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PyRosetta - General

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Normal topic Error in loop modeling protocol
by jai_INMAS » Fri, 2013-10-18 07:08
5
4,482 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Error in loop modeling protocol its showing error "NameError: name 'ccd_closure' is not defined"
by jai_INMAS » Sun, 2013-10-20 05:22
1
1,936 by Labonte
Mon, 2014-09-08 09:13
Normal topic Error when importing protocols.simple_filters
by xfliu » Tue, 2012-10-16 13:37
8
5,337 by xfliu
Mon, 2014-04-21 06:47
Normal topic Error when trying to import 'get_secstruct'
by quantumnumber » Thu, 2019-04-11 03:50
4
2,733 by quantumnumber
Fri, 2019-05-10 02:25
Normal topic Error when using "generate_resfile_from_pose" function
by zhangying1990 » Fri, 2019-01-25 00:45
1
1,284 by zhangying1990
Fri, 2019-02-01 00:44
Normal topic Error while converting mol2 to params using molfile_to_params.py
by ahmadkhalifa » Thu, 2018-06-14 10:30
7
3,997 by rmoretti
Thu, 2018-06-28 12:04
Normal topic Error with etable_atom_pair_energies()
by yijietseng » Mon, 2019-01-28 14:00
2
1,747 by yijietseng
Tue, 2019-05-07 11:02
Normal topic Error with importing the pdb file
by nasim.soltani58 » Fri, 2020-12-18 22:46
1
453 by matteoferla
Tue, 2021-01-05 04:05
Normal topic ERROR: unrecognized element Rp when using pose_from_pdb
by johnnytam100 » Thu, 2020-07-09 02:53
3
1,024 by rmoretti
Thu, 2020-07-09 08:35
Normal topic Errors when movers put in a function
by rfschleif » Sat, 2011-10-08 08:41
5
3,599 by msellers
Mon, 2014-04-21 06:47
Normal topic eval_ci_2b() with hydrogen bonds
by TensorDuck » Fri, 2018-03-30 14:05
2
1,713 by TensorDuck
Mon, 2018-04-02 13:41
Normal topic Executing the mc simulation of polyalanine fragment
by bharat_46010 » Mon, 2011-01-17 19:18
8
5,951 by smlewis
Mon, 2014-04-21 06:47
Normal topic Explicit water
This topic has been moved to "Rosetta 3 - General " (View topic)
Normal topic Extending Pyrosetta toturials for docking by adding constraints
by nasim.soltani58 » Thu, 2020-11-26 13:16
1
386 by matteoferla
Wed, 2020-12-02 13:49
Normal topic Failure appending a residue
by rfschleif » Thu, 2011-06-16 10:53
2
2,887 by smlewis
Mon, 2014-04-21 06:47
Normal topic Falling at the first hurdle
by pardave » Tue, 2010-01-05 00:53
1
1,763 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic FastRelax results in bad structure
by Eden » Mon, 2021-04-26 08:39
2
404 by Eden
Wed, 2021-06-23 01:13
Normal topic Fix corrupted Backbone
by ac.research » Mon, 2018-03-05 12:48
7
3,536 by ac.research
Tue, 2018-03-13 21:36
Normal topic Fold tree not correct for multi-chain partners
by msellers » Fri, 2010-12-10 05:35
6
5,184 by msellers
Mon, 2014-04-21 06:47
Normal topic Fold Tutorial
by ac.research » Sat, 2017-06-03 19:39
7
5,636 by smlewis
Sat, 2017-06-10 15:15
Normal topic Folding Video
by ac.research » Sat, 2018-05-12 09:19
1
1,162 by rmoretti
Sat, 2018-06-30 02:38
Normal topic Foldtree setup, jump problem in PyRosetta 2.0
by msellers » Thu, 2011-07-21 12:00
2
2,935 by msellers
Mon, 2014-04-21 06:47
Normal topic Forum webpage not working
by ajasja » Mon, 2014-09-22 06:14
2
1,984 by ajasja
Mon, 2014-09-22 09:53
Normal topic fragment building
by StevPChem » Tue, 2015-08-04 09:01
3
3,538 by StevPChem
Thu, 2015-08-06 11:07
Normal topic Fragment File Reading problem
by Nuria » Tue, 2012-06-12 13:42
1
1,814 by smlewis
Mon, 2014-04-21 06:47
Normal topic fragment for polyAAA
by knutjbj » Mon, 2010-11-29 08:23
1
1,815 by smlewis
Mon, 2014-04-21 06:47
Normal topic Fragment Picking in PyRosetta
by ac.research » Thu, 2017-08-31 04:48
9
6,346 by rmoretti
Tue, 2017-10-10 09:16
Normal topic Fragment Quality
by ac.research » Mon, 2017-07-10 10:23
9
4,877 by ac.research
Fri, 2017-07-14 12:55
Normal topic Fragments file
by Run » Tue, 2013-11-26 02:40
4
3,773 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Fragments picker: -nohom option seems not to work
by oppopomoz » Tue, 2013-05-14 06:31
1
2,060 by linucks
Mon, 2014-04-21 06:47
Normal topic Frequently Asked Questions
by sid » Fri, 2009-10-02 09:00
0
1,765 by sid
Mon, 2014-04-21 06:47
Normal topic Fundamental methods: pose.residue().total_atom(), pose.atom(#) ?
