 13:23:13 PST)
Josh Berryman
Re: [AMBER] Interpreting MM-(GB)PBSA results
(Mon Jan 28 2019 - 07:53:15 PST)
Kari Gaalswyk
[AMBER] Virtual Spin Labels in Amber
(Thu Jan 10 2019 - 07:56:30 PST)
Kasprzak, Wojciech (NIH/NCI) [C]
[AMBER] Problem with AMP atom separating in equilibration
(Mon Jan 07 2019 - 13:13:57 PST)
Kateryna Miroshnychenko
Re: [AMBER] pmemd18 mpi installation error
(Mon Jan 21 2019 - 13:38:17 PST)
[AMBER] pmemd18 mpi installation error
(Fri Jan 18 2019 - 13:38:18 PST)
Kung, Ryan
[AMBER] CUDA and Restraint Error
(Fri Jan 04 2019 - 13:51:18 PST)
[AMBER] Amber Restraint output from
(Wed Jan 02 2019 - 14:29:35 PST)
Leena Aggarwal
[AMBER] Calculation of binding energy associated with a single water molecule
(Sun Jan 27 2019 - 22:04:40 PST)
Li, Dailin
[AMBER] How to convert a NetCDF format trajectory to separate PDB files in sequential order frame by frame
(Thu Jan 17 2019 - 15:10:19 PST)
Lucas Bandeira
[AMBER] "vlimit exceeded" in NVT simulation
(Tue Jan 08 2019 - 07:07:03 PST)
Re: [AMBER] Clipping radius in AddToBox
(Tue Jan 08 2019 - 06:58:58 PST)
[AMBER] Clipping radius in AddToBox
(Tue Jan 08 2019 - 04:02:24 PST)
madhumalar arumugam
[AMBER] GPU cards RTX 2080Ti and Nvidia quadro 16GB RTX 5000
(Thu Jan 24 2019 - 03:35:39 PST)
Marek Maly
[AMBER] Constant external force in the given space zone ? Thermostat working just on selected part of simulated system ?
(Fri Jan 11 2019 - 06:38:54 PST)
Margarita I. Bernal-Uruchurtu
[AMBER] Problems with cutoff (?)
(Fri Jan 11 2019 - 01:48:21 PST)
Markowska
[AMBER] Introduction to dummy atoms needed
(Wed Jan 16 2019 - 09:30:54 PST)
[AMBER] NO and CO parameters from Antechamber
(Thu Jan 10 2019 - 13:17:06 PST)
Martín Pettinati
Re: [AMBER] Autoimage command not working
(Tue Jan 15 2019 - 13:26:03 PST)
Re: [AMBER] Autoimage command not working
(Tue Jan 15 2019 - 11:35:04 PST)
[AMBER] Autoimage command not working
(Tue Jan 15 2019 - 10:40:44 PST)
Matthew Fisher
Re: [AMBER] error with HEM parm
(Wed Jan 02 2019 - 06:16:29 PST)
Mauricio Esguerra
Re: [AMBER] Literature about magnesium ion parameters in tutorial A8
(Fri Jan 04 2019 - 03:00:17 PST)
maya nair
[AMBER] DNA-ligand system
(Sun Jan 20 2019 - 22:42:50 PST)
Mehreen Ghufran
Re: [AMBER] How to load and visualize large trajectories?
