Amber Archive Aug 2019: by date

Thursday, 1 August 2019
- [AMBER] error in Cuda installtion Karim Mahnam
- Re: [AMBER] error in Cuda installtion Daniel Roe
- Re: [AMBER] error in Cuda installtion David A Case
- [AMBER] 1-4 EvdW and 1-4 EEL Lod King
Friday, 2 August 2019
- Re: [AMBER] 1-4 EvdW and 1-4 EEL David A Case
- Re: [AMBER] 1-4 EvdW and 1-4 EEL David Cerutti
- Re: [AMBER] 1-4 EvdW and 1-4 EEL Lod King
- [AMBER] RTX 5000 cards and AMBER 16 compatibility Laura Furge
- Re: [AMBER] RTX 5000 cards and AMBER 16 compatibility Hashemi, Mohtadin
- Re: [AMBER] Constant pH MD + HMR Jason Swails
Monday, 5 August 2019
- [AMBER] Simulations without PME Tom Kurtzman
- Re: [AMBER] gaff2 parameters of c3-c3-os-c3 Song, Lin
- Re: [AMBER] gaff2 parameters of c3-c3-os-c3 David Cerutti
- Re: [AMBER] Simulations without PME David Case
- Re: [AMBER] gaff2 parameters of c3-c3-os-c3 David Case
- Re: [AMBER] Simulations without PME Bill Ross
- Re: [AMBER] GaMD Not Running in GPU ATUL KUMAR
Tuesday, 6 August 2019
- [AMBER] $AMBERHOME vs $AMBER_PREFIX Pete Biggs
- Re: [AMBER] $AMBERHOME vs $AMBER_PREFIX Hai Nguyen
- [AMBER] error during the calculation of MMPBSA Jeyaram R A
- Re: [AMBER] error during the calculation of MMPBSA rluo.uci.edu
- Re: [AMBER] error during the calculation of MMPBSA Elvis Martis
- [AMBER] T-leap. Parviz Seifpanahi Shabane
- [AMBER] Specifying size of truncated octahedron box manually Bellesis, Andrew G
- Re: [AMBER] error during the calculation of MMPBSA Jeyaram R A
- Re: [AMBER] error during the calculation of MMPBSA Elvis Martis
- Re: [AMBER] error during the calculation of MMPBSA Jeyaram R A
- Re: [AMBER] error during the calculation of MMPBSA Jeyaram R A
- Re: [AMBER] $AMBERHOME vs $AMBER_PREFIX Pete Biggs
- Re: [AMBER] Simulations without PME Tom Kurtzman
- Re: [AMBER] T-leap. David A Case
- Re: [AMBER] error during the calculation of MMPBSA Jeyaram R A
- Re: [AMBER] error during the calculation of MMPBSA Jeyaram R A
- [AMBER] Alanine scan issue YOGESH NARKHEDE
- Re: [AMBER] error during the calculation of MMPBSA Elvis Martis
- [AMBER] How to generate Free energy landscape for amber trajectory? M RCC
- Re: [AMBER] error during the calculation of MMPBSA Jeyaram R A
- Re: [AMBER] error during the calculation of MMPBSA Elvis Martis
Wednesday, 7 August 2019
- Re: [AMBER] error during the calculation of MMPBSA Thomas Gaillard
- [AMBER] Imaging-rst file error Hira Jabeen
- [AMBER] Lazy Question: File conversion NCRST to RST Gustaf Olsson
- Re: [AMBER] Imaging-rst file error Carlos Simmerling
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Carlos Simmerling
- Re: [AMBER] How to generate Free energy landscape for amber trajectory? Carlos Simmerling
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Daniel Roe
- Re: [AMBER] Imaging-rst file error Hira Jabeen
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Gustaf Olsson
- Re: [AMBER] Imaging-rst file error Carlos Simmerling
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Gustaf Olsson
- Re: [AMBER] Imaging-rst file error Hira Jabeen
- [AMBER] Difference in velocity values between parmed and pytraj Irfan Alibay
- Re: [AMBER] Difference in velocity values between parmed and pytraj Hai Nguyen
