[phenixbb] Rosetta refine compilation issue Centos 7
pdadams at lbl.gov
Wed Sep 23 14:09:08 PDT 2015
the problems seem to occur when scons is called to compile Rosetta. I notice that the scons.py file uses the python that appears first in your path (#! /usr/bin/env python). Is it possible that this is a python that is broken in some way?
> On Sep 23, 2015, at 9:11 AM, ludovic Pecqueur <ludovic.pecqueur at college-de-france.fr> wrote:
> Dear Developers,
> I have a fresh Centos 7 system and after installing Phenix I wanted to compile the Rosetta.refine module. (Rosetta from source version 2015.31.58019)
> I have succesfully compiled Rosetta but when I try to build the dedicated Rosetta for Rosetta_refine with rosetta.build_phenix_interface after setting up PHENIX_ROSETTA_PATH and ROSETTA3_DB I get the following error message:
> [XXX at ...]$ rosetta.build_phenix_interface nproc=6
> scons: Reading SConscript files ...
> Running versioning script ... Done. (0.1 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 "/usr/local/PROGRAMS/ROSETTA/PHENIX_Rosetta_refine/main/source/SConstruct", line 172:
> File "/usr/local/PROGRAMS/ROSETTA/PHENIX_Rosetta_refine/main/source/SConstruct", line 163:
> SConscript("SConscript", "build")
> File "/usr/local/PROGRAMS/ROSETTA/PHENIX_Rosetta_refine/main/source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py", line 614:
> return method(*args, **kw)
> File "/usr/local/PROGRAMS/ROSETTA/PHENIX_Rosetta_refine/main/source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py", line 551:
> return _SConscript(self.fs, *files, **subst_kw)
> File "/usr/local/PROGRAMS/ROSETTA/PHENIX_Rosetta_refine/main/source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py", line 260:
> exec _file_ in call_stack[-1].globals
> File "/usr/local/PROGRAMS/ROSETTA/PHENIX_Rosetta_refine/main/source/SConscript", line 28:
> File "/usr/local/PROGRAMS/XTAL/PHENIX/phenix-1.10-2155/base/lib/python2.7/subprocess.py", line 540:
> raise CalledProcessError(retcode, cmd).
> If you have any idea of what could cause the problem, I would welcome any suggestions.
> I updated Phenix and I could compile phenix.rosetta_refine without problems on Centos 6.7.
> Thank you very much for your time and help.
> Kind regards,
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