Merge pull request #6014 from RosettaCommons/cart_h_fix adding fix to default-improper, so Rosetta can fix mislabeled Q/N H-atoms

• Summary
• integration.addsan 「2」
• integration.mpi 「3」
• integration.release_debug 「3」
• integration.tensorflow 「1」
• integration.thread 「1」
• integration.tutorials 「1」
• integration.ubsan 「1」
• integration 「3」
• scientific.make_fragments.debug
• scientific.make_fragments
• scientific.mp_f19_ddG_of_mutation
• scientific.mp_f19_sequence_recovery
• gcc-10.gcc.unit 「158」

Merge pull request #5931 from RosettaCommons/JackMaguire/EnsureExclusivelySharedJump JumpDownstreamSelector appears to have been making some assumptions about the foldtree that result in an inverted selection. The fix checks to see if the downstream residue from the jump is selected, and inverts the selection if not.

• Summary
• integration.addsan 「2」
• integration.release_debug 「3」
• integration.tutorials 「1」
• integration.ubsan 「1」
• integration 「3」
• scientific.ligand_scoring_ranking
• scientific.make_fragments.debug
• scientific.make_fragments

Merge pull request #6008 from RosettaCommons/rdkibler-patch-1 Fix an index bound check in KeepRegionMover

• Summary
• integration.addsan 「1」
• integration.release_debug 「1」
• integration.tutorials 「1」
• integration.ubsan 「1」
• integration 「1」
• scientific.ligand_scoring_ranking
• scientific.mp_f19_decoy_discrimination.debug
• scientific.mp_f19_decoy_discrimination
• scientific.mp_f19_tilt_angle
• gcc-11.gcc.python39.unit 「3」

Merge pull request #6001 from RosettaCommons/roccomoretti/xsd_loading Don't load XSD citation info if we don't need it. We don't need the citation info if we're just doing schema validation (it just adjusts the description, and doesn't effect the validity of the XML). Add a (default true) flag we can set to false to turn off generating and including the citation info string just for XML validation. (The XSD dump and the info tags still will include the citation info.) This cleans up tracer output (e.g. it doesn't print warnings and setup noise from all of the Movers etc. which were previously being instantiated. It also avoids crashes due to mover instantiation issues.

• Summary
• integration.addsan 「1」
• integration.mpi 「6」
• integration.release_debug 「281」
• integration.tensorflow 「4」
• integration.thread 「2」
• integration.tutorials 「1」
• integration.ubsan 「1」
• integration 「284」
• performance 「1」
• gcc-11.gcc.python39.unit 「3」

Merge pull request #5995 from RosettaCommons/woodsh17/fix_mp_scientific_test Adding -restore_lazaridis_imm_behavior 1 to MP scientific test

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• integration.addsan 「1」
• integration.mpi 「4」
• integration.release_debug 「3」
• integration.tutorials 「1」
• integration.ubsan 「1」
• integration 「1」

increasing default memory requirements for SLURM HPC jobs

• Summary
• integration.addsan 「2」
• integration.mpi 「2」
• integration.release_debug 「2」
• integration.tutorials 「1」
• integration.ubsan 「1」
• integration 「1」
• scientific.ddg_ala_scan
• scientific.mp_domain_assembly.debug
• scientific.mp_domain_assembly
• gcc-10.gcc.unit 「3」

Merge pull request #2403 from RosettaCommons/vmullig/beta_mainchain_potentials Add support for beta-amino acids in macrocycle structure prediction

• Summary
• integration.addsan 「1」
• integration.mpi 「9」
• integration.release_debug 「13」
• integration.tensorflow 「1」
• integration.thread 「4」
• integration.tutorials 「1」
• integration.ubsan 「1」
• integration 「12」
• scientific.docking_ensemble
• scientific.fragments_picking.debug
• scientific.loop_modeling_kic_fragments_12res.debug
• scientific.loop_modeling_kic_fragments_12res
• scientific.mp_f19_decoy_discrimination.debug
• scientific.mp_f19_decoy_discrimination
• scientific.mp_relax.debug
• scientific.mp_relax

Merge pull request #5976 from RosettaCommons/vmullig/update_tools Update tools submodule to reflect small tweak. In the auto-generated docs, asterisks in citations were resulting in italics. I've updated the tools repo so that the script uses literal asterisks (with a backslash to avoid italics). This PR just updates the tools and documentation submodules to point to the latest master versions of these repos.

• Summary
• integration.addsan 「1」
• integration.mpi 「1」
• integration.release_debug 「1」
• integration.tutorials 「1」
• integration.ubsan 「1」
• integration 「1」
• scientific.FlexPepDock
• scientific.mp_domain_assembly
• gcc-10.gcc.unit 「3」
• gcc-11.gcc.python39.unit 「3」

Merge pull request #5902 from RosettaCommons/jtseffer/ERMS_prediction Jtseffer/erms prediction

• Summary
• integration.addsan 「1」
• integration.mpi 「2」
• integration.release_debug 「2」
• integration.tutorials 「1」
• integration.ubsan 「1」
• integration 「2」
• scientific.ligand_scoring_ranking.debug
• scientific.ligand_scoring_ranking
• scientific.mp_domain_assembly.debug
• linux.gcc.cxx11thread.serialization.unit 「3」