- Re: [AMBER] MCPB.py showing error in the step: MCPB.py -i 1OKL.in -s 2 Pengfei Li
- Re: [AMBER] modelling of a penta coordination around zinc ion (+2) using MCPB.py Pengfei Li
- [AMBER] problems with Miniconda installation Elvis Martis
- [AMBER] Transcription factor DNA binding - Gibbs of activation charalamm.cheng.auth.gr
Thursday, 8 August 2019
- [AMBER] ΑΠ: Transcription factor DNA binding - Gibbs of activation Antonios Kolocouris
- Re: [AMBER] How to generate Free energy landscape for amber trajectory? Daniel Roe
- Re: [AMBER] Imaging-rst file error Daniel Roe
- Re: [AMBER] Transcription factor DNA binding - Gibbs of activation Kevin Hauser
- Re: [AMBER] problems with Miniconda installation David A Case
- Re: [AMBER] Imaging-rst file error David A Case
- Re: [AMBER] problems with Miniconda installation Elvis Martis
- [AMBER-Developers] AMBER developer job opening and TI/FEP calculation postdoc opening coming up Christian Schafmeister
- Re: [AMBER] Imaging-rst file error Daniel Roe
- Re: [AMBER] Difference in velocity values between parmed and pytraj Irfan Alibay
- Re: [AMBER] Difference in velocity values between parmed and pytraj Hai Nguyen
- Re: [AMBER] Difference in velocity values between parmed and pytraj Daniel Roe
- Re: [AMBER] problems with Miniconda installation Sunita Patel
Friday, 9 August 2019
- [AMBER] Issues in AMBER-18 Installation Deepika Sardana
- [AMBER] How to calculate the tilt angle of TM helix Maria Bzówka
- Re: [AMBER] problems with Miniconda installation Sunita Patel
- Re: [AMBER] problems with Miniconda installation Elvis Martis
- Re: [AMBER] problems with Miniconda installation Sunita Patel
- Re: [AMBER] gaff2 parameters of c3-c3-os-c3 Song, Lin
- [AMBER] T-leap "does not have a type" Parviz Seifpanahi Shabane
- [AMBER] DNA force field. Parviz Seifpanahi Shabane
- [AMBER] MM-PBSA Alanine scanning issue YOGESH NARKHEDE
- [AMBER] MD on small molecules, The file contained 8 atoms not in residue templates Amen Shamim
- Re: [AMBER] gaff2 parameters of c3-c3-os-c3 Junmei Wang
- Re: [AMBER] How to calculate the tilt angle of TM helix Dickson, Callum
- Re: [AMBER] MM-PBSA Alanine scanning issue Elvis Martis
- Re: [AMBER] How to calculate the tilt angle of TM helix Prajwal Nandekar
Saturday, 10 August 2019
- [AMBER] Installaiton of pmemd for Amber16 Ryoichi Utsumi
- Re: [AMBER] How to calculate the tilt angle of TM helix Daniel Roe
- [AMBER] Error iin running mmpbsa shivangi agarwal
- Re: [AMBER] T-leap "does not have a type" Matias Machado
- Re: [AMBER] DNA force field. Matias Machado
- Re: [AMBER] T-leap "does not have a type" Matias Machado
Sunday, 11 August 2019
- Re: [AMBER] T-leap "does not have a type" David Case
- [AMBER] Question about DFTB3 method with dispersion correction Rajiv
Monday, 12 August 2019
- Re: [AMBER] How to calculate the tilt angle of TM helix Maria Bzówka
- Re: [AMBER] How to calculate the tilt angle of TM helix Stephan Schott
- Re: [AMBER] How to calculate the tilt angle of TM helix Maria Bzówka
- [AMBER] sander engine problem Rui Chen
- Re: [AMBER] sander engine problem Pratul Agarwal
- [AMBER] atom numbering in cpptraj and pytraj Rosellen, Martin
- Re: [AMBER] Question about DFTB3 method with dispersion correction Pavlína Pokorná
