Modeller_Usage Mailing List (by date)

Thread Index

Re: [modeller_usage] Modeller produces primary structure only 2020/01/03
- From: Modeller Caretaker <>
[modeller_usage] Use modeller with slurm 2020/01/10
- From: "Mariana GONZALEZ MEDINA" <>
Re: [modeller_usage] Use modeller with slurm 2020/01/10
- From: Modeller Caretaker <>
[modeller_usage] Molecules MEX and CME 2020/02/01
- From: Daniel Evans <>
Re: [modeller_usage] Molecules MEX and CME 2020/02/03
- From: Modeller Caretaker <>
[modeller_usage] how to generate the ini file only 2020/02/06
- From: Li Xue <>
Re: [modeller_usage] how to generate the ini file only 2020/02/06
- From: Li Xue <>
Re: [modeller_usage] how to generate the ini file only 2020/02/06
- From: Modeller Caretaker <>
Re: [modeller_usage] how to generate the ini file only 2020/02/06
- From: Li Xue <>
[modeller_usage] Modeller will only read the first 4096 characters of this line. 2020/02/16
- From: Yogesh Sharma <>
[modeller_usage] Charmm error : missing residues 2020/02/17
- From: Yogesh Sharma <>
Re: [modeller_usage] Modeller will only read the first 4096 characters of this line. 2020/02/18
- From: Modeller Caretaker <>
Re: [modeller_usage] Charmm error : missing residues 2020/02/18
- From: Modeller Caretaker <>
[modeller_usage] Integrate X-ray structure with missing domains using templates 2020/02/25
- From: Stefano Motta <>
Re: [modeller_usage] Integrate X-ray structure with missing domains using templates 2020/02/25
- From: Modeller Caretaker <>
Re: [modeller_usage] Integrate X-ray structure with missing domains using templates 2020/02/25
- From: Stefano Motta <>
Re: [modeller_usage] Integrate X-ray structure with missing domains using templates 2020/02/25
- From: Modeller Caretaker <>
Re: [modeller_usage] Integrate X-ray structure with missing domains using templates 2020/02/25
- From: Stefano Motta <>
Re: [modeller_usage] Integrate X-ray structure with missing domains using templates 2020/02/25
- From: Modeller Caretaker <>
Re: [modeller_usage] Integrate X-ray structure with missing domainsusing templates 2020/02/25
- From: Oscar Conchillo-Sole <>
[modeller_usage] restrains.make_distance function 2020/02/27
- From: "Mariana GONZALEZ MEDINA" <>
Re: [modeller_usage] restrains.make_distance function 2020/02/27
- From: Modeller Caretaker <>
[modeller_usage] BIOVIA Dassault Systèmes’ North American User Conference 2020/02/28
- From: Modeller Caretaker <>
[modeller_usage] Advance Modeling 2020/03/08
- From:
[modeller_usage] reg: issue in importing modeller 2020/03/09
- From: Anwesha Mohapatra <>
Re: [modeller_usage] Advance Modeling 2020/03/09
- From: Modeller Caretaker <>
Re: [modeller_usage] reg: issue in importing modeller 2020/03/09
- From: Modeller Caretaker <>
[modeller_usage] Questions about alignment and stereo clashes 2020/03/30
- From: "Li,Haoxi" <>
Re: [modeller_usage] Questions about alignment and stereo clashes 2020/03/30
- From: Modeller Caretaker <>
[modeller_usage] ModellerError: read_te_290E> Number of residues in the alignment and pdb files are differen 2020/04/01
- From: Joao Sartori <>
Re: [modeller_usage] ModellerError: read_te_290E> Number of residues in the alignment and pdb files are differen 2020/04/01
- From: Modeller Caretaker <>
Re: [modeller_usage] ModellerError: read_te_290E> Number of residues in the alignment and pdb files are differen 2020/04/01
- From: Joao Sartori <>
[modeller_usage] Fwd: reg: issue in importing modeller 2020/04/01
- From: Anwesha Mohapatra <>
[modeller_usage] Loop refinement problem 2020/04/04
- From: Vicente Pires <>
[modeller_usage] Design a linker for two-domain chimeric protein 2020/04/04
- From: Чугунов Антон <>
Re: [modeller_usage] Loop refinement problem 2020/04/04
- From: Modeller Caretaker <>
Re: [modeller_usage] Design a linker for two-domain chimeric protein 2020/04/06
