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Changelog

2.3.0 - 2023-05-16

Changed

  • Update Glossary with new terms and figure
  • Update Hypergraph docstrings
  • Refactor and add more tests
  • Update Visualization Tutorial
  • Change required Python version to ^3.10,<=3.12
  • Upgrade core dependencies
  • Update Tutorial 10, Hypergraph Modularity

Added

  • Add functionality to add and remove nodes, edges, and incidences on Hypergraph
  • Add Hypergraph arithmetic operations such as sum, difference, union, intersection
  • Add Hypergraph Arithmetic Operations tutorial
  • Add internal classes, IncidenceStore and PropertyStore, to support HypergraphView
  • Add new factory methods to support the creation of Hypergraph objects
  • Add support for Poetry to manage packaging, build, publishing, and environments

Removed

  • Remove EntitySet and replaced with HypergraphView
  • Remove setup.cfg and replaced with pyproject.toml

Fixed

  • Update usage of deprecated NetworkX methods

Changelog from 2.2.0 to 2.3.0

The following logs were generated using git log v2.2.0..HEAD --pretty=format:"- %s (%h, %an, %ad)"

  • updated glossary to remove duplicate terms and docstring to fix spelling (34f047a, Brenda Praggastis, Wed May 15 17:15:52 2024 -0700)
  • updated doc strings for s-connected components (d125c45, Brenda Praggastis, Wed May 15 17:07:33 2024 -0700)
  • updated the glossary, so it should be good now (771240e, Brenda Praggastis, Wed May 15 17:03:08 2024 -0700)
  • Pull request #179: Adding demo with attributes (7e253a0, Bonicillo, Mark A, Wed May 15 22:16:04 2024 +0000)
  • Pull request #178: Defaults2 (50d890d, Bonicillo, Mark A, Wed May 15 22:10:33 2024 +0000)
  • Merge branch 'develop' into defaults_backup (1e1c2a1, Brenda Praggastis, Wed May 15 15:04:05 2024 -0700)
  • Merge branch 'defaults_backup' into defaults_backup (001bc1e, Brenda Praggastis, Wed May 15 15:03:59 2024 -0700)
  • hypview added user defined props (19707ac, Brenda Praggastis, Wed May 15 13:56:51 2024 -0700)
  • adding two new tutorials under basic (773fa84, audun myers, Wed May 15 16:50:08 2024 -0400)
  • Pull request #177: Defaults backup (9516ca8, Bonicillo, Mark A, Wed May 15 20:46:04 2024 +0000)
  • Update tests (eedba46, Mark Bonicillo, Wed May 15 12:35:47 2024 -0700)
  • test (a2b8e3c, Brenda Praggastis, Wed May 15 13:18:53 2024 -0700)
  • created set_defaults (6f17867, Brenda Praggastis, Wed May 15 13:12:56 2024 -0700)
  • Merge branch 'defaults' of into defaults (145581e, Brenda Praggastis, Wed May 15 12:36:47 2024 -0700)
  • removed default_properties_df (0b2ccea, Brenda Praggastis, Wed May 15 12:36:32 2024 -0700)
  • Update tests (70e52f9, Mark Bonicillo, Wed May 15 12:35:47 2024 -0700)
  • Update Tutorial 2 - Visualization Methods.ipynb (a71c259, audun myers, Wed May 15 15:26:00 2024 -0400)
  • created self.defaults (793b715, Brenda Praggastis, Wed May 15 11:28:38 2024 -0700)
  • Pull request #176: Glossary (357d339, Bonicillo, Mark A, Wed May 15 18:24:33 2024 +0000)
  • Merge branch 'develop' into glossary (65cd70b, Mark Bonicillo, Wed May 15 11:21:26 2024 -0700)
  • Pull request #175: Fix tutorial imports (a98e917, Bonicillo, Mark A, Wed May 15 18:04:42 2024 +0000)
  • adding figure to glossary describing HNX structure (c5588ba, audun myers, Wed May 15 14:02:17 2024 -0400)
  • Fix tutorial imports (b248be0, Mark Bonicillo, Wed May 15 10:47:34 2024 -0700)
  • new glossary again (d2eb5b1, Brenda Praggastis, Wed May 15 10:52:55 2024 -0700)
  • new glossary (66ff679, Brenda Praggastis, Wed May 15 10:42:18 2024 -0700)
