The problem hasn't been solved
Is it possible to use constraints defined in a section formatted file in PyRosetta? If so, can anyone direct me to documentation on how to use such files with the PyRosetta constraints interface?
Hi all,
Does Rosetta have a homology modeling protocol like SWISS-MODEL or MODELLER? I couldn't find it in source code.
I want to predict the structure of a sequence and then do a protein-protein docking, need I use MODELLER to create the structure from sequence and template pdb before repacking or loop modeling using Rosetta?
Thanks.
Are there any methods that can return the total number of atoms in the pose? I am trying to do a simple operation, like shift a peptide some distance along a certain vector, and find myself unable to loop over atoms in the simulation.
Is there a resource that lists all the methods accessible from the Rosetta python library?
$make gcc
Illegal variable name.
make: *** [version_rosetta.cc]
$ scons mode=release
.....
KeyError: "Unknown version number 4.4 for compiler 'gcc'"
scons: done reading SConscript files.
scons: Building targets ...
How can I solve these problem? Could someone tell me! Thank you very much!
I intend to install Rosetta version 3.1 for Windows. However problem started even at the time of unzipping the source rosetta3.1_source.tgz :-((
The warning message tells:
rosetta_source\ide\test\utility\pointer\ folder does not exist. Do you want to create it? on either yes or no it's terminating generating the following error message. The unzipping is incomplete and the Bin, Lib folders are empty
! C:\Documents and Settings\user\Desktop\myself\rosetta\rosetta3.1_source.tgz: Cannot open (.\src --> )
Hi,
When I add the rosetta3.1_backrub_patch35535 rosetta can't compile.
It complains about the new SidechainMover.cc:
src/protocols/moves/SidechainMover.cc:158: error: 'const class core::scoring::dunbrack::SingleResidueDunbrackLibrary' has no member named 'get_phi_from_rsd'
src/protocols/moves/SidechainMover.cc:159: error: 'const class core::scoring::dunbrack::SingleResidueDunbrackLibrary' has no member named 'get_psi_from_rsd'
src/protocols/moves/SidechainMover.cc:186: error: 'class core::scoring::dunbrack::DunbrackRotamerSampleData' has no member named 'chi_probability'
Hello, I compiled Rosetta3.1 on Ubuntu 8.2, the complie is fine no error report. Then I run some example under rosetta_demons/ directory according to the readme file in the directory, and I have errors:
for rosetta_demos/Ligand_Docking, the error is :
ERROR: Unable to open file: ./silent.out
ERROR:: Exit from: src/protocols/jobdist/JobDistributors.hh line: 825
for rosetta_demos/Docking, the error is:
ERROR: Option matching -dock_mcm not found in command line top-level context
I am interested in protein design with RosettaMatch algorithm. But It is difficult for me to figure out how to use this algorithm in Rosetta 3.1. Is there any introduction or tutorial about how to use RosettaMatch? Any suggestion is welcome.
hi everyone
I am trying to install rosetta on ubuntu maverick (10.10) and having troubles with it .... I tried to install with a lower version of gcc-4.2 (as suggested in the installation guide) instead of the gcc-4.4 (default for maverick) but it is giving the same error at one file:
/src/core/scoring/sasa.cc: 618 internal compiler error: Segmentation fault
is there anyone facing the same problem or know anything about how I go about solving it .. please let me know
cheers
yogesh