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Revisions №61235

branch: master 「№61235」
Commited by: Vikram K. Mulligan
GitHub commit link: 「5c06e1405761a9f4」 「№4642」
Difference from previous tested commit:  code diff
Commit date: 2020-04-13 15:43:29
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 integration performance profile release.source scientific.antibody_h3_modeling scientific.docking.debug scientific.enzyme_design.debug scientific.mp_dock.debug scientific.mp_f19_decoy_discrimination.debug scientific.mp_f19_energy_landscape scientific.mp_lipid_acc.debug scientific.mp_relax scientific.relax_cartesian.debug scientific.relax_fast.debug scientific.relax_fast_5iter.debug scientific.sewing.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 #4642 from RosettaCommons/vmullig/helical_bundle_predict_sequences Add support to helical_bundle_predict for arbitrary heteropolymer building-blocks. This is mainly an input issue. This PR lets you put in a sequence file containing a whitespace-separated list of residue type names in lieu of a FASTA file. This pull request also updates the EnvPairPotential so that it properly handles D-amino acids.

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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 PolarDesign2019 SnugDock UBQ_E2_thioester UBQ_E2_thioester_extra_bodies UBQ_E2_thioester_two_ubiquitins UBQ_Gp_CYD-CYD UBQ_Gp_LYX-Cterm antibody_H3 antibody_H3_camelid antibody_designer_xml antibody_graft antibody_numbering_converter batch_relax beta_strand_homodimer classic_relax_1a19 cyclization cycpep_design_pipeline d_workflow database_md5 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 farnesyl fast_relax flexpepdock flexpepdock_abinitio genkic_sugars glycan_refinment hbnet_energy hbnet_energy_rosettascripts_linear hbnet_energy_symm hbs_design helical_bundle_predict helical_bundle_predict_sequence 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 metal_setup metalloprotein_abrelax min_pack_min minimize_with_elec_dens motif_dna_packer_design mp_domain_assembly mp_domain_assembly_FtsQ mr_protocols next_generation_KIC nonideal_rtmin oligourea_design oligourea_predict oop_design peptiderive pertmin 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 repack_with_elec_dens resource_database_locator rosetta_scripts_loops sdf_reader 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_tbmb simple_cycpep_predict_terminal_disulfide simple_cycpep_predict_terminal_disulfide_internal_permutations simple_cycpep_predict_terminal_disulfide_tails simple_cycpep_predict_tma simple_metric_cache simple_metric_features simple_metric_filter simple_metrics 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 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 tcrmodel torsion_restricted_sampling vip voids_penalty_energy_design_symmetry zinc_homodimer_design
Test: linux.clang.tensorflow.integration.tensorflow

Failed sub-tests (click for more details):
database_md5
Test: mac.clang.integration

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