- From: Modeller Caretaker <>
[modeller_usage] Modeller 9.24 release 2020/04/09
- From: Modeller Caretaker <>
[modeller_usage] reg: template has extra residues 2020/04/14
- From: Anwesha Mohapatra <>
[modeller_usage] Ca-Ca restraints 2020/04/16
- From: "Mariana GONZALEZ MEDINA" <>
Re: [modeller_usage] Ca-Ca restraints 2020/04/16
- From: Modeller Caretaker <>
Re: [modeller_usage] Ca-Ca restraints 2020/04/20
- From: "Mariana GONZALEZ MEDINA" <>
Re: [modeller_usage] Ca-Ca restraints 2020/04/20
- From: Modeller Caretaker <>
[modeller_usage] Threading sequence onto template with missing residues 2020/05/04
- From: Ahmad Khalifa <>
Re: [modeller_usage] Threading sequence onto template with missing residues 2020/05/04
- From: Modeller Caretaker <>
[modeller_usage] Retain residue IDS when mutating and writing PDB 2020/05/05
- From: Pedro Guillem <>
Re: [modeller_usage] Retain residue IDS when mutating and writing PDB 2020/05/05
- From: Modeller Caretaker <>
[modeller_usage] Use modeller inside class method - called from an ThreadPoolExecutor 2020/05/07
- From: Pedro Guillem <>
Re: [modeller_usage] Use modeller inside class method - called from an ThreadPoolExecutor 2020/05/07
- From: Modeller Caretaker <>
[modeller_usage] missing loop 2020/05/14
- From: Qinghua Liao <>
Re: [modeller_usage] missing loop 2020/05/14
- From: Modeller Caretaker <>
Re: [modeller_usage] missing loop 2020/05/14
- From: Qinghua Liao <>
Re: [modeller_usage] missing loop 2020/05/15
- From: Modeller Caretaker <>
Re: [modeller_usage] missing loop 2020/05/16
- From: Qinghua Liao <>
[modeller_usage] How to constrain the computational resources used for Modeller? 2020/05/18
- From: "ZHANG Cheng" <>
Re: [modeller_usage] How to constrain the computational resources used for Modeller? 2020/05/18
- From: Modeller Caretaker <>
Re: [modeller_usage] How to constrain the computational resources used for Modeller? 2020/05/18
- From: "ZHANG Cheng" <>
[modeller_usage] Regarding difficult modelling in modeller 2020/05/20
- From: Cn rahul <>
[modeller_usage] Can the Modeller license be available as a site license? 2020/05/20
- From: "=?gb18030?b?WkhBTkcgQ2hlbmc=?=" <>
Re: [modeller_usage] Regarding difficult modelling in modeller 2020/05/20
- From: Modeller Caretaker <>
[modeller_usage] How to properly set the fields 5 of the second line in the .aln file? 2020/05/21
- From: "=?gb18030?b?WkhBTkcgQ2hlbmc=?=" <>
Re: [modeller_usage] How to properly set the fields 5 of the second line in the .aln file? 2020/05/21
- From: Modeller Caretaker <>
Re: [modeller_usage] How to properly set the fields 5 of the second line in the .aln file? 2020/05/21
- From: "ZHANG Cheng" <>
[modeller_usage] Command not found, no module named 'modeller' errors 2020/05/28
- From: Xiao Ran Luo <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/28
- From: Xiao Ran Luo <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/28
- From: Modeller Caretaker <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/28
- From: Xiao Ran Luo <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/29
- From: Modeller Caretaker <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/29
- From: Xiao Ran Luo <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/29
- From: Xiao Ran Luo <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/29
- From: Modeller Caretaker <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/29
- From: Xiao Ran Luo <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/29
- From: Ajasja Ljubetič <>
Re: [modeller_usage] Command not found, no module named 'modeller' errors 2020/05/29
- From: Xiao Ran Luo <>
[modeller_usage] Identical output for different batches 2020/06/05
- From: "=?gb18030?b?WkhBTkcgQ2hlbmc=?=" <>
Re: [modeller_usage] Identical output for different batches 2020/06/05
- From: Modeller Caretaker <>