- Re: [AMBER] atom numbering in cpptraj and pytraj Hai Nguyen
- Re: [AMBER] atom numbering in cpptraj and pytraj Hai Nguyen
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Daniel Roe
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Gustaf Olsson
Tuesday, 13 August 2019
- [AMBER] OpenMPI 4 and pmemd.cuda.MPI Jose Christian Flores Canales
- Re: [AMBER] OpenMPI 4 and pmemd.cuda.MPI Jose Christian Flores Canales
- [AMBER] NH-pi interaction using ff14SB forcefield Saikat Pal
- Re: [AMBER] OpenMPI 4 and pmemd.cuda.MPI David Case
- Re: [AMBER] NH-pi interaction using ff14SB forcefield Carlos Simmerling
- [AMBER] Problem for the frcmod file from the amber tutorial 辛志宏
- [AMBER] AmberTools19/AMBER18 - FFTW3 and MKL compiling issues viktor drobot
Wednesday, 14 August 2019
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Gustaf Olsson
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Daniel Roe
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Gustaf Olsson
- Re: [AMBER] Lazy Question: File conversion NCRST to RST Gustaf Olsson
- [AMBER] Amber16 + AmberTools19 Jose Javier Muñoz Criollo
- [AMBER] How can I calculate RDF only in a specific region of my system? Lucas Bandeira
- Re: [AMBER] How can I calculate RDF only in a specific region of my system? emanuele falbo
- [AMBER] Segmentation Fault Parviz Seifpanahi Shabane
- Re: [AMBER] Segmentation Fault Bill Ross
- Re: [AMBER] Amber16 + AmberTools19 David Case
- Re: [AMBER] AmberTools19/AMBER18 - FFTW3 and MKL compiling issues David Case
- Re: [AMBER] Segmentation Fault David Case
- Re: [AMBER] Installaiton of pmemd for Amber16 David Case
- Re: [AMBER] Force field for Cecl3, Lacl3 and Prcl3 Pengfei Li
- [AMBER] probelm -- QMMM-MD with ZN（Znic atom）in QM region 东庚
Thursday, 15 August 2019
- [AMBER] Problem Running Antechamber for GTP Akinpelu Olayinka
- Re: [AMBER] Problem Running Antechamber for GTP Elvis Martis
- Re: [AMBER] Problem Running Antechamber for GTP Gustaf Olsson
- [AMBER] Installing Amber parallel option Roy Ashworth
- Re: [AMBER] Installing Amber parallel option Elvis Martis
- [AMBER] Lateral diffusion of lipid head groups Maria Bzówka
- Re: [AMBER] AmberTools19/AMBER18 - FFTW3 and MKL compiling issues viktor drobot
- Re: [AMBER] Installing Amber parallel option Roy Ashworth
- Re: [AMBER] Installing Amber parallel option Elvis Martis
- [AMBER] mmPBSA error in Amber19 suite jacky zhao
- Re: [AMBER] problem with building cpptraj in AmberTools19 A K
- Re: [AMBER] Installing Amber parallel option David Case
- [AMBER] WaterBox is getting distorted while running PMF Airy Sanjeev
Friday, 16 August 2019
- [AMBER] Error in MMPBSA calculation shivangi agarwal
- Re: [AMBER] Error in MMPBSA calculation Ray Luo
- [AMBER] error with CPPTRAj Mohammad Salem
- Re: [AMBER] error with CPPTRAj Mohammad Salem
- Re: [AMBER] Error in MMPBSA calculation shivangi agarwal
- Re: [AMBER] Error in MMPBSA calculation Elvis Martis
- Re: [AMBER] Amber16 + AmberTools19 Jose Javier Muñoz Criollo
- Re: [AMBER] Error in MMPBSA calculation shivangi agarwal
- Re: [AMBER] AmberTools19/AMBER18 - FFTW3 and MKL compiling issues viktor drobot
- Re: [AMBER] WaterBox is getting distorted while running PMF David Cerutti
- Re: [AMBER] Error in MMPBSA calculation RAY LUO, Ph.D.
