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Concatenate Pose

Submitted by jadolfbr on Sat, 2011-02-19 21:12

Hi All.

I was wondering if anyone knows of a way to select residues of a pose (and their corresponding data) and then copy them to a new pose (for writing/analysis). Then, if possible, deleting those residues in the pose. I was thinking through the fold tree, but I can't seem to figure it out. Thanks in advance for any help.

-Jared

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PyRosetta - General

Import Error from >>>from rosetta import * - SOLVED tried Pyrosetta v 1.1 rather than the 2.0 and now it works

Submitted by juden99 on Fri, 2011-02-18 14:27

Hello,
have downloaded PyRosetta onto a machine with Ubuntu 8.04. Python 2.5 and/or 2.6 both configured with the enable shared flag. I tried the first line of the pyrosetta tutorial and I rec'd the following:

>>> from rosetta import *
Traceback (most recent call last):
File "", line 1, in
File "rosetta/__init__.py", line 11, in
import utility
File "rosetta/utility/__init__.py", line 1, in
from __utility_all_at_once_ import *
ImportError: rosetta/libboost_python.so.1.42.0: undefined symbol: PyUnicodeUCS4_AsUTF8String

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PyRosetta - Build/Install

error while building rosetta++

Submitted by asmi on Thu, 2011-02-17 11:26

Hello

I am new to rosetta. When i am trying to build rosetta by typing make gcc,i am getting a long message a part of which looks like this:

src/utility/io/zipstream.ipp:657: instantiated from ‘void zlib_stream::basic_zip_ostream::add_footer() [with Elem = char, Tr = std::char_traits, ElemA = std::allocator, ByteT = unsigned char, ByteAT = std::allocator]’

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Rosetta++ - Build/Install

Username and Password for download link?

Submitted by juden99 on Thu, 2011-02-17 03:30

Hello,

I applied for the express academic license for pyrosetta and received the license email very rapidly. However, as compared to the Rosetta license where I also received an email with the download link and username and password, I did not receive such for Pyrosetta. Any ideas?

Thanks so much,

Judy

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PyRosetta - General

excecutable files don't work -- Rosetta3.2 on WindowsXP

Submitted by mn on Wed, 2011-02-16 01:10

Hi
I tried installing rosetta 3.2 on windows XP using cygwin1.7, gcc 3.4.4. following a procedure posted on 10/20/2009.

It seems I was able to compile rosetta3.2. There are "executable files" in rosetta_source/bin folder and rosetta_source/build/src/release/cygwin/1.7/32/x86/gcc folder. They look like AbinitioRelax.cygwingccrelease, backrub.cygwingccrelease and so on.

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Rosetta 3 - Build/Install

Fragment files for membrane_abinitio application

Submitted by sumukh21 on Tue, 2011-02-15 17:23

Hi

I am trying to make fragment files for membrane_abinitio application. I have secondary structure prediction results (*.rdb files) from SAM secondary structure server. I am trying to run the command:
make_fragments.pl -nojufo -nopsipred -noprof -samfile HRG3_all_X.t2k.str2.rdb HRG3.fasta

The program is generating all the files (.cst, .a2m) but somehow its not generating fragment (frag3, frag9) files at all.

Could anyone please help in this matter ?

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Rosetta 3 - Applications

How to estimate the effect of a mutation on the binding energy?

Submitted by ltrabuco on Tue, 2011-02-15 08:02

Given a protein complex, I would like to estimate the effect of a point mutation on the binding energy (ddG). I'd appreciate if anyone could point me to the Rosetta app(s) that I should look into. I'm fairly new to Rosetta.

Thanks!

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Rosetta 3 - Applications

how to relax structure constraining CA in Rosetta3.2?

Submitted by albumns on Tue, 2011-02-15 06:15

Hi

I am wondering how to relax structure constraining CA in Rosetta3.2?

I found that each protocol contains two executable command such as:

relax.default.linuxgccrelease relax.linuxgccrelease

is there any differences between these two?

THX

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Rosetta 3 - General

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