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Revisions №61284

branch: master 「№61284」
Commited by: Rocco Moretti
GitHub commit link: 「cb360c57ed4ba63d」 「№4716」
Difference from previous tested commit:  code diff
Commit date: 2020-05-20 12:59:13
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 alpine.gcc.build.debug clang-10.clang.cxx11thread.mpi.serialization.tensorflow.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 code_quality.cppcheck serialization code_quality.submodule_regression integration.mpi integration.release_debug integration.tensorflow integration.thread integration performance profile release.source scientific.ligand_docking.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 #4716 from RosettaCommons/roccomoretti/master_fixes Handful of fixes to the integration tests. There were some minor issue with various integration tests which were leading to test "breakage" in master on the test server. Address these.

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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):
AlignPDBInfoToSequences AnchoredDesign AnchoredPDBCreator DumpTrajectoryEnergy DumpTrajectoryEnergy_packing InterfaceAnalyzer InterfaceAnalyzer_allscores InterfaceAnalyzer_bothpack InterfaceAnalyzer_ligand InterfaceAnalyzer_prepack InterfaceAnalyzer_resfile InterfaceAnalyzer_tracer KIC_refine KIC_vicinity KIC_with_fragments LoopAnalyzer RescorePDDF SID_rescore SnugDock UBQ_E2_thioester UBQ_E2_thioester_extra_bodies UBQ_E2_thioester_two_ubiquitins UBQ_Gp_CYD-CYD UBQ_Gp_LYX-Cterm angle_recovery_stats antibody_H3 antibody_H3_camelid antibody_designer_xml antibody_graft antibody_numbering_converter assemble_domains_jd2 auto-drrafter_final_results autosetup_metals_centroid backrub backrub_pilot batch_relax beta_strand_homodimer broker_membrane buried_unsat_kinemage buried_unsat_voids_hbnet_design buried_unsat_voids_hbnet_design_symm cart_min_glycans cartesianddg ccd_ends_graft_mover_rs centroid_from_fullatom classic_relax_1a19 cluster_alns constel contactMap coupled_moves create_clash-based_repack_shell create_sequence_motif crosslinkermover_octahedral crosslinkermover_octahedral_s2_symm crosslinkermover_square_planar crosslinkermover_square_planar_d2_symm crosslinkermover_square_pyramidal crosslinkermover_tetrahedral_metal crosslinkermover_tetrahedral_metal_asp crosslinkermover_tetrahedral_metal_c2_symmetry crosslinkermover_tetrahedral_metal_d2_symmetry crosslinkermover_tma crosslinkermover_tma_symm crosslinkermover_trigonal_planar crosslinkermover_trigonal_planar_c3_symm crosslinkermover_trigonal_pyramidal crosslinkermover_trigonal_pyramidal_c3_symm cstfile_to_theozyme_pdb custom_basetype_packer_palette cyclization cycpep_design_pipeline cycpep_symmetry_filter d_workflow database_md5 ddG_ensemble ddG_of_mutation density_denovo density_refine density_refine_symm density_tools design_w_custom_palette-CAAs design_w_custom_palette-NCAAs distances disulfidize_beta_cys docking_distance_constraints docking_ensemble docking_ensemble_prepack docking_full_protocol docking_local_refine docking_local_refine_min docking_prepack docking_site_constraints doug_dock_design_min_mod2_cal_cal drrafter_run energy_based_clustering_alpha_aa energy_based_clustering_alpha_aa_bin_analysis energy_based_clustering_alpha_aa_dihedral entropy_correction enumerative_sampling enzscore_filter_dimetal enzscore_filter_dimetal_sym enzscore_filter_ligand enzscore_filter_metal enzscore_filter_metal_sym extract_atomtree_diffs farnesyl fast_relax favor_native_residue fiber_diffraction_fad