Amber Archive Nov 2010: by date

Sunday, 31 October 2010
- Re: [AMBER] GPU high temperature unfolding simulation Ye MEI
- [AMBER] Interaction energy calculation aneesh cna
Monday, 1 November 2010
- Re: [AMBER] SCC-DFT orbitals Gustavo Seabra
- [AMBER] Forward: Sander file name length bug Don.Bashford.stjude.org
- Re: [AMBER] Interaction energy calculation Alessandro Nascimento
- Re: [AMBER] Forward: Sander file name length bug case
- Re: [AMBER] SCC-DFT orbitals arikcohen
- Re: [AMBER] SCC-DFT orbitals Gustavo Seabra
- [AMBER] possible bug: problem with defining per-residue energies using RRES & LRES g t
- Re: [AMBER] possible bug: problem with defining per-residue energies using RRES & LRES Jason Swails
- [AMBER] RESP at antechamber juan roman
Tuesday, 2 November 2010
- [AMBER] AMBER: molsurf.c error 王亚茹
- [AMBER] Amber10 segmentation fault with AIX Andrew Emerson
- Re: [AMBER] extract distribution from PairwiseDistances Yannick SPILL
- Re: [AMBER] RESP at antechamber Jason Swails
- Re: [AMBER] AMBER: molsurf.c error Jason Swails
- [AMBER] Cluster PairwiseDistances Beale, John
- [AMBER] Plumed David Beveridge
- [AMBER] Proj into RMSD Space David Beveridge
- [AMBER] Plumed David Beveridge
- [AMBER] Remove solvent molecules from the rst files Baptiste Legrand
- Re: [AMBER] Remove solvent molecules from the rst files Lekpa Duukori
- Re: [AMBER] Remove solvent molecules from the rst files Jason Swails
- Re: [AMBER] Amber10 segmentation fault with AIX Ross Walker
- Re: [AMBER] GPU high temperature unfolding simulation Ross Walker
- Re: [AMBER] extract distribution from PairwiseDistances Bill Ross
- [AMBER] Problem of RMSd plotting using merged tarjectories Hoshin Kim
- [AMBER] R.E.D.III.x tutorial1 question Computational Chemist
- Re: [AMBER] R.E.D.III.x tutorial1 question Jason Swails
- Re: [AMBER] Problem of RMSd plotting using merged tarjectories Bill Ross
- Re: [AMBER] GPU high temperature unfolding simulation andy ng
- Re: [AMBER] R.E.D.III.x tutorial1 question FyD
Wednesday, 3 November 2010
- [AMBER] j-restrained peptide Rossella Noschese
- Re: [AMBER] j-restrained peptide case
- Re: [AMBER] j-restrained peptide Rossella Noschese
- [AMBER] using MM-PBSA with Zn ions. Roman Osman
- [AMBER] Targeted MD Jordan, Brad
- Re: [AMBER] using MM-PBSA with Zn ions. Bill Miller III
- Re: [AMBER] Targeted MD Carlos Simmerling
- Re: [AMBER] Targeted MD Jordan, Brad
- Re: [AMBER] Targeted MD - minimization problem Jordan, Brad
- Re: [AMBER] using MM-PBSA with Zn ions. Roman Osman
- [AMBER] how to change the charge in all_amino94.lib zhihong ke
- Re: [AMBER] how to change the charge in all_amino94.lib FyD
- Re: [AMBER] how to change the charge in all_amino94.lib Bill Ross
- Re: [AMBER] how to change the charge in all_amino94.lib Bill Ross
- Re: [AMBER] how to change the charge in all_amino94.lib zhihong ke
- Re: [AMBER] how to change the charge in all_amino94.lib Bill Ross
- [AMBER] How the box info is used Ilyas Yildirim
- [AMBER] MMPBSA parameters Michael Petersen
- Re: [AMBER] How the box info is used Bill Ross
- Re: [AMBER] How the box info is used Ilyas Yildirim
- Re: [AMBER] How the box info is used Thomas Cheatham III
