<div dir="ltr">I forgot to mention that the documentation for each nightly is available via a link on the download page.</div><div class="gmail_extra"><br clear="all"><div><div class="gmail_signature"><div dir="ltr"><div><div dir="ltr">Cheers<div><br></div><div>Nigel<div><br></div><div>---</div><div>Nigel W. Moriarty<br>Building 33R0349, Physical Biosciences Division<br>Lawrence Berkeley National Laboratory<br>Berkeley, CA 94720-8235<br>Phone : 510-486-5709 Email : NWMoriarty@LBL.gov<br>Fax : 510-486-5909 Web : <a href="http://CCI.LBL.gov" target="_blank">CCI.LBL.gov</a></div></div></div></div></div></div></div>
<br><div class="gmail_quote">On Thu, Mar 17, 2016 at 3:15 PM, Nigel Moriarty <span dir="ltr"><<a href="mailto:nwmoriarty@lbl.gov" target="_blank">nwmoriarty@lbl.gov</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Youglin<div><br></div><div>I'm a little confused about what is going wrong here. However, I should point out that the requirement for two Rosetta installs has changed. The documentation on the website is for the major release 1.10.1. You can check the documentation for the nightly you are using by typing</div><div><br></div><div>phenix.doc</div><div><br></div><div>Look for the updated Rosetta install docs. Unfortunately, you will have to get dev-2341 for this feature.</div></div><div class="gmail_extra"><br clear="all"><div><div><div dir="ltr"><div><div dir="ltr">Cheers<div><br></div><div>Nigel<div><br></div><div>---</div><div>Nigel W. Moriarty<br>Building 33R0349, Physical Biosciences Division<br>Lawrence Berkeley National Laboratory<br>Berkeley, CA 94720-8235<br>Phone : <a href="tel:510-486-5709" value="+15104865709" target="_blank">510-486-5709</a> Email : NWMoriarty@LBL.gov<br>Fax : <a href="tel:510-486-5909" value="+15104865909" target="_blank">510-486-5909</a> Web : <a href="http://CCI.LBL.gov" target="_blank">CCI.LBL.gov</a></div></div></div></div></div></div></div><div><div class="h5">
<br><div class="gmail_quote">On Tue, Mar 15, 2016 at 10:41 PM, Yonglin Hu <span dir="ltr"><<a href="mailto:yonglinhu@gmail.com" target="_blank">yonglinhu@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hello List,<br>
<br>
I would like to perform phenix.rosetta_refine on a structure. I understand that to use this program, I need to set up phenix and rosetta installations separated from those used in MR_Rosetta. I installed the most recent phenix and rosetta and followed the online documents, but when I tried to run "rosetta.build_phenix_interface", the program failed immediately with the following error messages:<br>
<br>
False<br>
scons: Reading SConscript files ...<br>
Running versioning script ... fatal: Not a git repository (or any of the parent directories): .git<br>
Done. (0.0 seconds)<br>
Could not find platform independent libraries <prefix><br>
Could not find platform dependent libraries <exec_prefix><br>
Consider setting $PYTHONHOME to <prefix>[:<exec_prefix>]<br>
ImportError: No module named site<br>
CalledProcessError: Command '['./update_options.sh']' returned non-zero exit status 1:<br>
File "/usr/local/rosetta-refine/rosetta/main/source/SConstruct", line 172:<br>
main()<br>
File "/usr/local/rosetta-refine/rosetta/main/source/SConstruct", line 163:<br>
SConscript("SConscript", "build")<br>
File "/usr/local/rosetta-refine/rosetta/main/source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py", line 614:<br>
return method(*args, **kw)<br>
File "/usr/local/rosetta-refine/rosetta/main/source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py", line 551:<br>
return _SConscript(self.fs, *files, **subst_kw)<br>
File "/usr/local/rosetta-refine/rosetta/main/source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py", line 260:<br>
exec _file_ in call_stack[-1].globals<br>
File "/usr/local/rosetta-refine/rosetta/main/source/SConscript", line 28:<br>
subprocess.check_call(["./update_options.sh"])<br>
File "/usr/local/rosetta-refine/phenix-dev-2328/base/lib/python2.7/subprocess.py", line 540:<br>
raise CalledProcessError(retcode, cmd)<br>
<br>
These messages are not very informative and I don't know what to do next.<br>
<br>
Any help will be greatly appreciated.<span><font color="#888888"><br>
<br>
Yonglin Hu<br>
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