Test №837357

Test: linux.clang.build.debug 「view this page in B3 βῆτα server」
Branch: rosetta:commits 「revision: №20474」
Test files: 「file-system-view」「file-list-view」
Daemon: hojo-1 Started at: 2024-09-17 17:02:32 Run time: 0:12:29 State: failed

Test Log

Running: /home/benchmark/prefix/hojo-1/linux/python-3.9.gcc/99a1a29fd465f86265a7c5b92d75dbcd/bin/python3.9 ./scons.py bin cxx=clang extras= -j24 scons: Reading SConscript files ... Running versioning script ... Done. (0.1 seconds) Number of option files updated: 0 Total 4708 options. Updating submodules needed for compilation. Finished updating ResidueProperty code -- no changes needed Finished updating VariantType code -- no changes needed scons: done reading SConscript files. scons: Building targets ... clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/AbinitioRelax.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/AbinitioRelax.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/AnchorFinder.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/interface_design/anchored_design/AnchorFinder.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 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-Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/AnchoredPDBCreator.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib 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-Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/flexpep_docking/BuildPeptide.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/ComputeSAXSSpectrum.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/dgront/saxs/ComputeSAXSSpectrum.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic 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-lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/DARC.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/darc/DARC.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/DNA_methylation.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/post-translational_modification/DNA_methylation.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/FiberDiffractionFreeSet.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib 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-Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/wojtek/FiberDiffractionTest.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/FlexPepDocking.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/flexpep_docking/FlexPepDocking.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic 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-Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/stepwise/build_full_model.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/burial_measure_centroid.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/maprahamian/burial_measure_centroid.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/ca_to_allatom.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/scenarios/ca_to_allatom.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/calc_nmr_tensor.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/nmr/calc_nmr_tensor.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes Install file: "build/src/debug/linux/5.4/64/x86/clang/3.4/default/angle_recovery_stats.default.linuxclangdebug" as "bin/angle_recovery_stats.default.linuxclangdebug" clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/calculate_sasa.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/calculate_sasa.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/calibur.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/clustering/calibur.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/cartesian_ddg.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/ddg/cartesian_ddg.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/cl_complex_rescore.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/analysis/cl_complex_rescore.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/cloud_app.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/olli/cloud_app.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/cluster.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/clustering/cluster.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/cluster_alns.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/comparative_modeling/cluster_alns.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/cmaes_minimizer_test.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/kdrew/cmaes_minimizer_test.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/color_by_lipid_type.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/ralford/color_by_lipid_type.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib 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-lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_dock.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_dock.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes src/apps/public/motif_ligand_discovery/ligand_discovery_search_protocol.cc:245:33: error: no viable conversion from 'utility::options::IntegerVectorOption' to 'utility::vector1<core::Size>' utility::vector1<core::Size> discovery_position = option[ OptionKeys::motifs::protein_discovery_locus ]; ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/utility/vector1.hh:134:2: note: candidate constructor not viable: no known conversion from 'utility::options::IntegerVectorOption' to 'const utility::vector1<unsigned long, std::allocator<unsigned long> > &' for 1st argument vector1( vector1 const & v ) : ^ src/utility/vector1.hh:197:2: note: candidate constructor not viable: no known conversion from 'utility::options::IntegerVectorOption' to 'utility::vector1<unsigned long, std::allocator<unsigned long> > &&' for 1st argument vector1( vector1 && v ) : ^ src/utility/vector1.hh:213:2: note: candidate constructor not viable: no known conversion from 'utility::options::IntegerVectorOption' to 'std::initializer_list<unsigned long>' for 1st argument vector1( std::initializer_list<T> init, const A& alloc = A() ) : ^ src/utility/vector1.hh:142:2: note: candidate template ignored: could not match 'vectorL<, type-parameter-0-1, type-parameter-0-2>' against 'utility::options::IntegerVectorOption' vector1( vectorL< L_, T_, A_ > const & v ) : ^ src/utility/options/VectorOption_T_.hh:207:2: note: candidate function operator Values const &() const ^ clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_dock_setup.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_dock_setup.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_domain_assembly.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_domain_assembly.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_find_interface.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/jkleman/mp_find_interface.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_lipid_acc.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_lipid_acc.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_mutate_relax.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_mutate_relax.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_quick_relax.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/jkleman/mp_quick_relax.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_range_relax.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_range_relax.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_seqrecov.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_seqrecov.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_span_from_pdb.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_span_from_pdb.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_symdock.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_symdock.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_transform.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_transform.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mp_viewer.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/membrane/mp_viewer.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mpdocking_setup.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/jkleman/mpdocking_setup.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mpi_msd.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/design/mpi_msd.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/electron_density/mr_protocols.o -c -std=c++11 -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -O0 -g -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -Isrc -Iexternal/include -Isrc/platform/linux/64/clang/3.4 -Isrc/platform/linux/64/clang -Isrc/platform/linux/64 -Isrc/platform/linux src/apps/public/electron_density/mr_protocols.cc clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/mucintypeglycosylation.default.linuxclangdebug -stdlib=libstdc++ -Wl,-rpath=/home/benchmark/rosetta/source/build/src/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=/home/benchmark/rosetta/source/build/external/debug/linux/5.4/64/x86/clang/3.4/default -Wl,-rpath=\$ORIGIN -Wl,-rpath=\$ORIGIN/../lib build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/pilot/ysrinivasan/mucintypeglycosylation.o -Lexternal/lib -Lbuild/src/debug/linux/5.4/64/x86/clang/3.4/default -Lsrc -Lbuild/external/debug/linux/5.4/64/x86/clang/3.4/default -Lexternal -L/usr/lib -L/usr/local/lib -ldevel -lprotocols.8 -lprotocols.7 -lprotocols_e.6 -lprotocols_d.6 -lprotocols_c.6 -lprotocols_b.6 -lprotocols_a.6 -lprotocols_h.5 -lprotocols_g.5 -lprotocols_f.5 -lprotocols_e.5 -lprotocols_d.5 -lprotocols_c.5 -lprotocols_b.5 -lprotocols_a.5 -lprotocols.4 -lprotocols.3 -lprotocols_b.2 -lprotocols_a.2 -lprotocols.1 -lcore.6 -lcore.5 -lcore.4 -lcore.3 -lcore.2 -lcore.1 -lbasic -lnumeric -lutility -lObjexxFCL -lz -lcppdb -lsqlite3 -lz -lzlib -lcppdb -lsqlite3 -lcifparse -lxml2 -lzmq -lrdkit -lbcl -lcmaes clang++ -o build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/rosetta_scripts/multistage/multistage_rosetta_scripts.o -c -std=c++11 -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -O0 -g -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -Isrc -Iexternal/include -Isrc/platform/linux/64/clang/3.4 -Isrc/platform/linux/64/clang -Isrc/platform/linux/64 -Isrc/platform/linux src/apps/public/rosetta_scripts/multistage/multistage_rosetta_scripts.cc 1 error generated. scons: *** [build/src/debug/linux/5.4/64/x86/clang/3.4/default/apps/public/motif_ligand_discovery/ligand_discovery_search_protocol.o] Error 1 scons: building terminated because of errors.

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