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Rosetta 3 - Applications

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Normal topic Error with Formatdb of legacy blast when running "install_dependencies.pl"?
by Danielsebas » Mon, 2019-09-16 09:30
2
1,788 by Danielsebas
Tue, 2019-09-17 01:03
Normal topic setup_RosettaCM.py
by browns02 » Mon, 2021-06-28 07:13
2
1,294 by browns02
Tue, 2021-06-29 11:41
Normal topic Unable to set up interface foldtree because there are no movable jumps - (antibody/antigen docking)
by snorp » Mon, 2014-04-14 13:01
2
3,828 by jadolfbr
Mon, 2014-05-12 10:41
Normal topic Imitating induced fit protocol in SymDock2 without any symmetry constraints
by chenna » Fri, 2020-02-14 01:35
2
1,914 by chenna
Wed, 2020-03-04 03:24
Normal topic symmetric fixbb design with design_hpatch
by sdh_h » Sat, 2013-02-02 01:48
2
2,897 by ronj
Mon, 2014-04-21 06:47
Normal topic reporting bugs? (erraser in rosetta 3.10)
by meyer » Fri, 2018-12-14 09:40
2
1,995 by everyday847
Fri, 2019-03-29 13:13
Normal topic Membrane protein protocol on PyRosetta
by jlapin » Sat, 2018-07-28 14:41
2
2,187 by jlapin
Wed, 2018-08-01 07:15
Normal topic limit_cluster_size default value
by sacch » Thu, 2011-11-24 17:57
2
2,901 by sacch
Mon, 2014-04-21 06:47
Normal topic JobDistributor problem in antibody modeling
by Wizard » Wed, 2015-04-22 00:35
2
3,372 by Wizard
Sun, 2015-04-26 22:36
Normal topic ReplicaDock 2.0 Native vs Input Structure Flags Confusion
by katherinemccoy » Tue, 2022-12-27 06:42
2
4,612 by katherinemccoy
Tue, 2023-02-28 18:19
Normal topic Pepspec - random runtime segfaults (rosetta 3.3 database replaced) [solved]
by loreseeker » Wed, 2011-09-14 08:13
2
3,626 by loreseeker
Mon, 2014-04-21 06:47
Normal topic Multiple Chain Comparative Modeling - End result is not even close to template structure
by eskici » Wed, 2012-08-29 08:09
2
3,759 by eskici
Mon, 2014-04-21 06:47
Normal topic Space Swap!!!
by jrcf » Sun, 2016-02-14 11:43
2
2,645 by jrcf
Mon, 2016-02-15 17:59
Normal topic nstruct vs. trials?
by chrisHKL » Mon, 2020-03-02 13:22
2
1,690 by chrisHKL
Wed, 2020-03-04 10:49
Normal topic RIFdocking:Unable to locate database file chemical/residue_type_sets/fa_standard/residue_types/
by sia » Tue, 2022-08-02 20:06
2
1,741 by SeongRyeong Go
Mon, 2022-08-15 18:31
Normal topic flexpep docking, select the decoy to do the further docking, questions
by michael_luntan » Fri, 2011-04-22 04:43
2
3,499 by michael_luntan
Mon, 2014-04-21 06:47
Normal topic change number of output pose files written out (default=50) in ligand docking XML script
by hdelrisco » Fri, 2019-10-18 13:50
2
1,797 by hdelrisco
Fri, 2019-10-18 17:16
Normal topic "core.kinematics.FoldTree" error upon running RAbD
by Sunyp_IM » Fri, 2020-06-26 17:27
2
1,743 by Sunyp_IM
Fri, 2020-06-26 20:57
Normal topic small ligand docking in Ubuntu 20.04, please help
by guowuchen » Sun, 2022-03-06 18:12
2
1,536 by guowuchen
Mon, 2022-03-07 23:34
Normal topic cartesian_ddg output
by cossio » Thu, 2018-10-11 14:58
2
3,550 by cossio
Fri, 2018-10-12 04:43
Normal topic "make" error in "pdb2vall/structure_profile_scripts/DEPTH-CLONE-2.8.7"
by Danielsebas » Mon, 2019-09-02 08:14
2
2,001 by Danielsebas
Sun, 2019-09-08 02:08
Normal topic St13runtime_error in Rosetta ligand docking
by syntekabio2019 » Thu, 2023-02-09 18:18
2
2,961 by syntekabio2019
Sun, 2023-02-19 18:39
Normal topic RosettaScripts - SetupNCS mover
by felipet » Fri, 2016-03-25 12:42
2
2,714 by rmoretti
Fri, 2016-04-29 08:26
Normal topic Ligand Docking with RosettaScripts gives a ParsedProtocol exception
by brspurri » Sun, 2017-05-14 17:51
2
3,004 by brspurri
Mon, 2017-05-15 11:48
Normal topic Any progress on getting intermediate structures during a design?