  • new glossary (e5d8972, Brenda Praggastis, Wed May 15 10:34:07 2024 -0700)
  • glossary and classes init updated (9d94a8b, Brenda Praggastis, Wed May 15 09:59:46 2024 -0700)
  • Pull request #172: Add, update docstrings in hypergraph (27ed0fb, Bonicillo, Mark A, Wed May 15 16:49:55 2024 +0000)
  • Merge remote-tracking branch 'develop' into update-hypergraph-docstrings (501247a, Mark Bonicillo, Mon May 13 15:44:03 2024 -0700)
  • Pull request #174: Add tests for union, intersection; update other tests (75153a2, Bonicillo, Mark A, Mon May 13 22:35:06 2024 +0000)
  • Add tests for union, intersection; update other tests (1bfe844, Mark Bonicillo, Mon May 13 15:20:48 2024 -0700)
  • Merge remote-tracking branch 'develop' into update-hypergraph-docstrings (5622b8e, Mark Bonicillo, Thu May 9 08:54:06 2024 -0700)
  • Pull request #173: Ndarray (55e7321, Bonicillo, Mark A, Thu May 9 06:59:23 2024 +0000)
  • Fix import error in ndarray factory method (54b6704, Mark Bonicillo, Wed May 8 16:59:28 2024 -0700)
  • Add ndarray test on constructor; fix docstrings (c515db1, Mark Bonicillo, Wed May 8 16:55:28 2024 -0700)
  • Fix malformed table (1594fc0, Mark Bonicillo, Wed May 8 16:11:49 2024 -0700)
  • Update LICENSE.rst to 2024 (4277fef, Mark Bonicillo, Wed May 8 15:50:34 2024 -0700)
  • Fix math syntax (1cdbc44, Mark Bonicillo, Wed May 8 15:40:21 2024 -0700)
  • Refactor matrix methods; update tests and docstrings (0104565, Mark Bonicillo, Wed May 8 14:29:11 2024 -0700)
  • Remove typing from Hypergraph constructor (4279ae4, Mark Bonicillo, Wed May 8 10:38:23 2024 -0700)
  • Update remove methods and its docstrings; updates tests (4185dda, Mark Bonicillo, Tue May 7 17:08:42 2024 -0700)
  • updated docstrings (01998e9, Brenda Praggastis, Mon May 6 17:02:09 2024 -0700)
  • add ndarray factory method (d65f52d, Brenda Praggastis, Mon May 6 16:27:17 2024 -0700)
  • Add, update docstrings in hypergraph (cf3a299, Mark Bonicillo, Mon May 6 11:55:29 2024 -0700)
  • Pull request #171: Update documentation (4e1a27e, Bonicillo, Mark A, Thu May 2 21:27:04 2024 +0000)
  • Update Python version references in docs; update docs Makefile (a58f0f5, Mark Bonicillo, Thu May 2 14:05:59 2024 -0700)
  • Update long description (29a42e0, Mark Bonicillo, Thu May 2 13:07:22 2024 -0700)
  • Fix Sphinx errors, warnings on docstrings (f33a152, Mark Bonicillo, Wed May 1 14:09:28 2024 -0700)
  • Remove references to non-existing modules; fix docstrings (e8a0ea0, Mark Bonicillo, Tue Apr 30 15:06:54 2024 -0700)
  • Remove helpers.py; remove unused imports (f26b58d, Mark Bonicillo, Mon Apr 29 16:24:59 2024 -0700)
  • Remove EntitySet references; remove old AttrList (3646fb0, Mark Bonicillo, Mon Apr 29 16:03:19 2024 -0700)
  • Pull request #170: Upgrade Python to 3.10; upgrade core dependencies (c819ca2, Bonicillo, Mark A, Thu May 2 18:55:24 2024 +0000)
  • Upgrade Python to 3.10; upgrade core dependencies (bab41d5, Mark Bonicillo, Thu May 2 10:42:50 2024 -0700)
  • Pull request #169: Additems (be63722, Bonicillo, Mark A, Wed May 1 21:20:15 2024 +0000)
  • Minor cleanup (9222850, Mark Bonicillo, Wed May 1 14:16:35 2024 -0700)
  • added import for deepcopy (aa9fab3, Brenda Praggastis, Wed May 1 13:58:23 2024 -0700)
  • updated copy in PropertyStore to deep copy misc_properties (5687346, Brenda Praggastis, Wed May 1 13:36:19 2024 -0700)
  • updated construct from stores to return inplace or deep copy (116f41b, Brenda Praggastis, Wed May 1 13:35:03 2024 -0700)
  • restricting todataframe to only return on objects actually in the hypergraph (1f1921f, Brenda Praggastis, Wed May 1 13:32:47 2024 -0700)