fix_alignment_to_match_pdb fixbb flexpepdock flexpepdock_abinitio fold_and_dock fold_from_loops gen_lig_grids genkic_ramaprepro_sampling genkic_sugars glycan_refinment glycan_relax glycan_sequon_scanner hbnet_use_input_rot hbonds hbonds_sp2 hbs_design helical_bundle_predict helical_bundle_predict_sequence helical_bundle_predict_skipping_residues helix_from_sequence homodimer_fnd_ref2015_memb hotspot_hashing hotspot_stub_constraints hybridization identify_cdr_clusters ig_dump interaction_graph_summary_metric interface_energy inv_kin_lig_loop_design jd2test_PDBIO jd2test_PDBin_mmCIFout jd2test_PDBin_mmCIFout_extra_data_separate jd2test_mmCIFIO jd2test_mmCIFin_PDBout job_definition_script_vars jscore kinematic_looprelax ligand_database_io ligand_dock_7cpa ligand_dock_grid ligand_dock_script ligand_motif_design ligand_water_docking loop_creation loop_grower_N_term_symm loop_modeling make_mainchain_potential make_symmdef_file match_1c2t match_1n9l match_6cpa match_xml measure_lcaa_radii metal_setup metalloprotein_abrelax mhc_epitope mhc_epitope_nmer_preload min_pack_min minimize_with_elec_dens mmtfIO_score_test motif_dna_packer_design mp_domain_assembly mp_domain_assembly_FtsQ mp_quick_relax_ref2015_memb mp_span_ang_ref2015_memb mpi_multistate_design mr_protocols multistage_rosetta_scripts multistage_rosetta_scripts_clustering mutate ncaa_fixbb ncbb_packer_palette netcharge_design netcharge_design_symm next_generation_KIC non-canonical_connectivities nonideal_rtmin oligourea_design oligourea_predict oop_design oop_dock_design orbitals pH_mode peptiderive per_residue_energies pertmin phosphonate pocket_measure pocket_relax pocket_suggest_targets polyaramid_test_trivial posttranslationalmod_io ppi_v3_suiteA ppi_v3_suiteB ppi_v3_suiteC ppi_v3_suiteD ppi_v3_suiteE ppi_v3_suiteF ppi_v3_suiteG pymol_cif ralford_dump_rotamers range_relax_w_cst read_polymeric_components readin_dna_rna_protein recon_design relax_w_allatom_cst remodel_helical_repeat repack_with_elec_dens res_lipo_ref2015_memb residue_energy_breakdown resource_database_locator rna_denovo_RNP_refine_native rna_denovo_dna_bridge rna_denovo_new_FT_RNP_2prot_dens rosetta_scripts_jd3 rosetta_scripts_loops rotamer_recovery_compare_two_structures score_jd2 score_only_silence secondary_structure_output selected_residue_count_metric sequence_tolerance simple_cycpep_predict simple_cycpep_predict_angle simple_cycpep_predict_anglelength 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_nmethyl simple_cycpep_predict_nterm_isopeptide_lariat simple_cycpep_predict_nterm_isopeptide_lariat_tailless simple_cycpep_predict_octahedral_metal simple_cycpep_predict_peptoid simple_cycpep_predict_setting simple_cycpep_predict_sidechain_isopeptide simple_cycpep_predict_sidechain_isopeptide_reverse simple_cycpep_predict_square_planar_metal simple_cycpep_predict_square_pyramidal_metal simple_cycpep_predict_symm_gly 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_tetrahedral_metal simple_cycpep_predict_tetrahedral_metal_asp simple_cycpep_predict_tma simple_cycpep_predict_trigonal_planar_metal simple_cycpep_predict_trigonal_pyramidal_metal simple_glycosylation simple_grafting_movers 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_H3_same splice_out_H3_shorter 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 struc_set_fragment_picker supercharge swa_protein_CCDclose swa_protein_build_at_Cterminus swa_protein_build_at_Nterminus swa_protein_combine_loops swa_protein_loop_sampler swa_protein_prepack swm_beta_peptide_loop swm_dna_bridge 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 swm_protein_preminimize symm_disulfidize symm_rotamer_boltzmann symmetric_docking symmetry_data_resource tcrmodel test_computed_saxs_spectrum threefoldlinkermover_tbmb threefoldlinkermover_tbmb_symmetric torsion_restricted_sampling validate_database vancomycin vip voids_penalty_energy_design voids_penalty_energy_design_symmetry write_mol_file zinc_heterodimer zinc_homodimer_design zinc_homodimer_setup