- Re: [AMBER] AmberTools19/AMBER18 - FFTW3 and MKL compiling issues David Case
- Re: [AMBER] Amber16 + AmberTools19 David Case
- [AMBER] volume in pytraj? Shayna Hilburg
- Re: [AMBER] volume in pytraj? Hai Nguyen
- Re: [AMBER] AmberTools19/AMBER18 - FFTW3 and MKL compiling issues Tyler Luchko (Lists)
- [AMBER] Question about running MMPBSA.py with a mask to exclude certain residues A K
- [AMBER] mismatch between parm files from CHARMM-GUI and chamber Quynh Vo
- [AMBER] probelm -- QMMM-MD with ZN（Znic atom）in QM region 东庚
- Re: [AMBER] probelm -- QMMM-MD with ZN（Znic atom）in QM region Pengfei Li
Saturday, 17 August 2019
- [AMBER] Error searching for compatible GPU in Amber18 Karim Mahnam
- Re: [AMBER] AmberTools19/AMBER18 - FFTW3 and MKL compiling issues viktor drobot
- Re: [AMBER] mmPBSA error in Amber19 suite jacky zhao
- Re: [AMBER] Error in MMPBSA calculation jacky zhao
- Re: [AMBER] mmPBSA error in Amber19 suite David Case
- Re: [AMBER] AmberTools19/AMBER18 - FFTW3 and MKL compiling issues David Case
- Re: [AMBER] Error in MMPBSA calculation rluo.uci.edu
- Re: [AMBER] AmberTools19/AMBER18 - FFTW3 and MKL compiling issues viktor drobot
- Re: [AMBER] Error searching for compatible GPU in Amber18 James Kress
- [AMBER] Restraint ramp Dhananjay
- Re: [AMBER] Restraint ramp David Case
- [AMBER] 答复: probelm -- QMMM-MD with ZN（Znic atom）in QM region 东庚
- Re: [AMBER] mmPBSA error in Amber19 suite Lei Zhao
- Re: [AMBER] Error in MMPBSA calculation Lei Zhao
- Re: [AMBER] mmPBSA error in Amber19 suite jacky zhao
Sunday, 18 August 2019
- [AMBER] MMPBSA using amberTools19 shivangi agarwal
- Re: [AMBER] Error in MMPBSA calculation Ray Luo
- Re: [AMBER] MMPBSA using amberTools19 Ray Luo
- Re: [AMBER] MMPBSA using amberTools19 Hai Nguyen
- Re: [AMBER] volume in pytraj? Shayna Hilburg
- Re: [AMBER] volume in pytraj? Hai Nguyen
- Re: [AMBER] Error searching for compatible GPU in Amber18 Karim Mahnam
- Re: [AMBER] WaterBox is getting distorted while running PMF Airy Sanjeev
Monday, 19 August 2019
- [AMBER] Amber installation error Vivek Junghare
- [AMBER] Graphene residue name Tleap Nora Kremer
- [AMBER] 答复: probelm -- QMMM-MD with ZN（Znic atom）in QM region 东庚
- [AMBER] Regarding restarting from RST files using pmemd.cuda Midhun K Madhu
- [AMBER] AccelleratedMD production Giulia Paiardi
- Re: [AMBER] AccelleratedMD production Jacopo Sgrignani
- Re: [AMBER] Error searching for compatible GPU in Amber18 Daniel Roe
- Re: [AMBER] Regarding restarting from RST files using pmemd.cuda Daniel Roe
- Re: [AMBER] Amber installation error Daniel Roe
- Re: [AMBER] AccelleratedMD production Giulia Paiardi
- Re: [AMBER] Regarding restarting from RST files using pmemd.cuda Akinpelu Olayinka
- Re: [AMBER] problem with building cpptraj in AmberTools19 Daniel Roe
- Re: [AMBER] volume in pytraj? Shayna Hilburg
- [AMBER] CHARMM forcefield Hira Jabeen
- Re: [AMBER] volume in pytraj? Hai Nguyen
- Re: [AMBER] Regarding restarting from RST files using pmemd.cuda David Cerutti
- Re: [AMBER] AccelleratedMD production David Cerutti
- Re: [AMBER] AccelleratedMD production Elvis Martis
- Re: [AMBER] Error searching for compatible GPU in Amber18 Karim Mahnam
- [AMBER] How does PMEMD handle duplicates in GROUP? Quynh N. Vo
- Re: [AMBER] Error searching for compatible GPU in Amber18 Ross Walker
- [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 Sunita Patel
- Re: [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 Bill Ross
- Re: [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 Sunita Patel
Tuesday, 20 August 2019
- [AMBER] Amberff99sb topology for phosphorylated tyrosine residue in GROMACS Seketoulie Keretsu
- Re: [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 David A Case
- Re: [AMBER] Amberff99sb topology for phosphorylated tyrosine residue in GROMACS David A Case
- [AMBER] Not able to load Amber trajectories in VMD shivangi agarwal
- Re: [AMBER] Not able to load Amber trajectories in VMD Daniel Roe
- Re: [AMBER] 答复: probelm -- QMMM-MD with ZN（Znic atom）in QM region Pengfei Li
- [AMBER] vlimit exceeded for step Sadaf Rani
- Re: [AMBER] vlimit exceeded for step David Case
- Re: [AMBER] How does PMEMD handle duplicates in GROUP? David Case
- Re: [AMBER] CHARMM forcefield David Case