(Wed Jan 09 2019 - 04:59:17 PST)
Re: [AMBER] CUDA and Restraint Error
(Sat Jan 05 2019 - 09:08:01 PST)
mish
Re: [AMBER] Amber force-filed parameters for amino-acid side chain analogues
(Thu Jan 31 2019 - 05:07:56 PST)
Re: [AMBER] Amber force-filed parameters for amino-acid side chain analogues
(Thu Jan 31 2019 - 04:00:29 PST)
[AMBER] Amber force-filed parameters for amino-acid side chain analogues
(Mon Jan 28 2019 - 09:15:24 PST)
Mohammad Salem
[AMBER] error with HEM parm
(Tue Jan 01 2019 - 20:21:02 PST)
Motoshi Kamiya
[AMBER] Failed to compile mcres.F90 of Amber18+update.10 with ifort
(Fri Jan 25 2019 - 00:58:21 PST)
MYRIAN TORRES RICO
[AMBER] dihedral angles
(Wed Jan 30 2019 - 07:49:46 PST)
[AMBER] email
(Wed Jan 30 2019 - 07:22:07 PST)
Nikolay N. Kuzmich
Re: [AMBER] Cpptraj: std::bad_alloc error
(Thu Jan 10 2019 - 02:30:20 PST)
[AMBER] Cpptraj: std::bad_alloc error
(Wed Jan 09 2019 - 03:33:45 PST)
Núbia Prates
[AMBER] reweighting aMD
(Fri Jan 11 2019 - 04:17:43 PST)
Pedro Miguel Reis Figueiredo
[AMBER] Lifetime structural waters CPPTRAJ error
(Thu Jan 24 2019 - 04:24:10 PST)
Pengfei Li
Re: [AMBER] Zeolite simulations
(Fri Jan 25 2019 - 08:34:30 PST)
Re: [AMBER] Introduction to dummy atoms needed
(Fri Jan 25 2019 - 08:31:19 PST)
Re: [AMBER] MCPB.py Error
(Fri Jan 25 2019 - 08:23:27 PST)
Re: [AMBER] MCPB.py error with HEME containing protein
(Fri Jan 25 2019 - 08:21:16 PST)
Re: [AMBER] Zeolite simulations
(Sat Jan 19 2019 - 13:56:28 PST)
Re: [AMBER] MCPB.py problem
(Sat Jan 19 2019 - 08:30:39 PST)
Re: [AMBER] Metal center molecule
(Sat Jan 19 2019 - 08:28:55 PST)
Re: [AMBER] Zeolite simulations
(Thu Jan 10 2019 - 07:45:45 PST)
Re: [AMBER] MCPB.py Modelling Question
(Thu Jan 10 2019 - 07:35:29 PST)
Prasanth G, Research Scholar
Re: [AMBER] MCPB.py error with HEME containing protein
(Sun Jan 27 2019 - 03:06:44 PST)
Pratul Agarwal
Re: [AMBER] Amber force-filed parameters for amino-acid side chain analogues
(Tue Jan 29 2019 - 06:18:12 PST)
Re: [AMBER] Calculation of binding energy associated with a single water molecule
(Mon Jan 28 2019 - 08:47:24 PST)
Re: [AMBER] recovering amber binaries
(Tue Jan 22 2019 - 05:41:03 PST)
[AMBER] AMBER v18 on BG/Q
(Thu Jan 17 2019 - 15:36:04 PST)
Re: [AMBER] Can't put position restrains on ions
(Wed Jan 16 2019 - 11:09:53 PST)
Re: [AMBER] Can't put position restrains on ions
(Wed Jan 16 2019 - 10:49:26 PST)
Re: [AMBER] Amber energy minimization and the energy unit
(Fri Jan 11 2019 - 04:19:26 PST)
Re: [AMBER] Cpptraj: std::bad_alloc error
(Wed Jan 09 2019 - 09:27:41 PST)
Re: [AMBER] Cpptraj: std::bad_alloc error
(Wed Jan 09 2019 - 05:36:16 PST)
Re: [AMBER] "vlimit exceeded" in NVT simulation
(Tue Jan 08 2019 - 07:24:14 PST)
Re: [AMBER] CUDA and Restraint Error
(Sat Jan 05 2019 - 07:05:51 PST)
Re: [AMBER] MMPBSA.py error
(Fri Jan 04 2019 - 06:28:09 PST)
Premila Samuel Mohan Dass
Re: [AMBER] Autoimage command not working
(Tue Jan 15 2019 - 10:50:47 PST)
Qinghua Liao
[AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference.
(Fri Jan 25 2019 - 04:46:20 PST)
[AMBER] questions on VDW parameters
(Fri Jan 25 2019 - 03:06:02 PST)
Re: [AMBER] How to load and visualize large trajectories?
(Wed Jan 09 2019 - 04:38:41 PST)
Rajarshi Roy
Re: [AMBER] Unusual separation between protein and ligand
(Sat Jan 26 2019 - 10:22:44 PST)
[AMBER] Unusual separation between protein and ligand
(Fri Jan 25 2019 - 23:11:34 PST)
Rinsha Chk
[AMBER] MD with different velocities.
