[phenixbb] Rosetta refine compilation issue Centos 7 (ludovic Pecqueur)
Kay Diederichs
kay.diederichs at uni-konstanz.de
Sun Sep 27 23:23:58 PDT 2015
just a wild guess - could it be that, according to
http://strucbio.biologie.uni-konstanz.de/ccp4wiki/index.php/Phenix#Installation_from_source.2C_and_of_Rosetta_interface
the Phenix installer requires (on Fedora and RHEL) the openssl-devel and
libXt-devel to be installed on the system ?
HTH,
Kay
Am 28.09.15 um 03:24 schrieb phenixbb-request at phenix-online.org:
> 8. Re: Rosetta refine compilation issue Centos 7 (ludovic Pecqueur)
>
> Message: 7
> Date: Wed, 23 Sep 2015 14:09:08 -0700
> From: Paul Adams <pdadams at lbl.gov>
> To: ludovic Pecqueur <ludovic.pecqueur at college-de-france.fr>
> Cc: phenixbb at phenix-online.org
> Subject: Re: [phenixbb] Rosetta refine compilation issue Centos 7
> Message-ID: <68387823-8DAE-4C7F-84DF-5D79D36A3AD0 at lbl.gov>
> Content-Type: text/plain; charset=us-ascii
>
> Hi Ludovic,
>
> 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?
>
> Cheers,
> Paul
>
>> 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
>> False
>> 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:
>> main()
>> 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:
>> subprocess.check_call(["./update_options.sh"])
>> 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,
>>
>> Ludovic.
>>
>>
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