Test: mac.clang.integration

Failed sub-tests (click for more details):
AlignPDBInfoToSequences AnchoredDesign AnchoredPDBCreator DumpTrajectoryEnergy DumpTrajectoryEnergy_packing InterfaceAnalyzer InterfaceAnalyzer_allscores InterfaceAnalyzer_bothpack InterfaceAnalyzer_ligand InterfaceAnalyzer_prepack InterfaceAnalyzer_resfile InterfaceAnalyzer_tracer KIC_refine KIC_vicinity KIC_with_fragments LoopAnalyzer RescorePDDF SID_rescore SnugDock UBQ_E2_thioester UBQ_E2_thioester_extra_bodies UBQ_E2_thioester_two_ubiquitins UBQ_Gp_CYD-CYD UBQ_Gp_LYX-Cterm angle_recovery_stats antibody_H3 antibody_H3_camelid antibody_designer_xml antibody_graft antibody_numbering_converter assemble_domains_jd2 auto-drrafter_final_results autosetup_metals_centroid backrub backrub_pilot batch_relax beta_strand_homodimer broker_membrane buried_unsat_kinemage buried_unsat_voids_hbnet_design buried_unsat_voids_hbnet_design_symm cart_min_glycans cartesianddg ccd_ends_graft_mover_rs centroid_from_fullatom classic_relax_1a19 cluster_alns constel contactMap continuous_sewing_hasher coupled_moves create_clash-based_repack_shell create_sequence_motif crosslinkermover_octahedral crosslinkermover_octahedral_s2_symm crosslinkermover_square_planar crosslinkermover_square_planar_d2_symm crosslinkermover_square_pyramidal crosslinkermover_tetrahedral_metal crosslinkermover_tetrahedral_metal_asp crosslinkermover_tetrahedral_metal_c2_symmetry crosslinkermover_tetrahedral_metal_d2_symmetry crosslinkermover_tma crosslinkermover_tma_symm crosslinkermover_trigonal_planar crosslinkermover_trigonal_planar_c3_symm crosslinkermover_trigonal_pyramidal crosslinkermover_trigonal_pyramidal_c3_symm cstfile_to_theozyme_pdb custom_basetype_packer_palette cyclization cycpep_design_pipeline cycpep_symmetry_filter d_workflow database_md5 ddG_ensemble ddG_of_mutation density_denovo density_refine density_refine_symm density_tools design_w_custom_palette-CAAs design_w_custom_palette-NCAAs discontinuous_sewing_hasher distances disulfidize_beta_cys docking_distance_constraints docking_ensemble docking_ensemble_prepack docking_full_protocol docking_local_refine docking_local_refine_min docking_prepack docking_site_constraints doug_dock_design_min_mod2_cal_cal drrafter_run energy_based_clustering_alpha_aa energy_based_clustering_alpha_aa_bin_analysis energy_based_clustering_alpha_aa_dihedral entropy_correction enumerative_sampling enzscore_filter_dimetal enzscore_filter_dimetal_sym enzscore_filter_ligand enzscore_filter_metal enzscore_filter_metal_sym extract_atomtree_diffs farnesyl fast_relax favor_native_residue fiber_diffraction_fad fix_alignment_to_match_pdb fixbb flexpepdock flexpepdock_abinitio fold_and_dock fold_from_loops gen_lig_grids genkic_ramaprepro_sampling genkic_sugars glycan_refinment glycan_relax glycan_sequon_scanner hbnet_use_input_rot hbonds hbonds_sp2 hbs_design helical_bundle_predict helical_bundle_predict_sequence helical_bundle_predict_skipping_residues helix_from_sequence homodimer_fnd_ref2015_memb hotspot_hashing hotspot_stub_constraints hybridization identify_cdr_clusters ig_dump