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Revisions №61197

branch: master 「№61197」
Commited by: Rocco Moretti
GitHub commit link: 「50aca2d75d2cbb95」 「№4360」
Difference from previous tested commit:  code diff
Commit date: 2020-03-25 12:52:12
linux.clang linux.gcc linux.srlz mac.clang
debug
release
unit
PyRosetta4.notebook gcc-9.gcc.python37.PyRosetta4.unit linux.clang.cxx11thread.serialization.python37.PyRosetta4.unit linux.gcc.python36.PyRosetta4.unit mac.PyRosetta.unit build.clean.debug build.cppcheck alpine.gcc.build.debug gcc-9.gcc.build.debug mysql postgres linux.clang.python36.build.debug linux.zeromq.debug mpi mpi.serialization linux.icc.build.debug OpenCL mac.clang.python36.build.debug build.header build.levels build.ninja_debug graphics static build.xcode beautification code_quality.clang_analysis code_quality.clang_tidy serialization code_quality.submodule_regression integration.mpi integration.release_debug integration.tensorflow integration.thread linux.clang.integration mac.clang.integration performance profile release.source scientific.docking.debug scientific.loop_modeling_kic_fragments_12res scientific.relax_cartesian.debug linux.clang.score linux.gcc.score mac.clang.score linux.scripts.pyrosetta scripts.rosetta.parse scripts.rosetta.validate scripts.rosetta.verify linux.clang.unit.release linux.gcc.unit.release gcc-9.gcc.unit util.apps

Merge pull request #4360 from RosettaCommons/roccomoretti/boost_submod Update Boost to 1.71, convert to submodules. The primary goal of this PR is to update Boost to a more recent version, but as a part of it it converts Boost from a "vendorized" (code-in-main repo) to a submodule system. The Boost submodules should be auto-updated as part of the build process (the `update_submodules.sh` script), so it should (hopefully) be invisible to most people. Here's how it's laid out: The existing source/external/boost_1_51_0/ directory is removed, and a new source/external/boost_submod/ directory is added. (And all build systems should be updated accordingly.) Within that subdirectory are direct links to the ~86 submodules of Boost that we're currently using (from https://github.com/boostorg/). (While Boost provides a "superproject" repository, we're not using that, and as such don't have to deal with nested submodules.) The submodules should be pointing a the 1.71.0 release tag version. Most of the submodules are being taken directly from the Boost.org's GitHub page, but there are a few with Rosetta-specific changes we're hosting directly. The layout of the submodules doesn't quite match the layout of the released boost directory, so there's a script which will symlink the contents of the submodules into the appropriate locations in source/external/boost_submod/boost/ (it prefers to symlink directories, but there are certain things it needs to symlink as files.). Those symlinks are committed into the main repo, and shouldn't need to be regenerated unless we update Boost.

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Test: linux.icc.build.debug

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Test: mac.clang.python27.build.xcode

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Test: linux.clang.integration.release_debug_no_symbols