by broomsday » Mon, 2020-03-16 06:46
2
1,854 by vmulligan
Tue, 2020-03-17 11:35
Normal topic do mpi apps share memory?
by fred » Thu, 2014-01-23 11:49
2
3,342 by fred
Mon, 2014-04-21 06:48
Normal topic Generate fragment file on my computer
by jrcf » Mon, 2015-09-21 15:41
2
4,090 by jrcf
Mon, 2015-10-05 21:32
Normal topic antibody H3 modelling protocol for nanobody gives "[ ERROR ] Inaccurate G!" messages
by AlfredoKCL » Sun, 2021-02-28 16:42
2
1,370 by AlfredoKCL
Mon, 2021-03-01 04:07
Normal topic Ways to improve AbRelax performance?
by Corvin » Tue, 2022-04-19 06:10
2
2,673 by Corvin
Thu, 2022-04-21 00:50
Normal topic Modeling more than one protein loop at the same time
by hzhekova » Mon, 2018-01-15 14:03
2
3,009 by hzhekova
Tue, 2018-01-16 10:31
Normal topic RosettaLigand ERROR: Error in core::conformation::check_good_cutpoint_neighbour()
by sam_dc » Thu, 2021-03-25 09:32
2
2,322 by sam_dc
Mon, 2021-04-12 07:24
Normal topic clustering
by ays » Tue, 2014-09-30 08:26
2
3,302 by rmoretti
Mon, 2014-10-06 16:00
Normal topic How to make new VALL database?
by Danielsebas » Sun, 2019-09-08 02:16
2
2,480 by Danielsebas
Wed, 2019-09-11 00:44
Normal topic Error in using “loopmodel” for selective rebuilding
by sushreet » Mon, 2014-07-14 11:57
2
2,876 by sushreet
Tue, 2014-08-26 13:02
Normal topic Floppy tail: sidechain mutation during calculation
by syoifczeri » Mon, 2015-03-09 19:01
2
3,110 by syoifczeri
Tue, 2015-03-10 23:08
Normal topic Floppytail modelling
by felipet » Fri, 2011-06-24 09:23
2
3,735 by felipet
Mon, 2014-04-21 06:47
Normal topic RosettaScripts - FastRelax loops
by jtmacd » Wed, 2015-11-18 09:32
2
4,040 by jtmacd
Fri, 2015-12-04 03:11
Normal topic Relax structure with metal cofactors
by h_trasatti » Tue, 2017-03-14 14:04
2
3,010 by rmoretti
Tue, 2017-03-28 08:51
Normal topic Choosing weight file for interface design?
by johnnytam100 » Tue, 2019-05-07 00:47
2
2,211 by johnnytam100
Tue, 2019-05-21 22:33
Normal topic how to know the precedure of solving a actural bio problem? like interface design?
by qq7678500549 » Thu, 2020-08-06 18:45
2
1,529 by qq7678500549
Sun, 2020-08-09 18:59
Normal topic ERROR: Assertion `static_cast< size_type >( i - l_ ) < super::size()` failed. ERROR:: Exit from: src/utility/vectorL.hh line: 42
by yliang20 » Wed, 2022-06-15 22:22
2
1,269 by jxw
Wed, 2023-10-11 10:04
Normal topic MaxSub and MaxSub2.0
by JadAbbass » Tue, 2013-10-15 13:36
2
3,604 by JadAbbass
Mon, 2014-04-21 06:48
Normal topic Including ab-initio predicted model in fragment library generation
by ashu4487 » Thu, 2016-12-08 17:49
2
2,395 by ashu4487
Sun, 2016-12-11 19:03
Normal topic rosetta_cm segfault
by browns02 » Fri, 2021-07-09 13:35
2
1,323 by rmoretti
Fri, 2021-07-09 15:05
Normal topic cluster.mpi running in MPI mode?
by sacch » Fri, 2011-11-18 23:30
2
4,416 by sacch
Mon, 2014-04-21 06:47
Normal topic ddG filter gives deltaG calculation number?