- Re: [AMBER] How the box info is used Bill Ross
- Re: [AMBER] MMPBSA parameters Jason Swails
- Re: [AMBER] How the box info is used Ilyas Yildirim
- Re: [AMBER] How the box info is used Ilyas Yildirim
- Re: [AMBER] j-restrained peptide case
- Re: [AMBER] How the box info is used Bill Ross
- Re: [AMBER] How the box info is used Ilyas Yildirim
Thursday, 4 November 2010
- Re: [AMBER] Amber10 segmentation fault with AIX Andrew Emerson
- [AMBER] SASA Beale, John
- Re: [AMBER] Error message from binding_energy.mmpbsa Jason Swails
- [AMBER] ptraj-area per lipid and order parameter colvin
- Re: [AMBER] SASA Jason Swails
- Re: [AMBER] Error message from binding_energy.mmpbsa bin wang
- Re: [AMBER] Error message from binding_energy.mmpbsa Jason Swails
- [AMBER] mm_pbsa.pl doesn't work after the bugfixes bin wang
- [AMBER] Binding energy and conformation John S
- [AMBER] AMBER QMMM MPI scaling Xiaohu Li
- [AMBER] Release of R.E.D. Server 2.0 FyD
- Re: [AMBER] Binding energy and conformation Jason Swails
- Re: [AMBER] AMBER QMMM MPI scaling Ross Walker
- Re: [AMBER] Error message from binding_energy.mmpbsa bin wang
- [AMBER] amber tool 1.4 Install error Alice Wang
- Re: [AMBER] amber tool 1.4 Install error David Watson
- Re: [AMBER] amber tool 1.4 Install error Alice Wang
- Re: [AMBER] amber tool 1.4 Install error Alice Wang
- Re: [AMBER] amber tool 1.4 Install error David Watson
Friday, 5 November 2010
- Re: [AMBER] MMPBSA ligand/receptor selections mirage .
- Re: [AMBER] amber tool 1.4 Install error case
- Re: [AMBER] possible bug: problem with defining per-residue energies using RRES & LRES g t
- Re: [AMBER] possible bug: problem with defining per-residue energies using RRES & LRES Jason Swails
- Re: [AMBER] possible bug: problem with defining per-residue energies using RRES & LRES g t
- Re: [AMBER] possible bug: problem with defining per-residue energies using RRES & LRES case
- Re: [AMBER] possible bug: problem with defining per-residue energies using RRES & LRES Jason Swails
- [AMBER] Question about FEP and GPU TJ Mustard
- Re: [AMBER] Question about FEP and GPU Jason Swails
Saturday, 6 November 2010
- [AMBER] (no subject) kanon gemini
- [AMBER] solvatebox John S
- Re: [AMBER] RESP at antechamber juan roman
- Re: [AMBER] RESP at antechamber juan roman
- Re: [AMBER] solvatebox case
- Re: [AMBER] (no subject) Bill Ross
- Re: [AMBER] solvatebox Bill Ross
- Re: [AMBER] solvatebox M. L. Dodson
Sunday, 7 November 2010
- [AMBER] QM/MM energy terms Davide Branduardi
- Re: [AMBER] amber tool 1.4 Install error Tru Huynh
- Re: [AMBER] QM/MM energy terms Andreas Goetz
- [AMBER] Extra points Jason S Grosch
Monday, 8 November 2010
- [AMBER] How to define trivalent Sulphur ligand atom Mannan
- [AMBER] How to prepare the MMPBSA file? xuemeiwang1103
- [AMBER] mmpbsa error Alice Wang
- [AMBER] How to prepare the MMPBSA file? xuemeiwang1103
- Re: [AMBER] How to prepare the MMPBSA file? Bill Miller III
- Re: [AMBER] Extra points case
- Re: [AMBER] mmpbsa error Alice Wang
- Re: [AMBER] How to prepare the MMPBSA file? Jason Swails
- Re: [AMBER] How to define trivalent Sulphur ligand atom Jason Swails
- Re: [AMBER] mmpbsa error Ray Luo, Ph.D.