(Mon Jan 21 2019 - 04:47:51 PST)
Rosellen, Martin
[AMBER] pytraj native contacts
(Wed Jan 23 2019 - 07:55:34 PST)
Ross Walker
Re: [AMBER] Set the correct number of CPUs and GPU - benchmark - Amber 14
(Wed Jan 30 2019 - 07:33:17 PST)
Saikat Pal
Re: [AMBER] Problem regarding RMSD
(Thu Jan 31 2019 - 06:54:44 PST)
[AMBER] Problem regarding RMSD
(Thu Jan 31 2019 - 06:50:03 PST)
[AMBER] 2 types of Chlorine atom (one charge is -1 and other is -0.8)
(Tue Jan 22 2019 - 22:13:49 PST)
Re: [AMBER] Metal center molecule
(Tue Jan 15 2019 - 05:24:23 PST)
Sally Pias
Re: [AMBER] Error in conversion from charmmgui to AMBER format
(Mon Jan 28 2019 - 13:35:09 PST)
Santanu Santra
[AMBER] NMOD is not running for MM PBSA
(Thu Jan 24 2019 - 23:20:12 PST)
SARAH JEANNE LEFAVE
Re: [AMBER] Creating a coarse-grained trajectory from an all atomistic simulation
(Wed Jan 23 2019 - 11:18:35 PST)
[AMBER] Creating a coarse-grained trajectory from an all atomistic simulation
(Wed Jan 23 2019 - 07:22:01 PST)
Shagun Krishna
[AMBER] Error while running MMPBSA.py
(Wed Jan 30 2019 - 10:08:37 PST)
Shayna Hilburg
Re: [AMBER] pytraj time
(Thu Jan 31 2019 - 12:48:29 PST)
[AMBER] pytraj time
(Thu Jan 31 2019 - 11:44:26 PST)
Shirin Jamshidi
[AMBER] PCA Analyze mode evec.pev
(Tue Jan 22 2019 - 03:01:25 PST)
Souvik Dey
[AMBER] Error in conversion from charmmgui to AMBER format
(Thu Jan 24 2019 - 16:21:03 PST)
Stefan Ivanov
[AMBER] detecting bridging waters and ions with cpptraj
(Fri Jan 18 2019 - 02:48:17 PST)
Stephan Schott
Re: [AMBER] lipidscd S.D.
(Tue Jan 29 2019 - 08:21:42 PST)
Re: [AMBER] lipidscd S.D.
(Mon Jan 28 2019 - 09:26:24 PST)
Re: [AMBER] Unusual separation between protein and ligand
(Sat Jan 26 2019 - 11:41:30 PST)
[AMBER] lipidscd S.D.
(Tue Jan 22 2019 - 06:44:27 PST)
Re: [AMBER] CUDA and Restraint Error
(Sat Jan 05 2019 - 06:55:49 PST)
Re: [AMBER] Understanding Distance Restraint
(Thu Jan 03 2019 - 02:21:54 PST)
Subha Kalyaanamoorthy
[AMBER] Modifying mdread2.F90 for bad atom type: "I" MMPBSA error
(Fri Jan 11 2019 - 10:29:45 PST)
[AMBER] MMPBSA.py- bad atom type "I"
(Thu Jan 10 2019 - 11:20:33 PST)
Sundar
Re: [AMBER] Interpreting MM-(GB)PBSA results
(Wed Jan 30 2019 - 10:22:22 PST)
[AMBER] Interpreting MM-(GB)PBSA results
(Sat Jan 26 2019 - 17:43:57 PST)
[AMBER] Suggestions on MM-(GB)PBSA
(Mon Jan 21 2019 - 23:20:56 PST)
Re: [AMBER] Zeolite simulations
(Sat Jan 19 2019 - 19:54:38 PST)
[AMBER] time-dependent distance restraints
(Thu Jan 17 2019 - 08:07:47 PST)
Re: [AMBER] Separate work values for each restraint in SMD
(Wed Jan 16 2019 - 07:38:30 PST)
Re: [AMBER] Printing distance values to a file
(Wed Jan 16 2019 - 07:29:52 PST)
Re: [AMBER] simulation with glycans
(Wed Jan 16 2019 - 07:14:33 PST)