Re: [modeller_usage] Identical output for different batches 2020/06/06
- From: "ZHANG Cheng" <>
Re: [modeller_usage] Identical output for different batches 2020/06/08
- From: Modeller Caretaker <>
[modeller_usage] Parallel job 2020/06/09
- From: Casey Becker <>
Re: [modeller_usage] Parallel job 2020/06/09
- From: Modeller Caretaker <>
[modeller_usage] Treading onto known PDB template 2020/06/10
- From: Geoffrey Woollard <>
Re: [modeller_usage] Treading onto known PDB template 2020/06/10
- From: Modeller Caretaker <>
[modeller_usage] Can't really edit my script 2020/06/11
- From: Casey Becker <>
Re: [modeller_usage] Can't really edit my script 2020/06/11
- From: Modeller Caretaker <>
[modeller_usage] Can I calculate the "Objective Function" based on a PDB without doing the comparative modelling? 2020/06/13
- From: "=?gb18030?b?WkhBTkcgQ2hlbmc=?=" <>
Re: [modeller_usage] Can I calculate the "Objective Function" based on a PDB without doing the comparative modelling? 2020/06/14
- From: Modeller Caretaker <>
[modeller_usage] Modeller Outputs TER field wrong in PDB 2020/06/17
- From: Pedro Guillem <>
Re: [modeller_usage] Modeller Outputs TER field wrong in PDB 2020/06/17
- From: Modeller Caretaker <>
Re: [modeller_usage] Modeller Outputs TER field wrong in PDB 2020/06/18
- From: Pedro Guillem <>
[modeller_usage] z-DOPE score 2020/06/18
- From: "Mariana GONZALEZ MEDINA" <>
Re: [modeller_usage] Modeller Outputs TER field wrong in PDB 2020/06/18
- From: Modeller Caretaker <>
Re: [modeller_usage] z-DOPE score 2020/06/18
- From: Modeller Caretaker <>
Re: [modeller_usage] z-DOPE score 2020/06/22
- From: "Mariana GONZALEZ MEDINA" <>
[modeller_usage] Multiple CPUs 2020/06/30
- From: Casey Becker <>
Re: [modeller_usage] Treading onto known PDB template 2020/07/06
- From: Geoffrey Woollard <>
Re: [modeller_usage] Multiple CPUs 2020/07/06
- From: Modeller Caretaker <>
Re: [modeller_usage] Treading onto known PDB template 2020/07/06
- From: Modeller Caretaker <>
Re: [modeller_usage] Treading onto known PDB template 2020/07/08
- From: Geoffrey Woollard <>
Re: [modeller_usage] Treading onto known PDB template 2020/07/08
- From: Geoffrey Woollard <>
Re: [modeller_usage] Treading onto known PDB template 2020/07/08
- From: Modeller Caretaker <>
Re: [modeller_usage] reg: modeling against docked protein-ligand complex 2020/07/16
- From: Anwesha Mohapatra <>
Re: [modeller_usage] Treading onto known PDB template 2020/07/17
- From: Geoffrey Woollard <>
Re: [modeller_usage] Treading onto known PDB template 2020/07/20
- From: Modeller Caretaker <>
[modeller_usage] Change ROOT_NAME for automodel.make() 2020/08/07
- From: Brian Wiley <>
Re: [modeller_usage] Change ROOT_NAME for automodel.make() 2020/08/07
- From: Modeller Caretaker <>
Re: [modeller_usage] Change ROOT_NAME for automodel.make() 2020/08/07
- From: Brian Wiley <>
Re: [modeller_usage] modeller_usage Digest, Vol 19, Issue 52 2020/08/07
- From: Brian Wiley <>
Re: [modeller_usage] Change ROOT_NAME for automodel.make() 2020/08/07
- From: "Eugene Radchenko" <>
Re: [modeller_usage] Change ROOT_NAME for automodel.make() 2020/08/07
- From: Modeller Caretaker <>
Re: [modeller_usage] Change ROOT_NAME for automodel.make() 2020/08/07
- From: Brian Wiley <>
[modeller_usage] Modeller Model Building Inquiry using existing PDB cooridnates 2020/08/13
- From: Joel Subach <>
Re: [modeller_usage] Modeller Model Building Inquiry using existing PDB cooridnates 2020/08/13
- From: Modeller Caretaker <>
[modeller_usage] Question automodel from NMR 2020/08/14
- From: Brian Wiley <>
Re: [modeller_usage] Question automodel from NMR 2020/08/14
- From: Modeller Caretaker <>
Re: [modeller_usage] Question automodel from NMR 2020/08/14
- From: Brian Wiley <>
[modeller_usage] Socket modules and Chimera 2020/08/29
- From: Casey Becker <>