- [AMBER] About NEB calculation form amber 11 Buddhadev Maiti
- Re: [AMBER] About NEB calculation form amber 11 Carlos Simmerling
- [AMBER] About NEB calculation from amber 11 Buddhadev Maiti
- Re: [AMBER] Amber force-field compatibility Ross Walker
- Re: [AMBER] Amber force-field compatibility Carlos Simmerling
- [AMBER] About NEB calculation from amber 11 Buddhadev Maiti
- [AMBER] Amber 11 single and multiple GPU question Frank X. Vázquez
- Re: [AMBER] mmpbsa error Alice Wang
- Re: [AMBER] Amber 11 single and multiple GPU question Scott Le Grand
- Re: [AMBER] mmpbsa error Alice Wang
- Re: [AMBER] About NEB calculation from amber 11 Carlos Simmerling
- Re: [AMBER] Amber 11 single and multiple GPU question Ross Walker
- Re: [AMBER] using MM-PBSA with Zn ions. Roman Osman
- Re: [AMBER] TI +- variance is coming out to be very high sunita gupta
Tuesday, 9 November 2010
- [AMBER] (no subject) Yokota_Akihiro.takeda.co.jp
- [AMBER] "excluded atoms" declaration Yokota_Akihiro.takeda.co.jp
- Re: [AMBER] "excluded atoms" declaration Carlos Simmerling
- [AMBER] RMSD vs reference substructure Kasprzak, Wojciech (NIH/NCI) [C]
- Re: [AMBER] RMSD vs reference substructure Thomas Cheatham
- Re: [AMBER] (no subject) Jason Swails
- Re: [AMBER] "excluded atoms" declaration Jason Swails
- [AMBER] Problem in MD simulations of DNA using ABC protocol abc def
- Re: [AMBER] Problem in MD simulations of DNA using ABC protocol Thomas Cheatham III
- [AMBER] Inquire about AMBER10 ? Xingqing Xiao
- Re: [AMBER] Inquire about AMBER10 ? Jason Swails
- Re: [AMBER] Inquire about AMBER10 ? Jason Swails
- [AMBER] mmpbsa.py - weird nmode results Khaled Barakat
- Re: [AMBER] "excluded atoms" declaration Yokota_Akihiro.takeda.co.jp
- Re: [AMBER] "excluded atoms" declaration Yokota_Akihiro.takeda.co.jp
- Re: [AMBER] mmpbsa.py - weird nmode results Bill Miller III
- [AMBER] Counting water molecules aneesh cna
Wednesday, 10 November 2010
- [AMBER] about dihedralcluster Balazs Jojart
- Re: [AMBER] mmpbsa.py - weird nmode results Jason Swails
- [AMBER] About NEB calculation in NPT ensemble Buddhadev Maiti
- Re: [AMBER] About NEB calculation in NPT ensemble Carlos Simmerling
- Re: [AMBER] about dihedralcluster Daniel Roe
- Re: [AMBER] about dihedralcluster Balazs Jojart
- [AMBER] MMPBSA.py Error: Unknown block, '&decomp'. Check input! kbarakat.ualberta.ca
- Re: [AMBER] MMPBSA.py Error: Unknown block, '&decomp'. Check input! Bill Miller III
- Re: [AMBER] MMPBSA.py Error: Unknown block, '&decomp'. Check input! Jason Swails
- [AMBER] relaxation of the density correlation functions of a molecule Philippe Pinard
- [AMBER] Serious problem at specific time point Hoshin Kim
- Re: [AMBER] Serious problem at specific time point Bill Ross
- Re: [AMBER] Serious problem at specific time point Jason Swails
- Re: [AMBER] Serious problem at specific time point Thomas Cheatham III
Thursday, 11 November 2010
- Re: [AMBER] Serious problem at specific time point Jason Swails
- [AMBER] To All - Consider Switching to NetCDF Daniel Roe
- [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 Dean Cuebas
- Re: [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 Jason Swails
- Re: [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 David Watson
- Re: [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 Daniel Roe
- Re: [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 Jason Swails
- Re: [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 Jason Swails
- Re: [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 Bill Ross