by jarod » Tue, 2013-05-28 23:43
2
3,907 by jarod
Mon, 2014-04-21 06:47
Normal topic Abinitio protocol and X-Ray diffraction data
by allan.ferrari » Wed, 2015-08-12 12:49
2
2,944 by allan.ferrari
Fri, 2015-08-28 12:07
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Fri, 2020-06-19 08:58
2
1,706 by Kotimedidhi
Mon, 2020-06-22 16:19
Normal topic Failing Fragment libraries us Chemical shifts with Robettaa
by kalabharath » Tue, 2015-04-28 19:33
2
2,728 by kalabharath
Wed, 2015-04-29 16:21
Normal topic Modelling temperature dependent RNA structures
by tuleshwori » Tue, 2020-05-19 01:16
2
1,669 by tuleshwori
Thu, 2020-05-21 02:08
Normal topic Calculate_protein_protein_ddg
by kamau » Fri, 2015-01-30 11:27
2
3,001 by deepanshuiitb
Thu, 2015-03-19 19:14
Normal topic RosettaScript Segmentation Fault (crash log attached)
by chrisHKL » Thu, 2020-03-05 07:21
2
2,347 by chrisHKL
Thu, 2020-03-05 09:11
Normal topic Disulfide Bonds in Loop Modeling
by code_Monkey » Mon, 2021-05-03 08:27
2
1,512 by code_Monkey
Thu, 2021-05-06 07:14
Normal topic Reproducing the exact result using information from previos run
by nawsad » Thu, 2013-03-14 12:05
2
2,614 by nawsad
Mon, 2014-04-21 06:47
Normal topic FlexPepDock and total score problem
by tkellici » Fri, 2014-01-17 06:07
2
3,242 by Ora Schueler-Furman
Mon, 2014-04-21 06:48
Normal topic OptimizeMembranePositionMover - This element is not expected
by bjharris » Wed, 2020-07-01 23:21
2
1,882 by bjharris
Thu, 2020-07-02 11:09
Normal topic How do I change the default Compiler for Rosetta?
by pagumaaaaa » Wed, 2022-03-16 00:23
2
1,490 by pagumaaaaa
Thu, 2022-03-24 22:40
Normal topic Generate fragment locally
by deltag » Wed, 2012-02-01 06:26
2
3,450 by deltag
Mon, 2014-04-21 06:47
Normal topic -loops:fa_input not found in command line top-level context
by swarekwood » Thu, 2017-08-24 03:15
2
2,569 by swarekwood
Fri, 2017-08-25 05:08
Normal topic ligand docking with MPI
by Ruska322 » Wed, 2019-09-04 03:47
2
1,750 by Ruska322
Fri, 2019-09-06 07:13
Normal topic ligand_docking ligand preparation
by Alison_Yajie » Thu, 2020-05-21 10:21
2
1,596 by Alison_Yajie
Wed, 2020-06-24 12:38
Normal topic Fastrelax problem
by Pernille » Fri, 2014-06-20 00:16
2
3,875 by Pernille
Thu, 2014-07-03 07:21
Normal topic Filter ddg_filter reports failure!
by deepanshuiitb » Fri, 2015-02-27 18:19
2
2,994 by deepanshuiitb
Sat, 2015-02-28 19:24
Normal topic Problems running pmut in parallel with openmpi
by RMJ » Fri, 2012-09-21 06:25
2
3,985 by RMJ
Mon, 2014-04-21 06:47
Normal topic Extract PDB structures from database
by cossio » Mon, 2018-01-29 09:30
3
3,743 by rmoretti
Fri, 2018-11-23 11:23
Normal topic How to perform abinitiorelax.mpi.linuxgccrelease in parallel mode with MPI
by kingljy » Sun, 2017-09-24 18:37
3
3,725 by rmoretti
Tue, 2017-10-10 09:58
Normal topic "Install_dependencies.pl" gives "Aborted" when downloading "nr" database?
by Danielsebas » Sat, 2019-09-14 08:53
3
2,216 by danpf
Mon, 2019-09-16 09:51
Normal topic Lammps or RosettaSurface
by StevPChem » Fri, 2016-06-10 10:13
3
3,892 by Anpu
Tue, 2018-09-25 18:53
Normal topic Syntax for the alignment file in "minirosetta comparative modeling"
by lanselibai » Thu, 2014-10-16 15:29
3
4,544 by lanselibai
Thu, 2014-10-23 03:26
Normal topic Residue_energy_breakdown utility
by cn » Sat, 2012-03-17 06:11
3
3,578 by cn
Mon, 2014-04-21 06:47
Normal topic Constraints in RosettaCM
by kbuhr » Fri, 2015-07-31 06:55
3
4,157 by kbuhr
Mon, 2016-03-28 01:08
Normal topic Coupled Moves crash with Membrane Protein - residue_edge is undefined for root vertex
by benhardy » Mon, 2020-06-15 09:33
3
2,129 by benhardy
Fri, 2020-06-19 07:55
Normal topic Does it make sense if I do backrub after sequence design?
by johnnytam100 » Thu, 2019-08-15 05:15
3
2,281 by johnnytam100
Fri, 2019-08-16 00:20
Normal topic RosettaCM or FastRelax?
