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Update to libbdsg with PackedGraph edge counting bug fixed #3993

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merged 2 commits into from
Jun 17, 2023
Merged

Update to libbdsg with PackedGraph edge counting bug fixed #3993

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9209873
update to fixed libbdsg
jeizenga Jun 16, 2023
d782956
Merge remote-tracking branch 'upstream/master' into packed-edge-count
jeizenga Jun 16, 2023
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2 changes: 1 addition & 1 deletion deps/libbdsg
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Submodule libbdsg updated 42 files
+1 −1 .github/workflows/testmac.yml
+3 −3 CMakeLists.txt
+20 −11 bdsg/cmake_bindings/bdsg.cpp
+1 −1 bdsg/cmake_bindings/bdsg.modules
+4 −4 bdsg/cmake_bindings/bdsg.sources
+80 −80 bdsg/cmake_bindings/bdsg/graph_proxy.cpp
+73 −73 bdsg/cmake_bindings/bdsg/graph_proxy_1.cpp
+122 −0 bdsg/cmake_bindings/bdsg/internal/base_packed_graph.cpp
+6 −6 bdsg/cmake_bindings/bdsg/internal/eades_algorithm.cpp
+197 −170 bdsg/cmake_bindings/bdsg/internal/hash_map.cpp
+6 −6 bdsg/cmake_bindings/bdsg/internal/is_single_stranded.cpp
+13 −5 bdsg/cmake_bindings/bdsg/internal/mapped_structs.cpp
+60 −44 bdsg/cmake_bindings/bdsg/internal/mapped_structs_1.cpp
+0 −40 bdsg/cmake_bindings/bdsg/internal/mapped_structs_2.cpp
+5 −5 bdsg/cmake_bindings/bdsg/internal/wang_hash.cpp
+112 −127 bdsg/cmake_bindings/bdsg/overlays/packed_path_position_overlay.cpp
+262 −288 bdsg/cmake_bindings/bdsg/overlays/packed_path_position_overlay_1.cpp
+195 −207 bdsg/cmake_bindings/bdsg/overlays/path_position_overlays.cpp
+98 −111 bdsg/cmake_bindings/bdsg/overlays/path_subgraph_overlay.cpp
+44 −44 bdsg/cmake_bindings/bdsg/overlays/strand_split_overlay.cpp
+170 −185 bdsg/cmake_bindings/bdsg/overlays/vectorizable_overlays.cpp
+124 −139 bdsg/cmake_bindings/bdsg/overlays/vectorizable_overlays_1.cpp
+316 −342 bdsg/cmake_bindings/bdsg/packed_graph.cpp
+185 −180 bdsg/cmake_bindings/bdsg/snarl_distance_index.cpp
+44 −44 bdsg/cmake_bindings/handlegraph/expanding_overlay_graph.cpp
+136 −136 bdsg/cmake_bindings/handlegraph/handle_graph.cpp
+1,375 −0 bdsg/cmake_bindings/handlegraph/mutable_path_metadata.cpp
+348 −376 bdsg/cmake_bindings/handlegraph/mutable_path_mutable_handle_graph.cpp
+185 −1,235 bdsg/cmake_bindings/handlegraph/path_handle_graph.cpp
+120 −148 bdsg/cmake_bindings/handlegraph/path_metadata.cpp
+106 −121 bdsg/cmake_bindings/handlegraph/path_position_handle_graph.cpp
+0 −351 bdsg/cmake_bindings/handlegraph/snarl_decomposition.cpp
+6 −6 bdsg/cmake_bindings/handlegraph/trivially_serializable.cpp
+5 −5 bdsg/cmake_bindings/handlegraph/types.cpp
+8 −9 bdsg/cmake_bindings/std/bdsg/internal/binder_hook_bind.cpp
+1 −1 bdsg/deps/pybind11
+9 −8 bdsg/include/bdsg/internal/base_packed_graph.hpp
+2 −0 bdsg/include/bdsg/internal/binder_hook_bind.hpp
+3 −0 bdsg/include/bdsg/overlays/path_subgraph_overlay.hpp
+5 −0 bdsg/include/bdsg/overlays/subgraph_overlay.hpp
+13 −1 config.cfg
+13 −16 make_and_run_binder.py
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