  • Pull request #167: added items property to hyp_view and intersection and union to hypergraph (c519d05, Praggastis, Brenda, Tue Apr 30 20:05:49 2024 +0000)
  • Fix and refactor sum method; add tests (b178da6, Mark Bonicillo, Tue Apr 30 11:18:47 2024 -0700)
  • Merge branch 'develop', remote-tracking branch 'stash' into bpedits3 (787314d, Mark Bonicillo, Tue Apr 30 11:37:48 2024 -0700)
  • added items property to hyp_view and intersection and union to hypergraph (5bab9d7, Brenda Praggastis, Mon Apr 29 15:57:44 2024 -0700)
  • Pull request #165: Fix bugs, refactor methods in Hypergraph; add and update tests for Hypergraph (abd35cd, Bonicillo, Mark A, Mon Apr 29 20:47:19 2024 +0000)
  • Fix bug in get_cell_properties; update tests (65949c6, Mark Bonicillo, Wed Apr 24 13:58:13 2024 -0700)
  • Cleanup tests (d126e8b, Mark Bonicillo, Wed Apr 24 12:01:09 2024 -0700)
  • Pull request #166: Bpedits2 (6fd94ec, Praggastis, Brenda, Mon Apr 29 17:17:15 2024 +0000)
  • Run linter (b5dd816, Mark Bonicillo, Mon Apr 29 10:12:12 2024 -0700)
  • updates collapse to put user defined keys for equivalence classes first and allow for aggregations. (072770c, Brenda Praggastis, Fri Apr 26 18:42:56 2024 -0700)
  • replaced deep copy on to_dataframe since it wasn't copying misc properties (f825248, Brenda Praggastis, Fri Apr 26 18:41:55 2024 -0700)
  • fixes collapse so that chosen key will always be listed first (85cc730, Brenda Praggastis, Fri Apr 26 18:40:21 2024 -0700)
  • changed to_dataframe to only return a complete clone of dataframe - fixes misc properties not deep copying (783edd3, Brenda Praggastis, Fri Apr 26 18:39:19 2024 -0700)
  • Merge branch 'develop' into bpedits (293ee43, Brenda Praggastis, Fri Apr 26 14:19:57 2024 -0700)
  • note TODO and update on inplace (0cadce0, Brenda Praggastis, Fri Apr 26 14:12:44 2024 -0700)
  • Pull request #164: Fixing factory bug (db3576f, Myers, Audun D, Wed Apr 24 19:12:04 2024 +0000)
  • Revert "Adding init files to tests folder" (38bc621, Mark Bonicillo, Wed Apr 24 12:04:55 2024 -0700)
  • Linter (d76cd2a, Mark Bonicillo, Wed Apr 24 12:03:27 2024 -0700)
  • fixing edges and nodes methods in incicdence store (475f066, audun myers, Wed Apr 24 14:19:57 2024 -0400)
  • Adding init files to tests folder (068b248, audun myers, Wed Apr 24 11:31:00 2024 -0400)
  • Update factory.py (9348e3d, audun myers, Wed Apr 24 10:48:38 2024 -0400)
  • Pull request #163: Add eq method to Hypergraph; add tests for clone (62e9e2a, Bonicillo, Mark A, Tue Apr 23 22:29:59 2024 +0000)
  • Add eq method; add tests for clone (a6da1e3, Mark Bonicillo, Thu Apr 18 11:34:38 2024 -0700)
  • Pull request #162: Fix bug in components method; update tests (881c7ba, Bonicillo, Mark A, Tue Apr 23 21:51:29 2024 +0000)
  • Fix bug in components method; update tests (6c302f2, Mark Bonicillo, Tue Apr 23 14:43:57 2024 -0700)
  • Recovered changes to hypergraph.py (5909d07, Brenda Praggastis, Thu Apr 18 12:50:26 2024 -0700)
  • Pull request #161: Docs (a0813bc, Praggastis, Brenda, Thu Apr 18 18:41:11 2024 +0000)
  • Run linter (0852180, Mark Bonicillo, Thu Apr 18 11:37:15 2024 -0700)
  • refactored tests to be consistent with new core code (274d7ad, Brenda Praggastis, Wed Apr 17 18:55:56 2024 -0700)
  • updated modules to be consistent with new core code (14b8498, Brenda Praggastis, Wed Apr 17 18:55:38 2024 -0700)
  • updates to hypergraph and incidence store include doc string improvements and refactored collapse methods (3a53d74, Brenda Praggastis, Wed Apr 17 18:55:18 2024 -0700)