- [AMBER] mm_pbsa.pl and MMPBSA.py issues in Amber-11 Jemmy Hu
- Re: [AMBER] mm_pbsa.pl and MMPBSA.py issues in Amber-11 Jason Swails
- Re: [AMBER] mm_pbsa.pl and MMPBSA.py issues in Amber-11 Jemmy Hu
- Re: [AMBER] mm_pbsa.pl and MMPBSA.py issues in Amber-11 Jason Swails
Wednesday, 10 November 2010
- Re: [AMBER] Serious problem at specific time point Hoshin Kim
Thursday, 11 November 2010
- Re: [AMBER] Serious problem at specific time point Bill Ross
- [AMBER] Atom type assignment using GAFF abc def
- [AMBER] decomposition problems fancy2012
- Re: [AMBER] decomposition problems Bill Miller III
Friday, 12 November 2010
- [AMBER] about MMPBSA xuemeiwang1103
- [AMBER] Regarding Hydrogen Bonds Ashish Runthala
- [AMBER] Fwd: Atom type assignment using GAFF abc def
- [AMBER] nonpolar term in MM-PBSA Chanchal
- Re: [AMBER] nonpolar term in MM-PBSA Jason Swails
- Re: [AMBER] nonpolar term in MM-PBSA Chanchal
- [AMBER] protonate a non standard residu Philippe Pinard
- Re: [AMBER] relaxation of the density correlation functions of a molecule Philippe Pinard
- Re: [AMBER] protonate a non standard residu Jason Swails
- Re: [AMBER] protonate a non standard residu Philippe Pinard
- [AMBER] how to configure/compile to get sander.RISM? Magdalena Gruziel
- Re: [AMBER] how to configure/compile to get sander.RISM? Jason Swails
- Re: [AMBER] how to configure/compile to get sander.RISM? Tyler Luchko
- Re: [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 Dean Cuebas
- Re: [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 Jason Swails
- Re: [AMBER] Compiling Ambertools 1.4 on MacBook SnowLeopard10.6.4 Dean Cuebas
Saturday, 13 November 2010
- Re: [AMBER] decomposition problems fancy2012
- Re: [AMBER] decomposition problems fancy2012
- [AMBER] can mmpbsa calculation be restarted by the file "restrt"? Alice Wang
- [AMBER] about MMPBSA xuemeiwang1103
- Re: [AMBER] can mmpbsa calculation be restarted by the file "restrt"? Jason Swails
Sunday, 14 November 2010
- Re: [AMBER] about MMPBSA Dwight McGee
- [AMBER] GPU related issues Ye MEI
Monday, 15 November 2010
- [AMBER] ptraj distance mirage .
- [AMBER] Watershell fernando
- Re: [AMBER] GPU related issues case
- [AMBER] metadynamics fancy2012
- [AMBER] mmpbsa with rigid bonds ? Jose Borreguero
- Re: [AMBER] mmpbsa with rigid bonds ? Bill Miller III
- Re: [AMBER] metadynamics Jason Swails
- Re: [AMBER] mmpbsa with rigid bonds ? Adrian Roitberg
- Re: [AMBER] metadynamics Marek Maly
- [AMBER] Citation of Amber Giorgos Lamprinidis
- Re: [AMBER] Citation of Amber Marek Maly
- Re: [AMBER] metadynamics Davide Branduardi
- Re: [AMBER] mmpbsa with rigid bonds ? Jose Borreguero
- Re: [AMBER] mmpbsa with rigid bonds ? Jason Swails
- Re: [AMBER] mmpbsa with rigid bonds ? Jose Borreguero
- [AMBER] Sander with restrained atoms Dian Jiao
- [AMBER] Restraints questions Mickey Richards
- Re: [AMBER] Sander with restrained atoms case
- [AMBER] Amber10 installation problem on MPICH1 Shaandar Nyamtulga
- Re: [AMBER] Amber10 installation problem on MPICH1 Ye MEI
- Re: [AMBER] Sander with restrained atoms Dian Jiao
- Re: [AMBER] Amber10 installation problem on MPICH1 Shaandar Nyamtulga
- Re: [AMBER] Amber10 installation problem on MPICH1 Ye MEI
- Re: [AMBER] Amber10 installation problem on MPICH1 Shaandar Nyamtulga
Tuesday, 16 November 2010
- Re: [AMBER] metadynamics fancy2012
- [AMBER] STOP no longer optional in mm_pbsa.pl Don.Bashford.stjude.org
- Re: [AMBER] Sander with restrained atoms case
- Re: [AMBER] Amber10 installation problem on MPICH1 case
- [AMBER] gaff-parametrisation - how many conformation for a flexible molecule Schlesier, Thomas