[AMBER] Separate work values for each restraint in SMD
(Wed Jan 16 2019 - 07:10:17 PST)
[AMBER] Printing distance values to a file
(Tue Jan 15 2019 - 14:18:29 PST)
[AMBER] mutation using pdb4amber
(Mon Jan 14 2019 - 10:51:36 PST)
Re: [AMBER] Zeolite simulations
(Mon Jan 14 2019 - 06:42:09 PST)
Re: [AMBER] Installation error on cray machine
(Fri Jan 11 2019 - 09:34:38 PST)
[AMBER] TMD reporting force profile
(Fri Jan 11 2019 - 08:04:40 PST)
[AMBER] Installation error on cray machine
(Thu Jan 10 2019 - 12:23:58 PST)
[AMBER] TMD and pmemd
(Wed Jan 09 2019 - 12:15:06 PST)
Re: [AMBER] makeDIST_RST
(Wed Jan 09 2019 - 12:13:16 PST)
[AMBER] makeDIST_RST
(Tue Jan 08 2019 - 13:51:54 PST)
[AMBER] QM/MM-GBSA results
(Sat Jan 05 2019 - 14:21:55 PST)
[AMBER] Si and Al parameters
(Sat Jan 05 2019 - 14:17:44 PST)
Re: [AMBER] Error with mdnab from amberlite
(Fri Jan 04 2019 - 21:08:06 PST)
[AMBER] Zeolite simulations
(Thu Jan 03 2019 - 21:06:06 PST)
[AMBER] Error with mdnab from amberlite
(Wed Jan 02 2019 - 17:30:57 PST)
Thakur, Abhishek
[AMBER] average mulliken charges
(Mon Jan 07 2019 - 08:50:35 PST)
Thomas Cheatham
Re: [AMBER] DMF
(Wed Jan 02 2019 - 19:21:23 PST)
Thomas Evangelidis
[AMBER] pytraj Error: No reference set, cannot select by distance.
(Thu Jan 17 2019 - 07:48:46 PST)
Vasantha Kumar
[AMBER] Amber energy minimization and the energy unit
(Thu Jan 10 2019 - 20:45:10 PST)
Vincenzo Maria D'Amore
Re: [AMBER] Fwd: Amber parameters for Boron atom
(Mon Jan 21 2019 - 02:17:43 PST)
[AMBER] Fwd: Amber parameters for Boron atom
(Sat Jan 19 2019 - 10:23:51 PST)
[AMBER] Amber parameters for Boron atom
(Thu Jan 17 2019 - 05:48:46 PST)
Wesley Michael Botello-Smith
Re: [AMBER] Interpreting MM-(GB)PBSA results
(Wed Jan 30 2019 - 10:41:07 PST)
Re: [AMBER] pytraj native contacts
(Wed Jan 23 2019 - 10:35:02 PST)
Re: [AMBER] TMD and pmemd
(Wed Jan 09 2019 - 12:25:43 PST)
Xiaocong Wang
Re: [AMBER] Calculated dipole moment in AMBER
(Wed Jan 02 2019 - 17:45:15 PST)
[AMBER] Calculated dipole moment in AMBER
(Wed Jan 02 2019 - 07:22:25 PST)
Yazan Haddad
Re: [AMBER] Amber installation
(Tue Jan 08 2019 - 07:59:28 PST)
Re: [AMBER] Amber installation
(Mon Jan 07 2019 - 23:48:58 PST)
[AMBER] Amber installation
(Mon Jan 07 2019 - 08:07:07 PST)
Zuo, Zhicheng
Re: [AMBER] Literature about magnesium ion parameters in tutorial A8
(Thu Jan 03 2019 - 12:19:03 PST)
张浩淼
[AMBER] gpu_shuttle_post_data can't work in the implicit solvent
(Fri Jan 11 2019 - 21:23:22 PST)
高含露
Re: [AMBER] MCPB.py problem
(Mon Jan 21 2019 - 04:49:25 PST)
Re: [AMBER] Metal center molecule
(Tue Jan 15 2019 - 19:41:47 PST)
Last message date
:
Thu Jan 31 2019 - 13:00:02 PST
Archived on
: Wed Apr 24 2024 - 05:55:45 PDT
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