<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Dear Anand,<div><br></div><div>I'm sorry for the trouble! This seems to be a failure in refinement during rebuilding. It is possible that the error has been fixed since, so one solution is to download an even-more-recent version and try that.</div><div><br></div><div>Another possibility is to re-run the job with "debug=True" and then a more complete error message should be printed.</div><div><br></div><div>A third possibility is to send me (<a href="mailto:terwilliger@lanl.gov">terwilliger@lanl.gov</a>, off-list) all the files necessary to run the job and I will debug it here.</div><div><br></div><div>A fourth possibility is to look in the file</div><div><br></div><div> /home/anand/Autobuild/5/AutoBuild_run_1_/TEMP0/AutoBuild_run_1_/LAST.LOG</div><div><br></div><div>which may have some more clues.</div><div><br></div><div>All the best,</div><div>Tom T</div><div> <br><div><div>On Jun 1, 2011, at 1:49 AM, B. Anand wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div>Dear All,<br><br> I am using autobuild to rebuild the model after MR. However, it<br>stops with the following error which am I not able to comprehend.<br>Could you please shed some light on this error. Am using phenix<br>version 1.7.1 (Release tag:743). Thanks.<br><br>With Best Regards,<br>Anand<br><br>*************ERROR ENDING *******************<br><br>********************************************************************************<br>Failed to carry out AutoBuild_multiple_models:<br><br><br>********************************************************************************<br>Sorry, a subprocess has failed...<br><br>END OF LOG FILE /home/anand/Autobuild/5/AutoBuild_run_1_/TEMP0/RUN_FILE_1.log :<br><br>utoBuild Run 1 Tue May 31 01:00:15 2011<br><br>Build cycle 1 of 16 method:rebuild<br>Initial rebuild cycle: just combining previous models or copying<br>over initial PDB file<br><br>Using edited_pdb.pdb for rebuild, copied to unrefined.pdb_1<br>Refining model: unrefined.pdb_1<br>No refinement carried out (may need free R flags)<br>Error message from phenix.refine: 'function' object has no attribute<br>'as_mtz_dataset'<br>Refinement failed...<br>*************ERROR ENDING *******************<br><br>********************************************************************************<br>Failed to carry out AutoBuild_build_cycle:<br><br>Initial phenix refinement of AutoBuild_run_1_/edited_pdb.pdb with<br>exptl_fobs_phases_freeR_flags.mtz failed...quitting...<br>/home/anand/Autobuild/5/AutoBuild_run_1_/TEMP0/AutoBuild_run_1_/LAST.LOG<br>may have additional information...<br>'function' object has no attribute 'as_mtz_dataset'<br>********************************************************************************<br><br>*************ERROR ENDING *******************<br><br><br><br>********************************************************************************<br><br>*************ERROR ENDING *******************<br><br><br>-- <br>B. Anand, Ph. D.<br>Assistant Professor<br>Department of Biotechnology<br>Indian Institute of Technology Guwahati<br>Guwahati 781039<br>Assam, India<br>Email: <a href="mailto:banand@iitg.ernet.in">banand@iitg.ernet.in</a><br> <a href="mailto:anandbasub@gmail.com">anandbasub@gmail.com</a><br>Phone: +91-361-258 2223<br>Fax: +91-361-258 2249<br>Web: <a href="http://www.iitg.ernet.in/banand/">http://www.iitg.ernet.in/banand/</a><br>_______________________________________________<br>phenixbb mailing list<br><a href="mailto:phenixbb@phenix-online.org">phenixbb@phenix-online.org</a><br>http://phenix-online.org/mailman/listinfo/phenixbb<br></div></blockquote></div><br><div>
<span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0; "><div><div><div><div><div><br>Thomas C. Terwilliger<br>Mail Stop M888<br>Los Alamos National Laboratory<br>Los Alamos, NM 87545<br><br>Tel: 505-667-0072 email: <a href="mailto:terwilliger@LANL.gov">terwilliger@LANL.gov</a><br>Fax: 505-665-3024 SOLVE web site: <a href="http://solve.lanl.gov">http://solve.lanl.gov</a><br>PHENIX web site: http:www.phenix-online.org<br>ISFI Integrated Center for Structure and Function Innovation web site: <a href="http://techcenter.mbi.ucla.edu">http://techcenter.mbi.ucla.edu</a><br>TB Structural Genomics Consortium web site: <a href="http://www.doe-mbi.ucla.edu/TB">http://www.doe-mbi.ucla.edu/TB</a></div><div>CBSS Center for Bio-Security Science web site: <a href="http://www.lanl.gov/cbss">http://www.lanl.gov/cbss</a><br><br></div></div></div></div><br></div></span><br class="Apple-interchange-newline">
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