- Re: [AMBER] Amber10 installation problem on MPICH1 Shaandar Nyamtulga
- Re: [AMBER] Amber10 installation problem on MPICH1 Shaandar Nyamtulga
- Re: [AMBER] Amber10 installation problem on MPICH1 Jason Swails
Wednesday, 17 November 2010
- Re: [AMBER] gaff-parametrisation - how many conformation for a flexible molecule FyD
- [AMBER] nmode error xuemeiwang1103
- [AMBER] D2O Philippe Pinard
- Re: [AMBER] D2O Adrian Roitberg
- [AMBER] Amber 11 installation problems Linus Johannissen
- Re: [AMBER] Amber 11 installation problems Jason Swails
- Re: [AMBER] Amber 11 installation problems Linus Johannissen
- Re: [AMBER] Amber 11 installation problems case
- Re: [AMBER] Amber 11 installation problems Tru Huynh
- Re: [AMBER] Amber 11 installation problems Linus Johannissen
- [AMBER] about velocity output hong-bin Xie
- Re: [AMBER] Amber 11 installation problems Jason Swails
- Re: [AMBER] about velocity output Jason Swails
- Re: [AMBER] about velocity output hong-bin Xie
- Re: [AMBER] about velocity output Jason Swails
- Re: [AMBER] about velocity output hong-bin Xie
- Re: [AMBER] about velocity output M. L. Dodson
- Re: [AMBER] Amber 11 installation problems Scott Brozell
- [AMBER] Error message in AMBER when running protein-protein complexes. Catein Catherine
- [AMBER] Clarification in HBond analysis kureeckal ramesh
- [AMBER] LJ interactions and cutoff manoj singh
- [AMBER] Truncated Octahedron Box in Amber9 Bertrand Russell
Thursday, 18 November 2010
- Re: [AMBER] Amber10 installation problem on MPICH1 Shaandar Nyamtulga
- Re: [AMBER] Truncated Octahedron Box in Amber9 Alexander Metz
- Re: [AMBER] nmode error xuemeiwang1103
- Re: [AMBER] LJ interactions and cutoff case
- Re: [AMBER] Amber10 installation problem on MPICH1 case
- Re: [AMBER] about velocity output George Madalin Giambasu
- [AMBER] distance restraint, recenter Nadine Utz
- Re: [AMBER] distance restraint, recenter case
- Re: [AMBER] distance restraint, recenter Niel Henriksen
- [AMBER] xray_interface.f verified to work with PGI7.1-1 Rathbone, Dan L
- Re: [AMBER] Error message in AMBER when running protein-protein complexes. Jason Swails
- Re: [AMBER] nmode error Jason Swails
- Re: [AMBER] xray_interface.f verified to work with PGI7.1-1 case
- [AMBER] MMPBSA.py patch failed bin wang
- Re: [AMBER] MMPBSA.py patch failed Jason Swails
- [AMBER] Thanks - xray_interface.f verified to work with PGI7.1-1 Rathbone, Dan L
- Re: [AMBER] about velocity output hong-bin Xie
- [AMBER] non-bonding parameters Eliac Brown
- Re: [AMBER] MMPBSA.py patch failed bin wang
- Re: [AMBER] non-bonding parameters Jason Swails
- [AMBER] How to study the dissociation pathway for two proteins with AMBER10? Catein Catherine
- [AMBER] The problems with constant pH cwt
Friday, 19 November 2010
- Re: [AMBER] non-bonding parameters Eliac Brown
- [AMBER] freezing bonds in parallel version Stefano Pieraccini
- Re: [AMBER] non-bonding parameters Jason Swails
- Re: [AMBER] The problems with constant pH Jason Swails
- Re: [AMBER] How to study the dissociation pathway for two proteins with AMBER10? Jason Swails
- Re: [AMBER] GPU related issues Ross Walker
- Re: [AMBER] GPU related issues Scott Le Grand
- Re: [AMBER] non-bonding parameters Bill Ross
- Re: [AMBER] GPU related issues/GTX400 series Sergio R Aragon
- Re: [AMBER] non-bonding parameters Eliac Brown
- Re: [AMBER] non-bonding parameters Eliac Brown
- Re: [AMBER] non-bonding parameters Bill Ross
- Re: [AMBER] non-bonding parameters Jason Swails
- [AMBER] nmode problem with mm-pbsa.pl Khaled Barakat