by msellers » Mon, 2010-11-01 10:53
1
1,759 by smlewis
Mon, 2014-04-21 06:47
Normal topic GDT_TS how can I get it with pyrosetta?
by oppopomoz » Thu, 2014-01-09 02:51
1
2,085 by rmoretti
Mon, 2014-04-21 06:48
Normal topic generate_nonstandard_residue_set Exception
by lah435 » Tue, 2017-06-13 18:28
3
2,246 by lah435
Fri, 2017-06-16 12:24
Normal topic generate_nonstandard_residue_set() takes exactly 2 arguments (1given)
by yanghaobjordan » Mon, 2018-01-29 18:59
1
1,520 by rmoretti
Tue, 2018-01-30 06:29
Normal topic Generating Atom Pair Constraints
by Peik » Wed, 2020-08-05 15:39
3
871 by Peik
Thu, 2020-08-06 11:50
Normal topic Generating random number using numeric.random
by resiros » Thu, 2014-10-23 09:25
3
2,935 by rmoretti
Wed, 2014-10-29 10:00
Normal topic GenericMonteCarloMover accept/reject moves
by ac.research » Fri, 2018-06-08 06:04
1
1,198 by rmoretti
Sat, 2018-06-30 02:37
Normal topic Getting chi rotamers
by ajasja » Tue, 2014-08-26 12:11
3
3,442 by rmoretti
Tue, 2014-09-23 08:36
Normal topic Getting interface residues?
by JuliusSu » Wed, 2014-04-16 21:58
2
2,061 by JuliusSu
Thu, 2014-04-17 18:34
Normal topic Getting which rigid body a residue belongs to?
by JuliusSu » Thu, 2014-04-17 21:12
3
3,055 by jadolfbr
Mon, 2014-04-21 17:28
Normal topic Glycan in IgG1 Fc
by seanle24245 » Fri, 2016-07-22 07:50
2
1,989 by jadolfbr
Fri, 2016-07-22 10:29
Normal topic Glycan minimization
by seanle24245 » Thu, 2016-10-06 13:51
1
1,425 by Labonte
Thu, 2016-10-06 14:05
Normal topic Go parallel
by assignfit » Tue, 2011-11-29 10:47
4
3,334 by smlewis
Mon, 2014-04-21 06:47
Normal topic Gradient Descent
by nasim.soltani58 » Thu, 2020-10-01 16:02
3
861 by vmulligan
Tue, 2020-10-06 15:13
Normal topic Gunn fragment insertion
by jadolfbr » Sun, 2010-02-28 09:39
0
1,278 by jadolfbr
Mon, 2014-04-21 06:47
Hot topic HBondEnergy
by bharat_46010 » Wed, 2013-05-15 19:03
15
12,666 by rmoretti
Mon, 2014-04-21 06:47
Normal topic hbond_sr_bb, hbond_lr_bb, fa_intra_rep energies from ScoreFunction()
by gerdos » Tue, 2017-04-18 04:46
4
2,774 by gerdos
Fri, 2017-04-21 01:53
Normal topic Help on Chimera Creator/Homodomain script
by jadolfbr » Mon, 2010-06-14 21:34
1
2,424 by mark.wilson
Mon, 2014-04-21 06:47
Normal topic Help with pyRosetta python scripting for protein manipulation
by pepfolder » Thu, 2012-05-31 14:01
5
4,816 by pepfolder
Mon, 2014-04-21 06:47
Normal topic How can I insert my variable length fragmrnts library into pyrosetta?