[modeller_usage] Query related modeller script 2020/08/31
- From: Aanila Ghazala <>
Re: [modeller_usage] Query related modeller script 2020/08/31
- From: Modeller Caretaker <>
Re: [modeller_usage] Socket modules and Chimera 2020/08/31
- From: Modeller Caretaker <>
[modeller_usage] problem in anaconda 2020/08/31
- From: Anas Jamshed <>
Re: [modeller_usage] problem in anaconda 2020/08/31
- From: Ajasja Ljubetič <>
Re: [modeller_usage] problem in anaconda 2020/08/31
- From: "Eugene Radchenko" <>
Re: [modeller_usage] modeller_usage Digest, Vol 19, Issue 60 2020/08/31
- From: Anas Jamshed <>
Re: [modeller_usage] problem in anaconda 2020/09/01
- From: Modeller Caretaker <>
Re: [modeller_usage] problem in anaconda 2020/09/01
- From: Modeller Caretaker <>
[modeller_usage] Modeller 9.25 release 2020/09/09
- From: Modeller Caretaker <>
[modeller_usage] loop.py 2020/09/24
- From: Jeff Reneker <>
Re: [modeller_usage] loop.py 2020/09/24
- From: Modeller Caretaker <>
[modeller_usage] External Source Sequence Alignment 2020/09/25
- From: "Li,Haoxi" <>
[modeller_usage] Sequence difference between alignment and pdb: 2020/09/29
- From: Arnau PC <>
Re: [modeller_usage] External Source Sequence Alignment 2020/10/05
- From: Modeller Caretaker <>
Re: [modeller_usage] Sequence difference between alignment and pdb: 2020/10/05
- From: Modeller Caretaker <>
[modeller_usage] Building missing atoms using MODELLER 2020/10/16
- From: Zeineb Si Chaib <>
Re: [modeller_usage] Building missing atoms using MODELLER 2020/10/16
- From: Modeller Caretaker <>
[modeller_usage] Modelling missing N-terminal residues 2020/10/23
- From: Aathithya Diaz <>
Re: [modeller_usage] Modelling missing N-terminal residues 2020/10/23
- From: Modeller Caretaker <>
[modeller_usage] Query regarding the modelling of a particular set of residues in a protein 2020/10/26
- From: Sruthi Sudhakar <>
Re: [modeller_usage] Query regarding the modelling of a particular set of residues in a protein 2020/10/26
- From: Modeller Caretaker <>
[modeller_usage] Consctruct a model with different templates' height 2020/10/28
- From: Miguel Lacerda <>
Re: [modeller_usage] Consctruct a model with different templates' height 2020/10/28
- From: Modeller Caretaker <>
[modeller_usage] Mismatch between residues of alignment and pdb 2020/10/30
- From: Sunidhi <>
Re: [modeller_usage] Mismatch between residues of alignment and pdb 2020/10/30
- From: Modeller Caretaker <>
[modeller_usage] Fwd: model structure of IDP regions 2020/11/24
- From: Priya Dey <>
[modeller_usage] multi-chains: modeled separately or jointly? 2020/11/25
- From: Amin Zia <>
[modeller_usage] MODELLER modelling of a single chain 2020/11/25
- From: Austin Varela <>
Re: [modeller_usage] multi-chains: modeled separately or jointly? 2020/11/25
- From: Modeller Caretaker <>
Re: [modeller_usage] MODELLER modelling of a single chain 2020/11/25
- From: Modeller Caretaker <>
Re: [modeller_usage] Fwd: model structure of IDP regions 2020/11/25
- From: Modeller Caretaker <>
[modeller_usage] modeling two chains while preserving their structural orientation wrt each other 2020/12/04
- From: shivu shiv <>
[modeller_usage] Trouble with SOAP Score 2020/12/04
- From: Brenda de Souza Ferrari <>
Re: [modeller_usage] Trouble with SOAP Score 2020/12/04
- From: Modeller Caretaker <>
Re: [modeller_usage] modeling two chains while preserving their structural orientation wrt each other 2020/12/04
- From: Modeller Caretaker <>
Re: [modeller_usage] modeling two chains while preserving their structural orientation wrt each other 2020/12/04
- From: shivu shiv <>
[modeller_usage] Structural alignment of multiple chains 2020/12/21
- From: Tal Weizmann <>
Re: [modeller_usage] Structural alignment of multiple chains 2020/12/21
- From: Modeller Caretaker <>

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