[phenixbb] Phenix Rosetta install
Felipe Trajtenberg
felipet at pasteur.edu.uy
Mon Dec 22 05:41:10 PST 2014
Dear Nat
Indeed the python is not the one distributed with Phenix!
which python
/usr/bin/python
python -c "import socket"
no output at all!
I change the python and now is installed!
thanks!
felipe
On 12/19/2014 04:25 PM, Nathaniel Echols wrote:
> Error messages like "ImportError: No module named site" usually
> indicate that a Python installation is seriously broken. The intent
> was to use the Python distributed with Phenix but it looks like
> Rosetta's build system makes additional Python calls that may use a
> different interpreter. What is the output of these commands?
>
> which python
> python -c "import socket"
>
> -Nat
>
> On Thu, Dec 18, 2014 at 4:36 AM, Felipe Trajtenberg
> <felipet at pasteur.edu.uy <mailto:felipet at pasteur.edu.uy>> wrote:
>
> Dear all,
>
> I am trying to build the hybrid installation between Rosetta and
> Phenix using the rosetta.build_phenix_interface command
>
> Phenix version: phenix-1.9-1692
> Rosetta version: rosetta_2014.35.57232
>
> I have no problem in compiling rosetta alone but when I try to
> build the hybrid system I get the following error:
>
> False
> scons: Reading SConscript files ...
> Running versioning script ... Done. (0.0 seconds)
> Could not find platform independent libraries <prefix>
> Could not find platform dependent libraries <exec_prefix>
> Consider setting $PYTHONHOME to <prefix>[:<exec_prefix>]
> ImportError: No module named site
> CalledProcessError: Command '['./update_options.sh']' returned
> non-zero exit status 1:
> File
> "/home/Xtal/Rosetta_phenix/rosetta_2014.35.57232_bundle/main/source/SConstruct",
> line 172:
> main()
> File
> "/home/Xtal/Rosetta_phenix/rosetta_2014.35.57232_bundle/main/source/SConstruct",
> line 163:
> SConscript("SConscript", "build")
> File
> "/home/Xtal/Rosetta_phenix/rosetta_2014.35.57232_bundle/main/source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py",
> line 614:
> return method(*args, **kw)
> File
> "/home/Xtal/Rosetta_phenix/rosetta_2014.35.57232_bundle/main/source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py",
> line 551:
> return _SConscript(self.fs, *files, **subst_kw)
> File
> "/home/Xtal/Rosetta_phenix/rosetta_2014.35.57232_bundle/main/source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py",
> line 260:
> exec _file_ in call_stack[-1].globals
> File
> "/home/Xtal/Rosetta_phenix/rosetta_2014.35.57232_bundle/main/source/SConscript",
> line 28:
> subprocess.check_call(["./update_options.sh"])
> File
> "/home/Xtal/Phenix/phenix-1.9-1692/build/intel-linux-2.6-x86_64/base/lib/python2.7/subprocess.py",
> line 540:
> raise CalledProcessError(retcode, cmd)
>
> thanks in advance
>
> Felipe
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