by michelleqyh » Tue, 2020-08-04 07:26
0
335 by michelleqyh
Tue, 2020-08-04 07:26
Normal topic How can i introduce hydrogen bond as constraint?
by sp1020 » Mon, 2012-04-02 05:12
1
2,274 by smlewis
Mon, 2014-04-21 06:47
Normal topic how can we calculate Rosetta score on some decoy set?
by mirzaie » Wed, 2013-06-19 08:43
13
10,553 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic how do I compile the python bindings for rosetta3 for python2.5 linux x86_64
by tru » Wed, 2009-11-25 11:38
1
1,656 by luki
Mon, 2014-04-21 06:47
Normal topic How do I insert or delete residues into specific locations?
by Mgerber@mail.yu.edu » Sun, 2020-12-20 15:03
1
369 by matteoferla
Tue, 2021-01-05 03:53
Normal topic how do i unding properly?
by patcD » Fri, 2020-11-20 00:38
2
609 by matteoferla
Fri, 2020-11-20 07:47
Normal topic How do you combine two .pdb protein structure files of the same protein?
by nasim.soltani58 » Sun, 2020-11-22 23:14
4
1,241 by nasim.soltani58
Tue, 2020-12-08 22:44
Normal topic How does Rosetta select atom pairs for Lennard Jones Potential calculations?
by bowang2013 » Thu, 2015-10-29 08:04
4
4,117 by smlewis
Tue, 2015-11-03 09:17
Normal topic how to add water into protein interface using solvated rotamers?
by chinhsutran » Sun, 2013-07-21 20:25
1
1,874 by smlewis
Mon, 2014-04-21 06:48
Normal topic How to calculate the pairwise rotamer-to-rotamer energy table between mutable residues allowed to change to all amino acid types
by AyushGoyal » Wed, 2014-01-22 16:24
7
6,833 by rmoretti
Mon, 2014-04-21 06:48
Normal topic How to call SnugDock from PyRosetta
by SenyorDrew » Tue, 2016-06-21 07:28
1
1,502 by jeliazkov
Fri, 2016-07-01 08:42
Normal topic How to combine two chains
by seanle24245 » Tue, 2016-07-19 07:54
5
5,972 by seanle24245
Fri, 2016-07-22 06:53
Normal topic How to create an ObjexxFCL FArray?
by matteoferla » Tue, 2020-08-18 03:22
3
469 by matteoferla
Thu, 2021-07-08 06:02
Normal topic How to determine interface residues
by rbehan » Wed, 2015-10-14 11:25
2
3,696 by rmoretti
Fri, 2016-06-17 09:25
Normal topic How to fold membrane protein in PyRosetta?
by assignfit » Fri, 2011-02-25 21:39
3
3,150 by assignfit
Mon, 2014-04-21 06:47
Normal topic How to fold-and-dock in PyRosetta?
by sarah_b » Thu, 2020-05-14 02:37
0
484 by sarah_b
Thu, 2020-05-14 02:37
Normal topic How to optimize the orientations of polar hydrogens in PyRosetta
by xfliu » Sat, 2012-04-28 16:33
5
4,188 by xfliu
Mon, 2014-04-21 06:47
Normal topic How to pop off terminus variants
by xfliu » Mon, 2012-09-03 03:12
2
2,263 by xfliu
Mon, 2014-04-21 06:47
Normal topic how to read a silent file ?
by Anonymous » Wed, 2012-06-27 09:34
12
8,210 by Anonymous
Mon, 2014-04-21 06:47
Normal topic How To Read PyRosetta Documentation - GenericMonteCarloMover as example
by ac.research » Wed, 2017-07-05 09:08
2
2,012 by ac.research
Thu, 2017-07-06 11:09
Normal topic how to realize a free bb design? PackMover=fixed bb!
by ast » Wed, 2011-08-31 09:41
1
2,836 by rmoretti
Mon, 2014-04-21 06:47
Normal topic How to relax glycans after glycosylating sites on a pose?
by sdtruong » Mon, 2021-03-22 09:44
2
306 by sdtruong
Mon, 2021-03-22 17:05
Normal topic How to set options under PyRosetta
by lennylv » Thu, 2011-01-06 18:11
1
2,971 by Sergey
Mon, 2014-04-21 06:47
Normal topic How to set up external C++ folding server
by seanle24245 » Sat, 2016-06-11 10:54
8
5,772 by seanle24245
Sun, 2016-06-19 18:30
Normal topic How to tell where and what fragment or rotamer was inserted?