interaction_graph_summary_metric interface_energy inv_kin_lig_loop_design jd2test_PDBIO jd2test_PDBin_mmCIFout jd2test_PDBin_mmCIFout_extra_data_separate jd2test_mmCIFIO jd2test_mmCIFin_PDBout job_definition_script_vars jscore kinematic_looprelax ligand_database_io ligand_dock_7cpa ligand_dock_grid ligand_dock_script ligand_motif_design ligand_water_docking loop_creation loop_grower_N_term_symm loop_modeling make_mainchain_potential make_symmdef_file match_1c2t match_1n9l match_6cpa match_xml measure_lcaa_radii membrane_relax membrane_relax_hbond metal_setup metalloprotein_abrelax mhc_epitope mhc_epitope_nmer_preload min_pack_min minimize_with_elec_dens mmtfIO_score_test motif_dna_packer_design mp_domain_assembly mp_domain_assembly_FtsQ mp_quick_relax_ref2015_memb mp_span_ang_ref2015_memb mpi_multistate_design mr_protocols multistage_rosetta_scripts multistage_rosetta_scripts_clustering mutate ncaa_fixbb ncbb_packer_palette netcharge_design netcharge_design_symm next_generation_KIC non-canonical_connectivities nonideal_rtmin oligourea_design oligourea_predict oop_design oop_dock_design orbitals pH_mode peptiderive per_residue_energies pertmin phosphonate pocket_measure pocket_relax pocket_suggest_targets polyaramid_test_trivial posttranslationalmod_io ppi_v3_suiteA ppi_v3_suiteB ppi_v3_suiteC ppi_v3_suiteD ppi_v3_suiteE ppi_v3_suiteF ppi_v3_suiteG pymol_cif ralford_dump_rotamers range_relax_w_cst read_polymeric_components readin_dna_rna_protein recon_design relax_w_allatom_cst remodel remodel_helical_repeat repack_with_elec_dens res_lipo_ref2015_memb residue_energy_breakdown resource_database_locator rna_denovo_RNP_refine_native rna_denovo_dna_bridge rna_denovo_new_FT_RNP_2prot_dens rosetta_scripts_jd3 rosetta_scripts_loops rotamer_recovery_compare_two_structures score_jd2 score_only_silence secondary_structure_output selected_residue_count_metric sequence_tolerance simple_cycpep_predict simple_cycpep_predict_angle simple_cycpep_predict_anglelength 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_nmethyl simple_cycpep_predict_nterm_isopeptide_lariat simple_cycpep_predict_nterm_isopeptide_lariat_tailless simple_cycpep_predict_octahedral_metal simple_cycpep_predict_peptoid simple_cycpep_predict_setting simple_cycpep_predict_sidechain_isopeptide simple_cycpep_predict_sidechain_isopeptide_reverse simple_cycpep_predict_square_planar_metal simple_cycpep_predict_square_pyramidal_metal simple_cycpep_predict_symm_gly 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_tetrahedral_metal simple_cycpep_predict_tetrahedral_metal_asp simple_cycpep_predict_tma simple_cycpep_predict_trigonal_planar_metal simple_cycpep_predict_trigonal_pyramidal_metal simple_glycosylation simple_grafting_movers 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_H3_same splice_out_H3_shorter 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 struc_set_fragment_picker supercharge swa_protein_CCDclose swa_protein_build_at_Cterminus swa_protein_build_at_Nterminus swa_protein_combine_loops swa_protein_loop_sampler swa_protein_prepack swm_beta_peptide_loop swm_dna_bridge 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 swm_protein_preminimize symm_disulfidize symm_rotamer_boltzmann symmetric_docking symmetry_data_resource tcrmodel test_computed_saxs_spectrum threefoldlinkermover_tbmb threefoldlinkermover_tbmb_symmetric torsion_restricted_sampling validate_database vancomycin vip voids_penalty_energy_design voids_penalty_energy_design_symmetry write_mol_file zinc_heterodimer zinc_homodimer_design zinc_homodimer_setup