<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class="">Hello,</div><div class=""><br class=""></div><div class="">I’m trying to use mr_rosetta on my protein. I’m using OS X and upgraded phenix a couple of days ago and install rosetta at the same time.</div><div class=""><br class=""></div><div class="">My job stops with the following message in this log file <span style="font-family: Courier; font-size: 11px;" class="">/phenix/MR_ROSETTA_52/GROUP_OF_ROSETTA_REBUILD_1/RUN_1/REBUILD_IN_SETS_1/RUN_6/WORK_1/rebuild.log.</span></div><div class=""><br class=""></div><div class="">ERROR: can't find residue type at pos 1 in sequence </div><div class="">...sequence removed…</div><div class=""><br class=""></div><div class="">ERROR:: Exit from: src/core/pose/annotated_sequence.cc line: 236</div><div class="">[35m0 mr_protocols.macosclangrelease 0x000000010b198bd6 print_backtrace() + 54</div><div class="">1 mr_protocols.macosclangrelease 0x000000010b198ab4 utility::exit(std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > const&, int, std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > const&, int) + 804</div><div class="">2 mr_protocols.macosclangrelease 0x000000010a9b8ca1 core::pose::residue_types_from_sequence(std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > const&, core::chemical::ResidueTypeSet const&, bool) + 3697</div><div class="">3 mr_protocols.macosclangrelease 0x000000010a9ba6ea core::pose::make_pose_from_sequence(core::pose::Pose&, std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > const&, core::chemical::ResidueTypeSet const&, bool) + 26</div><div class="">4 mr_protocols.macosclangrelease 0x0000000109267969 protocols::comparative_modeling::ThreadingJobInputter::pose_from_job(core::pose::Pose&, std::__1::shared_ptr<protocols::jd2::Job>) + 1449</div><div class="">5 mr_protocols.macosclangrelease 0x0000000109cb0c58 protocols::jd2::JobDistributor::run_one_job(std::__1::shared_ptr<protocols::moves::Mover>&, long, std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> >&, std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> >&, unsigned long&, unsigned long&, bool) + 2232</div><div class="">6 mr_protocols.macosclangrelease 0x0000000109cafb5b protocols::jd2::JobDistributor::go_main(std::__1::shared_ptr<protocols::moves::Mover>) + 331</div><div class="">7 mr_protocols.macosclangrelease 0x0000000109c8d1f2 protocols::jd2::FileSystemJobDistributor::go(std::__1::shared_ptr<protocols::moves::Mover>) + 66</div><div class="">8 mr_protocols.macosclangrelease 0x00000001089e9964 my_main(void*) + 3124</div><div class="">9 mr_protocols.macosclangrelease 0x00000001089eae19 main + 4713</div><div class="">10 libdyld.dylib 0x00007fff8c8555c9 start + 1</div><div class="">11 ??? 0x0000000000000002 0x0 + 2</div><div class="">[0mError: ERROR: Exception caught by JobDistributor while trying to get pose from job 'S_PHENI_0001'</div><div class="">Error: </div><div class=""><br class=""></div><div class="">[ERROR] EXCN_utility_exit has been thrown from: src/core/pose/annotated_sequence.cc line: 236</div><div class="">ERROR: can't find residue type at pos 1 in sequence </div><div class="">...sequence removed...</div><div class=""><br class=""></div><div class=""><br class=""></div><div class="">Error: Treating failure as bad input; canceling similar jobs</div><div class="">protocols.jd2.FileSystemJobDistributor: job failed, reporting bad input; other jobs of same input will be canceled: S_PHENI_0001</div><div class="">protocols.jd2.JobDistributor: no more batches to process... </div><div class="">protocols.jd2.JobDistributor: 15 jobs considered, 1 jobs attempted in 0 seconds</div><div class="">caught exception 1 jobs failed; check output for error messages</div><div class=""><br class=""></div><div class=""><div style="margin: 0px; font-size: 11px; font-family: Courier;" class=""><br class=""></div></div><div style="margin: 0px; font-size: 11px; font-family: Courier;" class="">Anybody can help?</div><div style="margin: 0px; font-size: 11px; font-family: Courier;" class=""><br class=""></div><div style="margin: 0px; font-size: 11px; font-family: Courier;" class="">Thanks</div><div style="margin: 0px; font-size: 11px; font-family: Courier;" class=""><br class=""></div><div style="margin: 0px; font-size: 11px; font-family: Courier;" class="">Fred</div><div class="">
<div class="">-----<br class="">Frédéric Kerff<br class="">Chercheur qualifié F.R.S.-FNRS<br class="">Cristallographie des protéines<br class="">Centre d'Ingénierie des Protéines<br class="">Université de Liège<br class="">17, Allée du 6 Août - Bat B5a<br class="">4000 Liège (Belgium)<br class="">Tel.: +32 (0)4 3663620<br class="">Fax: +32 (0)4 3663772</div><div class=""><br class=""></div><br class="Apple-interchange-newline">
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