by charlie.strauss » Wed, 2010-01-27 10:36
0
1,244 by charlie.strauss
Mon, 2014-04-21 06:47
Normal topic how to use constrains in PyRosetta?
by ast » Mon, 2011-09-05 07:22
0
1,718 by ast
Mon, 2014-04-21 06:47
Normal topic How to use SAXS energy score in PyRosetta
by Jie Hou » Mon, 2016-09-05 08:31
5
4,108 by rmoretti
Mon, 2016-11-14 13:21
Normal topic hydrogen bond parameters used in detecting h-bonds by pyrosetta
by bharat_46010 » Sun, 2013-07-21 23:44
1
1,953 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Hydrogen Bonding Distances and Atom identification
by kmolloy717 » Fri, 2021-06-25 08:15
1
169 by matteoferla
Wed, 2021-06-30 09:02
Normal topic I don't know what's the problem when load the fragment file
by john8611 » Mon, 2014-09-29 03:45
5
4,994 by rmoretti
Tue, 2014-09-30 13:16
Normal topic ImportError PyUnicodeUCS2
by nunesjulioc » Wed, 2010-02-17 07:29
0
2,411 by nunesjulioc
Mon, 2014-04-21 06:47
Normal topic Inconsistencies in full atom energy calculations
by dsim » Tue, 2014-07-29 06:02
4
3,350 by dsim
Mon, 2014-09-15 07:47
Normal topic Individual Residue Energy
by Peik » Fri, 2021-02-19 10:13
2
441 by Peik
Fri, 2021-02-19 10:30
Normal topic Individual residue repacking causes segmentation fault or "ERROR: seqpos >= 1 ERROR:: Exit from: src/core/conformation/Confo..."
by msellers » Wed, 2012-04-04 12:27
5
4,637 by smlewis
Mon, 2014-04-21 06:47
Normal topic individual residue score
by yijietseng » Wed, 2019-05-29 09:59
2
1,105 by yijietseng
Fri, 2019-05-31 12:21
Normal topic Initializing DockDesignParser in PyRosetta
by LiorZ » Mon, 2013-04-22 01:56
6
4,720 by LiorZ
Mon, 2014-04-21 06:47
Normal topic input_pdb
by evo_umich » Sat, 2011-10-01 14:20
3
3,552 by evo_umich
Mon, 2014-04-21 06:47
Normal topic installing PyRosetta on Mac OSX 10.6 and Linux in VMWare
by sid » Tue, 2009-10-06 09:04
2
3,142 by reve_etrange
Mon, 2014-04-21 06:47
Normal topic installing PyRosetta on non-Intel-based Mac platform
by sid » Tue, 2009-10-06 09:07
1
1,572 by JeffreyGray
Mon, 2014-04-21 06:47
Normal topic interaction energies between atoms
by Stefan » Thu, 2011-04-14 06:15
3
4,585 by smlewis
Mon, 2014-04-21 06:47
Normal topic Interface Analyzer with Glycans
by drewaight » Tue, 2020-06-09 20:06
1
601 by matteoferla
Wed, 2020-07-01 05:30
Normal topic Interface Design
by brettth » Wed, 2010-12-08 07:25
2
3,645 by SunH
Mon, 2014-04-21 06:47
Normal topic is_aromatic function
by jadolfbr » Mon, 2013-12-02 19:31
2
2,126 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Iterating over graph edges in PyRosetta.
by ajasja » Mon, 2014-09-22 07:21
3
3,306 by rmoretti
Mon, 2014-09-29 00:06
Normal topic JobDistributor Bug
by brettth » Fri, 2011-03-11 07:00
1
2,495 by smlewis
Mon, 2014-04-21 06:47
Normal topic Jump question
by rfschleif » Wed, 2011-06-15 14:00
1
2,127 by smlewis
Mon, 2014-04-21 06:47
Normal topic Large Memory usage in Windows r10 Build
by ajasja » Fri, 2014-08-22 09:09
4
5,878 by ajasja
Mon, 2014-09-22 09:51
Normal topic Less silly way to get number of iterations of Relax
by matteoferla » Tue, 2021-07-20 07:00
2
237 by matteoferla
Tue, 2021-07-20 13:44
Normal topic Libmini crashes after protocol run
by whooper » Tue, 2017-01-31 09:48
1
1,404 by Sergey
Tue, 2017-01-31 13:42
Normal topic libmini.dylib
by evo_umich » Fri, 2011-09-23 14:08
2
2,563 by evo_umich
Mon, 2014-04-21 06:47
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