- Re: [AMBER] Problem for the frcmod file from the amber tutorial David Case
- Re: [AMBER] MD on small molecules, The file contained 8 atoms not in residue templates David Case
- Re: [AMBER] MMPBSA.py code Error: unknown keyword or invalid value: --closureorder David Case
- Re: [AMBER] Specifying size of truncated octahedron box manually David Case
- [AMBER] PDB file carbohydrates naming problem Rui Chen
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
- Re: [AMBER] PDB file carbohydrates naming problem Lachele Foley
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
- Re: [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 Sunita Patel
- Re: [AMBER] PDB file carbohydrates naming problem Lachele Foley
- Re: [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 Sunita Patel
- Re: [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 Hai Nguyen
Wednesday, 21 August 2019
- Re: [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 Sunita Patel
- Re: [AMBER] vlimit exceeded for step Sadaf Rani
- Re: [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 Sunita Patel
- Re: [AMBER] Could not import Amber Python modules! error during parallel test of Amber18 Hai Nguyen
- [AMBER] Preparation of trajectory for stfc diffusion calculations Maria Bzówka
- Re: [AMBER] R . E. D Lachele Foley
- Re: [AMBER] Non-integer charge problem with tleap using GLYCAM_06EPb but not GLYCAM_06j-1 Lachele Foley
- Re: [AMBER] Glycan naming problem Lachele Foley
- [AMBER] Did I miss anyone? Sorry I was gone so long Lachele Foley
- Re: [AMBER] Glycan naming problem Rui Chen
- Re: [AMBER] Glycan naming problem Lachele Foley
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
- [AMBER] Regarding heating equilibration Midhun K Madhu
- Re: [AMBER] PDB file carbohydrates naming problem Lachele Foley
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
- [AMBER] CHARMM 3 extra energy terms in AMBER dynamic engines (SANDER&PMEMD) Lod King
Thursday, 22 August 2019
- Re: [AMBER] Regarding heating equilibration David A Case
- Re: [AMBER] CHARMM 3 extra energy terms in AMBER dynamic engines (SANDER&PMEMD) David A Case
- Re: [AMBER] PDB file carbohydrates naming problem Lachele Foley
- Re: [AMBER] CHARMM 3 extra energy terms in AMBER dynamic engines (SANDER&PMEMD) Lod King
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
- [AMBER] mdgx, improper terms and multifit viktor drobot
- Re: [AMBER] mdgx, improper terms and multifit David Cerutti
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
- [AMBER] Error in running simulation in HPC using AMBER-18 Deepika Sardana
- Re: [AMBER] Error in running simulation in HPC using AMBER-18 Elvis Martis
Friday, 23 August 2019
- [AMBER] Glycolipid Simulation Rajarshi Roy
- Re: [AMBER] PDB file carbohydrates naming problem Lachele Foley
- Re: [AMBER] Question about running MMPBSA.py with a mask to exclude certain residues A K
- Re: [AMBER] Graphene residue name Tleap Matias Machado
- Re: [AMBER] Question about running MMPBSA.py with a mask to exclude certain residues Supriyo Bhattacharya
- Re: [AMBER] Specifying size of truncated octahedron box manually Matias Machado
- Re: [AMBER] Question about running MMPBSA.py with a mask to exclude certain residues A K
- [AMBER] PIMD is not compatible with the MC Barostat jinfeng liu
- Re: [AMBER] Question about running MMPBSA.py with a mask to exclude certain residues David Case
- Re: [AMBER] PIMD is not compatible with the MC Barostat David Case
- Re: [AMBER] Question about running MMPBSA.py with a mask to exclude certain residues A K
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
Saturday, 24 August 2019
- [AMBER] Testing New Parameters For a Novel boron Force Field.. is my advisors' strange approach true? Erdem Yeler
- Re: [AMBER] Testing New Parameters For a Novel boron Force Field.. is my advisors' strange approach true? Bill Ross
- Re: [AMBER] Testing New Parameters For a Novel boron Force Field.. is my advisors' strange approach true? Bill Ross
- Re: [AMBER] Glycolipid Simulation Lachele Foley
Sunday, 25 August 2019
- [AMBER] MAWS_Amber/antechamber assistance Bruno Cramer
Monday, 26 August 2019
- Re: [AMBER] MAWS_Amber/antechamber assistance Gerald Monard