by Tianyang89 » Wed, 2020-09-23 07:46
3
2,092 by danpf
Thu, 2020-09-24 13:44
Normal topic scoring input pdbs as the same as docking score
by hamedkhakzad » Fri, 2016-07-01 07:15
3
3,640 by rmoretti
Tue, 2016-07-12 09:05
Normal topic KIC with fragments versus Next generation KIC
by Loki01 » Fri, 2018-09-07 05:06
3
2,892 by smlewis
Mon, 2018-09-10 11:48
Normal topic Transmembrane helix fold-and-dock?
by sarah_b » Tue, 2020-05-12 02:09
3
2,264 by jkleman
Tue, 2020-05-19 15:02
Normal topic Missing CS-HM-Rosetta Binary files
by Marius1987 » Wed, 2016-02-10 05:52
3
3,868 by Marius1987
Mon, 2016-03-14 04:34
Normal topic Threading a sequence onto a template with ligands/metal ions included
by ajkal » Wed, 2017-04-19 11:53
3
3,574 by ahmadkhalifa
Sun, 2019-03-31 23:27
Normal topic Rosetta make_fragments.pl error?
by Danielsebas » Mon, 2019-09-02 07:51
3
2,382 by Danielsebas
Thu, 2019-09-05 03:35
Normal topic De novo model-building guided by exprimental density data
by dee2711453 » Thu, 2016-03-10 17:28
3
3,580 by dee2711453
Fri, 2016-03-11 21:32
Normal topic The question of ligand docking with constraints
by asbelx » Mon, 2018-06-11 09:39
3
3,173 by rmoretti
Thu, 2018-06-28 12:58
Normal topic what does initialize_rigid_body_dofs do?
by attesor » Mon, 2015-10-26 05:12
3
3,924 by rmoretti
Tue, 2015-11-10 11:35
Normal topic FlexPepDocking with GDP-bound protein
by LI » Sun, 2011-06-12 20:02
3
4,714 by rmoretti
Mon, 2014-04-21 06:47
Normal topic assymetric dymer modelling with comparative and ab initio
by marcia » Mon, 2013-10-14 08:33
3
4,847 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Docking one protein into interface between two other proteins
by Cheems » Sat, 2023-05-06 09:49
3
761 by rmoretti
Mon, 2023-05-08 13:14
Normal topic Enzdes constraint file not defined correctly
by eyong123 » Fri, 2015-03-27 07:16
3
3,794 by rmoretti
Thu, 2015-04-16 10:38
Normal topic relax with resfile
by gw » Fri, 2011-08-05 10:57
3
6,118 by nannemdp
Mon, 2014-04-21 06:47
Normal topic clustering in RosettaRemodel
by cheyuk » Wed, 2014-04-23 03:09
3
4,019 by rmoretti
Mon, 2014-05-12 08:45
Normal topic Problem with symmetric docking
by saxen » Fri, 2011-04-29 15:15
3
4,071 by smlewis
Mon, 2014-04-21 06:47
Normal topic Allow region of protein to move in a certain direction
by sn » Wed, 2017-08-23 17:07
3
3,232 by rmoretti
Thu, 2017-08-24 11:00
Normal topic Why there are two outputs using pmut_scan_parallel.linuxgccrelease with a mutant list file?
by lanselibai » Sun, 2014-11-16 10:26
3
3,785 by G Mustafa
Thu, 2018-10-18 05:31
Normal topic How tu use Delta filter's relax_mover
by pocin » Sun, 2017-02-19 05:21
3
3,257 by rmoretti
Wed, 2017-03-01 13:10
Normal topic ddg monomer vs pmut scan
by dave » Tue, 2014-03-04 10:18
3
4,431 by smlewis
Fri, 2014-03-07 13:02
Normal topic Can only relax one structure at a time
by lah435 » Wed, 2012-12-12 01:55
3
3,901 by smlewis
Mon, 2014-04-21 06:47
Normal topic NCAA attached at two points
by tsztain » Wed, 2021-06-16 15:20
3
1,727 by matteoferla
Sat, 2021-06-19 03:07
Normal topic Simple comparative modeling (threading) example is failing with "unknown atom name: CA CB"
by brspurri » Fri, 2017-03-24 10:52
3
3,705 by brspurri
Fri, 2017-03-24 11:35
Normal topic protein protein interaction design
by Negarsardar » Wed, 2019-05-15 06:13
3
3,514 by ajasja
Wed, 2019-05-15 15:40
Normal topic pmut_scan does not produce log file
by fglaser » Wed, 2013-10-16 07:25
3
4,363 by matteoferla
Tue, 2018-10-30 02:54
Normal topic No Space
by jrcf » Mon, 2016-01-11 16:18
3
3,452 by jrcf
Fri, 2016-02-12 16:42
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