Failed sub-tests (click for more details):
AnchoredDesign KIC_vicinity KIC_with_fragments LayerDesign_symm PolarDesign2019 ResidueDisorder SnugDock UBQ_E2_thioester UBQ_E2_thioester_extra_bodies UBQ_E2_thioester_two_ubiquitins UBQ_Gp_CYD-CYD UBQ_Gp_LYX-Cterm add_helix_sequence_constraints add_helix_sequence_constraints_advanced_setup antibody_H3 antibody_H3_camelid antibody_designer_xml antibody_graft antibody_numbering_converter backrub_interface_ddG batch_relax beta_strand_homodimer bin_initialization bundlegridsampler_composition_energy bundlegridsampler_composition_energy_fract_range bundlegridsampler_multirepeat buried_area_filter cartesianddg classic_relax_1a19 cyclization cycpep_design_pipeline d_workflow database_session_resource ddG_ensemble ddG_of_mutation density_refine density_refine_symm disulfidize_beta_cys docking_distance_constraints docking_ensemble_prepack docking_full_protocol docking_local_refine docking_local_refine_min docking_prepack docking_site_constraints enzdes erraser_minimize evolution farnesyl fast_relax flexpepdock flexpepdock_abinitio ga_ligand_dock genkic_lowmemory_mode genkic_sugars glycan_anomers glycan_refinment glycan_relax glycomutagenesis hbnet hbnet_asymm hbnet_energy hbnet_energy_rosettascripts_linear hbnet_energy_symm hbs_design helical_bundle_predict helical_bundle_predict_skipping_residues helix_from_sequence homodimer_fnd_ref2015_memb hybridization identify_cdr_clusters jd2test_PDBIO jd2test_PDBin_mmCIFout jd2test_PDBin_mmCIFout_extra_data_separate jd2test_mmCIFIO jd2test_mmCIFin_PDBout kinematic_looprelax ligand_database_io ligand_dock_script ligand_motif_design ligand_water_docking longest_continuous_polar_segment_filter match_6cpa metal_setup metalloprotein_abrelax mf_fixbb_des mf_fixbb_sc min_pack_min minimize_with_elec_dens mirror_symm motif_dna_packer_design mp_domain_assembly mp_domain_assembly_FtsQ mp_mutate_relax mp_range_relax mp_relax mp_symdock mr_protocols next_generation_KIC nonideal_rtmin oligourea_design oligourea_predict oop_design peptiderive pertmin pna_base_pairs pocket_relax polyaramid_test_trivial ppi_v3_suiteA ppi_v3_suiteB ppi_v3_suiteC ppi_v3_suiteD ppi_v3_suiteE ppi_v3_suiteF ppi_v3_suiteG range_relax_w_cst relax_w_allatom_cst remodel_disulfides_rosettascripts repack_with_elec_dens repeat_relax resource_database_locator rna_denovo rna_denovo_fragment_homology_exclusion rna_denovo_legacy rna_denovo_new_libs rnp_ddg_relax_command_1 rnp_ddg_relax_command_2 rosetta_scripts_jd3 rosetta_scripts_loops rs_loophash sdf_reader sequence_tolerance simple_cycpep_predict_angle simple_cycpep_predict_anglelength simple_cycpep_predict_bondangle_bondlength simple_cycpep_predict_cartesian simple_cycpep_predict_cispro simple_cycpep_predict_cterm_isopeptide_lariat simple_cycpep_predict_cterm_isopeptide_lariat_tailless simple_cycpep_predict_design simple_cycpep_predict_nterm_isopeptide_lariat simple_cycpep_predict_nterm_isopeptide_lariat_tailless simple_cycpep_predict_peptoid simple_cycpep_predict_setting simple_cycpep_predict_sidechain_isopeptide simple_cycpep_predict_sidechain_isopeptide_reverse simple_cycpep_predict_square_pyramidal_metal simple_cycpep_predict_tbmb simple_cycpep_predict_terminal_disulfide simple_cycpep_predict_terminal_disulfide_internal_permutations simple_cycpep_predict_terminal_disulfide_tails simple_cycpep_predict_tma simple_hbondstoatom simple_metric_cache simple_metric_features simple_metric_filter simple_metrics simple_metrics_per_residue splice_in_4loops_longer splice_in_4loops_shorter splice_out_H1_H2_longer splice_out_H1_H2_same splice_out_H1_H2_shorter splice_out_H3_longer splice_out_L1_L2_longer splice_out_L1_L2_same splice_out_L1_L2_shorter splice_out_L3_longer splice_out_L3_same splice_out_L3_shorter stored_residue_subset supercharge surface_docking swa_protein_CCDclose swa_protein_build_at_Cterminus swa_protein_build_at_Nterminus swa_protein_combine_loops swa_protein_loop_sampler swm_beta_peptide_loop swm_protein_CCDmove swm_protein_from_scratch swm_protein_loop_sampler swm_protein_move_inside_coiledcoil_by_bond swm_protein_move_inside_helix_by_bond symm_disulfidize symm_rotamer_boltzmann symmetric_docking task_selector tcrmodel threefold_symm_peptide_design torsion_restricted_sampling vip voids_penalty_energy_design_symmetry zinc_homodimer_design
Test: linux.clang.performance

Failed sub-tests (click for more details):
core_pack_denseig_current_default_sfxn