- Re: [AMBER] GPU related issues/GTX400 series Scott Le Grand
Saturday, 20 November 2010
- Re: [AMBER] GPU related issues/GTX400 series Gould, Ian R
- Re: [AMBER] GPU related issues/GTX400 series tanya singh
- [AMBER] AMBER, tanya singh has invited you to open a Gmail account tanya singh
Sunday, 21 November 2010
- Re: [AMBER] nmode problem with mm-pbsa.pl case
- Re: [AMBER] D2O setyanto md
- Re: [AMBER] D2O Jason Swails
- Re: [AMBER] D2O case
Monday, 22 November 2010
- [AMBER] regarding hierarchical clustering jani vinod
- Re: [AMBER] j-restrained peptide Rossella Noschese
- [AMBER] Difference of internal energy Kshatresh Dutta Dubey
- Re: [AMBER] Difference of internal energy Jason Swails
- Re: [AMBER] freezing bonds in parallel version case
- [AMBER] average structure aneesh cna
- Re: [AMBER] Restraints questions case
- Re: [AMBER] average structure Carlos Simmerling
- Re: [AMBER] D2O Bill Ross
- Re: [AMBER] Restraints questions Mickey Richards
- [AMBER] nmode: dihedral angle error Michael Petersen
- [AMBER] ptraj and ambpdb problem in Amber Tools 1.4 Michael F. Bruist
- Re: [AMBER] ptraj and ambpdb problem in Amber Tools 1.4 Thomas Cheatham III
- Re: [AMBER] regarding hierarchical clustering Jianyin Shao
- [AMBER] binding free energy by MM_PBSA Shuang Ding
- Re: [AMBER] binding free energy by MM_PBSA Carlos Simmerling
- [AMBER] SASA and Molecular Volume Hopkins, Robert
- [AMBER] Clarification in HBond analysis kureeckal ramesh
- Re: [AMBER] Can we run sanders on GPU ? setyanto md
- [AMBER] To continue the job-Reg....... parasu raman
- Re: [AMBER] Trajectory John S
Tuesday, 23 November 2010
- Re: [AMBER] To continue the job-Reg....... Mark Williamson
- Re: [AMBER] Trajectory Carlos Simmerling
- Re: [AMBER] Can we run sanders on GPU ? Jason Swails
- [AMBER] does the "set UNIT box { X Y Z }" command create a periodic box? Jose Borreguero
- [AMBER] REMD replicas blowing up Janzsó Gábor
- Re: [AMBER] does the "set UNIT box { X Y Z }" command create a periodic box? case
- Re: [AMBER] does the "set UNIT box { X Y Z }" command create a periodic box? Jose Borreguero
- [AMBER] small organic molecule Rossella Noschese
- [AMBER] Any Force field parameters for Zn, Mg and Mn in AMBER? Catein Catherine
- Re: [AMBER] REMD replicas blowing up Carlos Simmerling
- Re: [AMBER] REMD replicas blowing up Janzsó Gábor
- Re: [AMBER] small organic molecule case
- [AMBER] Parameterization of ffamber99sb for octane box YUVRAJ UBOVEJA
- Re: [AMBER] Trajectory John S
- Re: [AMBER] Trajectory Thomas Cheatham III
- [AMBER] lib and frcmod files for sucrose? Jose Borreguero
- Re: [AMBER] Trajectory John S
- Re: [AMBER] Trajectory Carlos Simmerling
- Re: [AMBER] REMD replicas blowing up Carlos Simmerling
- Re: [AMBER] lib and frcmod files for sucrose? Lachele Foley (Lists)
- Re: [AMBER] lib and frcmod files for sucrose? Jose Borreguero
- Re: [AMBER] lib and frcmod files for sucrose? Lachele Foley (Lists)
- Re: [AMBER] Trajectory John S
- Re: [AMBER] lib and frcmod files for sucrose? Jose Borreguero
- [AMBER] Amber10 installation problem Shaandar Nyamtulga
- [AMBER] MMPBSA John S
- Re: [AMBER] MMPBSA Jason Swails
- Re: [AMBER] regarding hierarchical clustering jani vinod
- Re: [AMBER] MMPBSA Roman Osman
Wednesday, 24 November 2010
- Re: [AMBER] Trajectory Carlos Simmerling
- Re: [AMBER] GPU related issues/GTX400 series and GTX580 Gould, Ian R
- Re: [AMBER] Error Compiling NAB o AMBER Tools 1.2 Janusz Mordarski
- Re: [AMBER] Amber10 installation problem case
- Re: [AMBER] MMPBSA John S
- [AMBER] Error when running MMPBSA.py bin wang