  • Merge branch 'develop' into docs (b9d801c, Brenda Praggastis, Wed Apr 17 11:26:23 2024 -0700)
  • updated hypergraph doc strings (fb1a3b9, Brenda Praggastis, Wed Apr 17 11:25:36 2024 -0700)
  • Pull request #160: removed inplace and changed remove to _remove for internal use (8adb1a7, Praggastis, Brenda, Wed Apr 17 18:20:28 2024 +0000)
  • Run linter (4270e44, Mark Bonicillo, Wed Apr 17 11:15:42 2024 -0700)
  • added ability to add a nested dictionary for nodes to edges (8a3244b, Brenda Praggastis, Tue Apr 16 21:11:09 2024 -0700)
  • added clone method to create a copy on which to make changes. (c18687d, Brenda Praggastis, Tue Apr 16 21:06:23 2024 -0700)
  • Pull request #159: Update tests add_* functionality (5227d27, Bonicillo, Mark A, Wed Apr 17 18:00:18 2024 +0000)
  • Fix bugs; refactor code; update tests (4a273c8, Mark Bonicillo, Wed Apr 17 10:37:05 2024 -0700)
  • Fix bug in PropertyStore; update add_edge tests (63e671d, Mark Bonicillo, Tue Apr 16 16:57:20 2024 -0700)
  • removed inplace and changed remove to _remove for internal use (c1a52cf, Brenda Praggastis, Tue Apr 16 13:47:42 2024 -0700)
  • Add tests for add_node and add_incidences (366f136, Mark Bonicillo, Tue Apr 16 14:11:55 2024 -0700)
  • Pull request #158: Update tests (f4c98ca, Bonicillo, Mark A, Tue Apr 16 00:08:16 2024 +0000)
  • Add test-core target (6fff636, Mark Bonicillo, Mon Apr 15 17:04:08 2024 -0700)
  • Update tests (1d6eba4, Mark Bonicillo, Mon Apr 15 11:02:12 2024 -0700)
  • Remove old notebooks (d3c6142, Mark Bonicillo, Thu Apr 11 11:19:52 2024 -0700)
  • Move tests to root-level (62f451d, Mark Bonicillo, Tue Apr 9 14:36:44 2024 -0700)
  • Pull request #157: Fix bugs in _add_item; add tests for add_edge (3a89c2c, Bonicillo, Mark A, Mon Apr 15 23:52:07 2024 +0000)
  • Fix bugs in _add_item; add tests for add_edge (857130a, Mark Bonicillo, Mon Apr 15 14:53:08 2024 -0700)
  • Pull request #156: Fix bug in Hypergraph.dual; update tests (d42a698, Bonicillo, Mark A, Fri Apr 12 15:27:05 2024 +0000)
  • Fix bug in Hypergraph.dual; update tests (111721c, Mark Bonicillo, Thu Apr 11 11:09:47 2024 -0700)
  • Pull request #155: updating index column naming for factory (7249e43, Myers, Audun D, Thu Apr 11 18:37:23 2024 +0000)
  • Fix formatting (3070166, Mark Bonicillo, Thu Apr 11 11:36:21 2024 -0700)
  • Fixed PR comments from mark (e9dc62d, audun myers, Thu Apr 11 14:24:19 2024 -0400)
  • updating index column naming for factory (20042b0, audun myers, Thu Apr 11 12:26:17 2024 -0400)
  • Pull request #154: difference_function fix (e6220d2, Praggastis, Brenda, Wed Apr 10 04:02:26 2024 +0000)
  • Add tests for difference method (307e062, Mark Bonicillo, Tue Apr 9 17:05:11 2024 -0700)
  • fixed difference of hypergraphs as it removed properties and shouldn't have (552ced6, Brenda Praggastis, Tue Apr 9 16:08:20 2024 -0700)
  • merged origin/develop into develop (890ca80, Brenda Praggastis, Tue Apr 9 15:10:16 2024 -0700)
  • Pull request #153: Infra update (370e671, Bonicillo, Mark A, Tue Apr 9 21:04:01 2024 +0000)
  • Move pytest config into pyproject (5012941, Mark Bonicillo, Tue Apr 9 13:39:12 2024 -0700)
  • Fix make targets (e51f4ca, Mark Bonicillo, Fri Apr 5 17:24:43 2024 -0700)
  • Add poetry (9591806, Mark Bonicillo, Mon Mar 25 11:19:36 2024 -0700)
  • Pull request #152: Updating factory to fix some nbugs and improve documentation (9d3d22a, Myers, Audun D, Tue Apr 9 20:50:31 2024 +0000)
  • Run linter (bcfe9d0, Mark Bonicillo, Tue Apr 9 13:44:41 2024 -0700)
  • Delete testing_factory.ipynb (15ebb13, audun myers, Tue Apr 9 16:14:46 2024 -0400)
