<div dir="ltr">Can you send me the directory that was created by rosetta.run_tests.</div><div class="gmail_extra"><br clear="all"><div><div class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div dir="ltr">Cheers<div><br></div><div>Nigel<div><br></div><div>---</div><div>Nigel W. Moriarty<br>Building 33R0349, Molecular Biophysics and Integrated Bioimaging</div><div>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></div>
<br><div class="gmail_quote">On Sat, Oct 7, 2017 at 9:52 AM, Daniele de Sanctis <span dir="ltr"><<a href="mailto:de.sanctisd@gmail.com" target="_blank">de.sanctisd@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="color:rgb(49,49,49);font-size:1rem;word-spacing:1px" dir="auto"><div style="font-size:1rem"><div style="font-size:1rem">Hi all<br><br>I have some trouble installing rosetta. I followed the instruction as in <a href="https://www.phenix-online.org/documentation/reference/rosetta_install.html" style="font-size:1rem" target="_blank">https://www.phenix-online.<wbr>org/documentation/reference/<wbr>rosetta_install.html</a><br><br>and everything went ok up to<br><br>% rosetta.build_phenix_interface nproc=n<br><br>but then<br><br>% rosetta.run_tests<br><br>fails with <br><br>Rosetta command-line arguments:<br> -parser:protocol /buffer/desancti/xtal/rosetta_<wbr>src_2016.32.58837_bundle/main/<wbr>source/src/apps/public/<wbr>crystal_refinement/low_<wbr>resolution_refine.xml<br> -s 1yjp_rosetta_in.pdb<br> -mtzfile 1yjp_rosetta_data.mtz<br> -run:preserve_header<br> -crystal_refine<br> -parser:script_vars symmdef=1yjp_rosetta.symm<br> -parser:script_vars bfactstrat=individual<br> -parser:script_vars map_type=Auto<br> -score:weights talaris2013_cart<br> -nstruct 1<br><br>Generating 2 models on 1 processors...<br><br>DEBUG dumping error message<br>ERROR: Rosetta exited with status 139<br>stderr output:<br>Segmentation fault (core dumped)<br>Traceback (most recent call last):<br> File "/buffer/desancti/xtal/phenix/<wbr>phenix-1.12-2829/build/../<wbr>modules/phenix/phenix/command_<wbr>line/rosetta_refine.py", line 305, in <module><br> run(sys.argv[1:], create_dir=True)<br> File "/buffer/desancti/xtal/phenix/<wbr>phenix-1.12-2829/build/../<wbr>modules/phenix/phenix/command_<wbr>line/rosetta_refine.py", line 191, in run<br> debug=params.output.debug)<br> File "/buffer/desancti/xtal/phenix/<wbr>phenix-1.12-2829/modules/<wbr>phenix/phenix/rosetta/refine.<wbr>py", line 313, in __init__<br> self.run_jobs()<br> File "/buffer/desancti/xtal/phenix/<wbr>phenix-1.12-2829/modules/<wbr>phenix/phenix/rosetta/refine.<wbr>py", line 388, in run_jobs<br> check_result(result)<br> File "/buffer/desancti/xtal/phenix/<wbr>phenix-1.12-2829/modules/<wbr>phenix/phenix/rosetta/refine.<wbr>py", line 379, in check_result<br> raise RuntimeError("Aborted due to error in job %d." % result.job_id)<br>RuntimeError: Aborted due to error in job 1.<br><br><br></div>Any idea?<br><br></div>thanks<span class="HOEnZb"><font color="#888888"><br><br></font></span></div><span class="HOEnZb"><font color="#888888"><span style="color:rgb(49,49,49);word-spacing:1px;background-color:rgb(255,255,255)">Daniele</span><br style="color:rgb(49,49,49);word-spacing:1px"><div style="color:rgb(49,49,49);word-spacing:1px" dir="auto"><div style="font-size:1rem" dir="auto"><br></div></div>
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