- Re: [AMBER] Error Compiling NAB o AMBER Tools 1.2 case
- Re: [AMBER] Error when running MMPBSA.py Bill Miller III
- Re: [AMBER] MMPBSA Jason Swails
- [AMBER] Excluded atoms list Jason S Grosch
- Re: [AMBER] Excluded atoms list Bill Ross
- [AMBER] I can unzip Amber 9 in Linux Ubuntu. But when i follow the install instruction g95 i have some problems Tiefeng Peng
- [AMBER] solute in TIP4P box Aiko Matsumoto
- Re: [AMBER] Excluded atoms list Ross Walker
- Re: [AMBER] I can unzip Amber 9 in Linux Ubuntu. But when i follow the install instruction g95 i have some problems Tiefeng Peng
- [AMBER] vlimit exceeded for step Coordinate resetting (SHAKE) cannot be accomplished, deviation is too large sunita gupta
Thursday, 25 November 2010
- Re: [AMBER] I can unzip Amber 9 in Linux Ubuntu. But when i follow the install instruction g95 i have some problems case
- [AMBER] Leap adding an extra incorrect hydrogen Almus
- [AMBER] where to check output restraint-wt (ntr=1) decleared with restraintmask xueqin pang
- Re: [AMBER] Can we run sanders on GPU ? setyanto md
- Re: [AMBER] where to check output restraint-wt (ntr=1) decleared with restraintmask Jason Swails
- Re: [AMBER] Leap adding an extra incorrect hydrogen Jason Swails
- Re: [AMBER] I can unzip Amber 9 in Linux Ubuntu. But when i follow the install instruction g95 i have some problems Tiefeng Peng
- [AMBER] sander: Cannot match namelist object name scee Andre Serobian
- Re: [AMBER] sander: Cannot match namelist object name scee Scott Brozell
- Re: [AMBER] I can unzip Amber 9 in Linux Ubuntu. But when i follow the install instruction g95 i have some problems case
Friday, 26 November 2010
- Re: [AMBER] where to check output restraint-wt (ntr=1) decleared with restraintmask xueqin pang
- Re: [AMBER] Leap adding an extra incorrect hydrogen Almus
- [AMBER] solute in TIP4P box Aiko Matsumoto
- Re: [AMBER] Leap adding an extra incorrect hydrogen case
- Re: [AMBER] solute in TIP4P box case
- Re: [AMBER] where to check output restraint-wt (ntr=1) decleared with restraintmask case
- Re: [AMBER] vlimit exceeded for step Coordinate resetting (SHAKE) cannot be accomplished, deviation is too large case
- Re: [AMBER] nmode: dihedral angle error case
- [AMBER] Could not read velocities from amin.crd Ashutosh Shandilya
Saturday, 27 November 2010
- Re: [AMBER] Could not read velocities from amin.crd case
- Re: [AMBER] Could not read velocities from amin.crd case
- Re: [AMBER] Could not read velocities from amin.crd Bill Ross
- [AMBER] force field searching Eliac Brown
- Re: [AMBER] force field searching case
Monday, 29 November 2010
- Re: [AMBER] REMD replicas blowing up Janzsó Gábor
- [AMBER] Monte Carlo Alok Juneja
- Re: [AMBER] Monte Carlo case
Tuesday, 30 November 2010
- [AMBER] problem with TMD Su Qiu
- Re: [AMBER] REMD replicas blowing up Carlos Simmerling
- Re: [AMBER] REMD replicas blowing up Adrian Roitberg
- [AMBER] Benzene Stacking in AMBER Eliac Brown
- Re: [AMBER] Benzene Stacking in AMBER Adrian Roitberg
- Re: [AMBER] Benzene Stacking in AMBER Eliac Brown
- Re: [AMBER] Benzene Stacking in AMBER Adrian Roitberg
- [AMBER] (no subject) Nilmeier, Jerome P.
- Re: [AMBER] Benzene Stacking in AMBER Ross Walker
- Re: [AMBER] Benzene Stacking in AMBER Thomas Cheatham
- Re: [AMBER] GLYCAM with FF99SB Emmanuel Baribefe Naziga
- Re: [AMBER] GLYCAM with FF99SB Lachele Foley (Lists)
- Re: [AMBER] top and crd-reg.............. Ross Walker

Last message date: Tue Nov 30 2010 - 20:30:05 PST
Archived on: Fri Nov 15 2024 - 05:54:14 PST

Amber Archive Nov 2010 by date