  • Create testing_factory.ipynb (a1bd873, audun myers, Tue Apr 9 16:10:13 2024 -0400)
  • updating factory to fix bugs (f2fb670, audun myers, Tue Apr 9 16:00:43 2024 -0400)
  • Pull request #151: Hg functionality (4a848f7, Bonicillo, Mark A, Tue Apr 9 19:44:30 2024 +0000)
  • Cleanup tutorial 9 (d374d02, Mark Bonicillo, Tue Apr 9 12:11:20 2024 -0700)
  • Fix image link in tutorials 8 (ee33355, Mark Bonicillo, Tue Apr 9 12:04:59 2024 -0700)
  • Fix call to toplexes method in tutorial 1 (dd8ea58, Mark Bonicillo, Tue Apr 9 11:50:19 2024 -0700)
  • Update set and get methods on property store; fix bug (3311d58, Mark Bonicillo, Mon Apr 8 10:25:10 2024 -0700)
  • Run linter (9f23c13, Mark Bonicillo, Mon Apr 8 08:13:03 2024 -0700)
  • updated docs (4623ac7, Brenda Praggastis, Sun Apr 7 18:52:16 2024 -0700)
  • updated test_hypergraph so that toplexes test works (657b8ef, Brenda Praggastis, Sun Apr 7 18:51:54 2024 -0700)
  • hypergraph methods for add and remove and toplexes were updated , replaced keyword share_properties with inplace (9bd91f1, Brenda Praggastis, Sun Apr 7 18:51:27 2024 -0700)
  • added check for items not in incidence dataframe (efc0b64, Brenda Praggastis, Sun Apr 7 18:48:50 2024 -0700)
  • updated property_store so that _add_row can take multiple properties as kwargs. added copy to Property Store (0ceb77b, Brenda Praggastis, Sun Apr 7 18:45:27 2024 -0700)
  • Pull request #150: Tutorials no infra (3491c6c, Bonicillo, Mark A, Sat Apr 6 00:12:02 2024 +0000)
  • replaced Tutorial 10 with Francois's new version (4276532, Brenda Praggastis, Fri Apr 5 10:47:16 2024 -0700)
  • Update to_dataframe, add hypergraph_view tests (4916497, Mark Bonicillo, Fri Apr 5 16:52:24 2024 -0700)
  • removed files that don't belong in top level of tutorials (c863e84, Brenda Praggastis, Thu Apr 4 18:25:25 2024 -0700)
  • updated Tutorial 9 and corresponding module. (b7933eb, Brenda Praggastis, Thu Apr 4 18:21:44 2024 -0700)
  • updated Tutorial 10 (8397e9c, Brenda Praggastis, Thu Apr 4 18:00:37 2024 -0700)
  • changed NList to AttrList to be consistent with previous version. (83dad8a, Brenda Praggastis, Thu Apr 4 14:22:59 2024 -0700)
  • Run linter (d03c651, Mark Bonicillo, Thu Apr 4 09:43:43 2024 -0700)
  • Tutorial 8 updates (9f70fea, Brenda Praggastis, Wed Apr 3 17:41:35 2024 -0700)
  • updated tutorials 5,6,7 (5ddb33b, Brenda Praggastis, Wed Apr 3 12:50:27 2024 -0700)
  • created to_dataframe method and removed property_view from property store (bd12e4d, Brenda Praggastis, Wed Apr 3 12:12:34 2024 -0700)
  • updated tutorial 2 (1a3d424, Brenda Praggastis, Wed Apr 3 11:44:33 2024 -0700)
  • updated vis (6421cdf, Brenda Praggastis, Wed Apr 3 11:21:27 2024 -0700)
  • update tutorials again (dbdfe71, Brenda Praggastis, Wed Apr 3 10:29:17 2024 -0700)
  • Remove setup.py (4ccbd11, Mark Bonicillo, Tue Apr 2 13:57:26 2024 -0700)
  • Run formatter (10a99f2, Mark Bonicillo, Tue Apr 2 12:01:46 2024 -0700)
  • Update tox.ini (10c259a, Mark Bonicillo, Tue Apr 2 11:41:08 2024 -0700)
  • Update ci.yml (46aed8d, Mark Bonicillo, Mon Apr 1 13:16:42 2024 -0700)
  • Fix github workflows (f655be4, Mark Bonicillo, Mon Apr 1 12:51:15 2024 -0700)
  • Cleanup required dependencies (a60bff3, Mark Bonicillo, Mon Apr 1 11:32:46 2024 -0700)
  • Update cz file (bad6401, Mark Bonicillo, Tue Mar 26 15:40:57 2024 -0700)
  • Update GH workflows (2eaa364, Mark Bonicillo, Tue Mar 26 15:36:23 2024 -0700)
  • Cleanup Makefile (d22d8a6, Mark Bonicillo, Mon Mar 25 23:51:17 2024 -0700)