- Re: [AMBER] PDB file carbohydrates naming problem Lachele Foley
- [AMBER] Regarding setting up FEP calculations in AMBER18 Debarati DasGupta
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
- Re: [AMBER] 答复: probelm -- QMMM-MD with ZN（Znic atom）in QM region Pengfei Li
Tuesday, 27 August 2019
- Re: [AMBER] Glycolipid Simulation Horn, Anselm
- Re: [AMBER] Glycolipid Simulation Rajarshi Roy
- [AMBER] Error "forrtl: severe (174) : SIGSEGV, segmentation fault" while running MD simulation production run Leena Aggarwal
- [AMBER] Combining sevaral frcmods into single file viktor drobot
- Re: [AMBER] Error "forrtl: severe (174) : SIGSEGV, segmentation fault" while running MD simulation production run Andrew Sugarman
- Re: [AMBER] Combining sevaral frcmods into single file Matias Machado
- Re: [AMBER] Combining sevaral frcmods into single file viktor drobot
- [AMBER] Fwd: evec.pev file in essential dynamics analysis Shirin Jamshidi
- [AMBER] building amber 16 parallel with MPI Sadaf Rani
- Re: [AMBER] Fwd: evec.pev file in essential dynamics analysis Daniel Roe
- Re: [AMBER] Testing New Parameters For a Novel boron Force Field.. is my advisors' strange approach true? Erdem Yeler
- [AMBER] MAWS/Amber and python program adjustment Bruno Cramer
- Re: [AMBER] Testing New Parameters For a Novel boron Force Field.. is my advisors' strange approach true? Bill Ross
- [AMBER] Calculation of ΔG from PMF Airy Sanjeev
- Re: [AMBER] building amber 16 parallel with MPI Gustaf Olsson
Wednesday, 28 August 2019
- Re: [AMBER] Error "forrtl: severe (174) : SIGSEGV, segmentation fault" while running MD simulation production run Leena Aggarwal
- [AMBER] MMPBS.py error: IOError: [Errno 2] No such file or directory maryam azimzadehirani
- Re: [AMBER] Error "forrtl: severe (174) : SIGSEGV, segmentation fault" while running MD simulation production run Horn, Anselm
- Re: [AMBER] Error "forrtl: severe (174) : SIGSEGV, segmentation fault" while running MD simulation production run Leena Aggarwal
- [AMBER] nmropt problems Andrea H. Kasun
- Re: [AMBER] nmropt problems David A Case
- Re: [AMBER] Calculation of ΔG from PMF Carlos Simmerling
- Re: [AMBER] Calculation of ΔG from PMF David A Case
- [AMBER] using accelerated MD on membrane proteins? Homeo Morphism
- Re: [AMBER] using accelerated MD on membrane proteins? Robin Betz
- [AMBER] question about bond command in tleap Rui Chen
- Re: [AMBER] question about bond command in tleap Matias Machado
Thursday, 29 August 2019
- [AMBER] per residue decompose energy error Nisha Amarnath Jonniya
- Re: [AMBER] evec.pev file in essential dynamics analysis Shirin Jamshidi
- Re: [AMBER] evec.pev file in essential dynamics analysis Shirin Jamshidi
- Re: [AMBER] nmropt problems Andrea H. Kasun
- Re: [AMBER] Testing New Parameters For a Novel boron Force Field.. is my advisors' strange approach true? Erdem Yeler
- [AMBER] periodic box size Rui Chen
Friday, 30 August 2019
- Re: [AMBER] periodic box size David A Case
- [AMBER] Small molecule break after minimization Amen Shamim
- [AMBER] equilirbration at constant volume Sadaf Rani
- Re: [AMBER] periodic box size Rui Chen
- [AMBER] Constant PH simulations for non-proteins and nonstandard residues Kolattukudy P. Santo
- Re: [AMBER] equilirbration at constant volume David A Case
- [AMBER] Print non bonded pair list Song, Lin
- Re: [AMBER] Print non bonded pair list David Cerutti
- [AMBER] Bug in ambpdb in anaconda distribution? Nathan Guerin
- [AMBER] H - bond calculations shivangi agarwal
- Re: [AMBER] Bug in ambpdb in anaconda distribution? viktor drobot
- Re: [AMBER] Bug in ambpdb in anaconda distribution? Nathan Guerin
- Re: [AMBER] Bug in ambpdb in anaconda distribution? Nathan Guerin
- Re: [AMBER] Constant PH simulations for non-proteins and nonstandard residues Cruzeiro,Vinicius Wilian D
- Re: [AMBER] Bug in ambpdb in anaconda distribution? viktor drobot
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen
Saturday, 31 August 2019
- Re: [AMBER] PDB file carbohydrates naming problem Lachele Foley
- Re: [AMBER] PDB file carbohydrates naming problem Rui Chen

Last message date: Sat Aug 31 2019 - 10:30:02 PDT
Archived on: Fri Apr 19 2024 - 05:55:37 PDT

Amber Archive Aug 2019 by date