  • testing new docs-deps (dd6436f, Mark Bonicillo, Mon Mar 25 22:46:23 2024 -0700)
  • testing (adb34e7, Mark Bonicillo, Mon Mar 25 22:26:24 2024 -0700)
  • Modify tox to integrate with poetry (7f6ee9d, Mark Bonicillo, Mon Mar 25 16:15:50 2024 -0700)
  • Add poetry (7703cf1, Mark Bonicillo, Mon Mar 25 11:19:36 2024 -0700)
  • Pull request #147: Hypergraph edit (638870a, Praggastis, Brenda, Mon Apr 1 21:59:00 2024 +0000)
  • removed old hypergraph code (1e1dbf7, Brenda Praggastis, Mon Apr 1 13:59:16 2024 -0700)
  • removed .github from .gitignore (3e1c8b6, Brenda Praggastis, Mon Apr 1 13:57:34 2024 -0700)
  • updated hypergraph from incidence matrix constructor (b9dbc0b, Brenda Praggastis, Fri Mar 29 18:08:47 2024 -0700)
  • Merge branch 'develop' into develop (d38b2ff, Brenda Praggastis, Wed Mar 27 12:40:53 2024 -0700)
  • removing notebooks not intended for sharing (126610b, Brenda Praggastis, Wed Mar 27 12:40:32 2024 -0700)
  • Pull request #145: Add HNX paper (d0a7e3d, Bonicillo, Mark A, Wed Mar 27 19:12:05 2024 +0000)
  • Add HNX paper (463d12f, Mark Bonicillo, Wed Mar 27 12:10:07 2024 -0700)
  • Pull request #144: Feature/hyp 367 (519c771, Bonicillo, Mark A, Wed Mar 27 18:54:43 2024 +0000)
  • Fix formatting (89c712b, Mark Bonicillo, Wed Mar 27 11:48:34 2024 -0700)
  • adding arithmetic for hypergraphs (29cfed8, Brenda Praggastis, Wed Mar 27 11:44:23 2024 -0700)
  • Bug fix: shouldn't require passing position for hyper-edges. (f93504f, Dustin Arendt, Tue Mar 26 14:51:52 2024 -0700)
  • Remove nwhy decorator reference (c180bd0, Mark Bonicillo, Mon Mar 25 09:24:08 2024 -0700)
  • Run linter; remove HNX_Paper (850ddd6, Mark Bonicillo, Mon Mar 25 09:18:30 2024 -0700)
  • updated hypergraph code class method constructors (f13a325, Brenda Praggastis, Fri Mar 22 14:36:00 2024 -0700)
  • Remove references to warn_nwhy deprecation decorator (f1c3e43, Mark Bonicillo, Fri Mar 22 11:43:24 2024 -0700)
  • Remove deprecated NetworkX functions (379bc19, Mark Bonicillo, Fri Mar 22 11:35:46 2024 -0700)
  • Remove unnecessary hypergraph test (3e70822, Mark Bonicillo, Fri Mar 22 11:11:56 2024 -0700)
  • Fix incidence_store bug; move, update, and fix incidence store tests; (c05c4b4, Mark Bonicillo, Fri Mar 22 11:09:03 2024 -0700)
  • Remove EntitySet and tests (598c69c, Mark Bonicillo, Fri Mar 22 09:37:24 2024 -0700)
  • add incidences reference to access _E HypergraphView (0373ac5, Brenda Praggastis, Thu Mar 21 17:58:39 2024 -0700)
  • removing hypergraph_outline to avoid versioning issues. new code is on hypergraph.py now (2d1f6db, Brenda Praggastis, Thu Mar 21 17:49:01 2024 -0700)
  • centrality tutorial 5 is ready to go (aaef8dc, Brenda Praggastis, Thu Mar 21 17:47:26 2024 -0700)
  • Updated the tutorials in basic 1,3,4 to work with new code.. (c1a80f0, Brenda Praggastis, Thu Mar 21 17:32:10 2024 -0700)
  • moved old hypergraph code into hypergraph_2.0 and set hypergraph to match hypergraph_outline. updated dogsAndcats for testing (b6c230d, Brenda Praggastis, Thu Mar 21 16:33:16 2024 -0700)
  • updated tests to work with new hypergraph code. commented out _by_setsystem tests until they can be upgraded (791cf89, Brenda Praggastis, Thu Mar 21 16:32:19 2024 -0700)
  • updated collapse in incidence to separate functions for equivalence classes and collapse identical elements. user can now specify keys when collapsing (06bd85d, Brenda Praggastis, Thu Mar 21 16:31:24 2024 -0700)
  • added is_empty to match old behavior (fc6b6a6, Brenda Praggastis, Thu Mar 21 16:30:11 2024 -0700)
  • Refactor set property (f5bc644, Mark Bonicillo, Thu Mar 21 12:36:01 2024 -0700)
  • Add properties_uids method (aa263c4, Mark Bonicillo, Thu Mar 21 11:30:27 2024 -0700)
  • updated much of outline - time to start testing (b0b6055, Brenda Praggastis, Wed Mar 20 17:53:51 2024 -0700)
  • added implementation for weighted incidence matrix and incidence dataframe (ec8c369, Brenda Praggastis, Wed Mar 20 13:54:20 2024 -0700)
  • debugging new outline code (ac9127a, Brenda Praggastis, Wed Mar 20 10:32:37 2024 -0700)
  • Update tests and docstrings; cleanup code (04bb9a7, Mark Bonicillo, Wed Mar 20 10:23:59 2024 -0700)
  • adding functionality for collapsing and incidence matrix (c34278e, Brenda Praggastis, Tue Mar 19 20:19:37 2024 -0700)
  • Merge branch 'develop' into feature/hyp-367 (36590d6, Brenda Praggastis, Mon Mar 18 18:07:00 2024 -0700)
  • Pull request #143: HYP-396 Add CFF citation (b67b38b, Bonicillo, Mark A, Tue Mar 19 00:00:20 2024 +0000)
  • Update docs, add helper method, update tests (3642fa8, Mark Bonicillo, Mon Mar 18 13:53:20 2024 -0700)
  • Remove old propertystore and test (a4cfa30, Mark Bonicillo, Mon Mar 18 13:20:33 2024 -0700)
  • updating hypergraph_outline methods to work with draw) (dad6085, Brenda Praggastis, Mon Mar 18 10:29:10 2024 -0700)
  • updated to get basic functionality on hypergraph_outline. please review (47d6899, Brenda Praggastis, Sun Mar 17 16:23:54 2024 -0700)
  • Update set_property; update docs, tests (5f0bad5, Mark Bonicillo, Fri Mar 15 16:56:04 2024 -0700)
  • Updated factory to be more simple and allow indices to be provided. (3b13dd6, audun myers, Fri Mar 15 16:19:59 2024 -0400)
  • updates for simplifying factory and propertystore (2d60e4d, Brenda Praggastis, Fri Mar 15 08:13:15 2024 -0700)
  • fixed typo (54e887a, Brenda Praggastis, Thu Mar 14 15:19:56 2024 -0700)
  • updating for default properties (0e19ba7, Brenda Praggastis, Thu Mar 14 12:53:48 2024 -0700)
  • pulled and merged new content (044dddb, Brenda Praggastis, Thu Mar 14 11:18:59 2024 -0700)
  • fixing syntax errors (cc230af, Brenda Praggastis, Wed Mar 13 12:00:06 2024 -0700)
  • fixed syntax errors in 3 files (c016f3f, Brenda Praggastis, Wed Mar 13 08:57:29 2024 -0700)
  • Refactor Index param (9ed8b54, Mark Bonicillo, Wed Mar 13 15:05:19 2024 -0700)
  • changed uid column to 'uid' for edges and nodes and fixed index for uid_cols bug. (07c83af, audun myers, Wed Mar 13 14:21:35 2024 -0400)
  • HYP-396 Add CFF citation; add cff workflow and badge (44e06fa, Mark Bonicillo, Wed Mar 13 09:23:22 2024 -0700)
  • Adding level input to factory (e80403e, audun myers, Wed Mar 13 11:44:42 2024 -0400)
  • Add index param to PropertyStore (f947720, Mark Bonicillo, Tue Mar 12 17:03:16 2024 -0700)
  • Update property store, tests, notebook (4a9752a, Mark Bonicillo, Fri Mar 8 13:29:55 2024 -0800)
  • added list factory method (c400777, audun myers, Thu Mar 7 16:13:56 2024 -0500)
  • Added dictionary factory method and more examples (b43ec9e, audun myers, Thu Mar 7 15:39:29 2024 -0500)
  • updated factory to follow hypergraph_outline structure (0b5cf2e, audun myers, Thu Mar 7 14:31:57 2024 -0500)
  • removing tutorial to avoid conflicts (eab01de, Brenda Praggastis, Thu Mar 7 09:20:40 2024 -0800)
  • working on notebook (c0ea4d7, Brenda Praggastis, Thu Mar 7 09:18:37 2024 -0800)
  • updated hypergraph outline to notes from meeting (3dd9616, Brenda Praggastis, Wed Mar 6 14:11:26 2024 -0800)
  • updates from meeting (a53b7af, Brenda Praggastis, Wed Mar 6 12:06:21 2024 -0800)
  • updates (7ed7414, Brenda Praggastis, Wed Mar 6 10:41:14 2024 -0800)
  • updates on outline (052f029, Brenda Praggastis, Wed Mar 6 10:39:43 2024 -0800)
  • Run linter (4eadb9a, Mark Bonicillo, Wed Mar 6 09:11:38 2024 -0800)
  • returns empty list for nieghbors if level =2 (3c56622, audun myers, Wed Mar 6 10:37:38 2024 -0500)
  • Updating factory to have single dataframe to property store function (fe07fa1, audun myers, Wed Mar 6 10:36:13 2024 -0500)
  • Run linter (80fe95e, Mark Bonicillo, Tue Mar 5 13:26:55 2024 -0800)
  • Fix drawing module (d84d526, Mark Bonicillo, Tue Mar 5 13:10:49 2024 -0800)
  • Remove paper-related doc (76ffef3, Mark Bonicillo, Tue Mar 5 12:58:56 2024 -0800)
  • added outline of hypergraph constructor in hypergraph_outline.py (8943b7d, Brenda Praggastis, Tue Mar 5 11:12:07 2024 -0800)
  • merged develop into branch (ede25b2, Brenda Praggastis, Tue Mar 5 10:29:54 2024 -0800)
  • updated hypergraph outline with suggestions for factory methods (559e695, Brenda Praggastis, Tue Mar 5 10:23:14 2024 -0800)
  • updated test data (e5442db, Brenda Praggastis, Mon Mar 4 14:24:09 2024 -0800)
  • found small error in factory (6382c4d, audun myers, Fri Mar 1 17:10:18 2024 -0500)
  • added multiple fixes discussed in HNX meeting for factory methods (32f93f3, audun myers, Fri Mar 1 17:00:30 2024 -0500)
  • Revert "Add hypergraph_view factory method" (e2858fe, Mark Bonicillo, Wed Feb 28 12:37:19 2024 -0800)
  • Allow DataFramePropertyStore to accept regular or multiindex dfs; change properties to misc_properties (5cdb85c, Mark Bonicillo, Wed Feb 28 12:31:38 2024 -0800)
  • Finished adding all optional args to factory (747ca13, audun myers, Wed Feb 28 13:12:57 2024 -0500)
  • Add hypergraph_view factory method (d90b2c3, Mark Bonicillo, Wed Feb 28 08:30:02 2024 -0800)
  • Update property_store tests (b73e21f, Mark Bonicillo, Mon Feb 26 10:31:47 2024 -0800)
  • added all optional args for factory method (97ff5bd, audun myers, Mon Feb 26 12:06:41 2024 -0500)
  • small changes for better integration with hyp_view and existing code (4857324, Brenda Praggastis, Mon Feb 26 08:55:17 2024 -0800)
  • small modifications to integrate better with existing code and hyp_view (fd73f5b, Brenda Praggastis, Mon Feb 26 08:54:39 2024 -0800)
  • updates incorporating new property and incidence stores (15954cd, Brenda Praggastis, Mon Feb 26 08:53:55 2024 -0800)
  • updates (67b7edd, Brenda Praggastis, Fri Feb 23 15:51:08 2024 -0800)
  • updates (6a21358, Brenda Praggastis, Thu Feb 22 11:38:19 2024 -0800)
  • Update factory.py (1c2881b, audun myers, Fri Feb 23 16:45:17 2024 -0500)
  • Use MultiIndexDataframe for PropertyStore; update tests; add notebook (c9a94c6, Mark Bonicillo, Fri Feb 23 13:35:02 2024 -0800)
  • test nb and data (5e01079, Brenda Praggastis, Wed Feb 21 12:01:27 2024 -0800)
  • updates (ad7d792, Brenda Praggastis, Wed Feb 21 09:24:27 2024 -0800)
  • finished draft dataframe factory method. (c66e952, audun myers, Mon Feb 19 10:33:25 2024 -0500)
  • Implement DataFramePropertyStore; add tests (9a2e0f1, Mark Bonicillo, Fri Feb 16 01:03:21 2024 -0800)
  • updated attrlist (cf8ce22, Brenda Praggastis, Thu Feb 15 12:35:57 2024 -0800)
  • added methods (564abc1, Brenda Praggastis, Wed Feb 14 18:34:05 2024 -0800)
  • hiding files in gitignore (70b3eba, Brenda Praggastis, Wed Feb 14 17:25:41 2024 -0800)
  • slowly adding methods using proxies for incidence store and property store. (8f8f40d, Brenda Praggastis, Wed Feb 14 17:20:17 2024 -0800)
  • comments on incidence store (58d4c68, Brenda Praggastis, Wed Feb 14 11:30:18 2024 -0800)
  • updating view (d8c207e, Brenda Praggastis, Wed Feb 14 10:32:58 2024 -0800)
  • Added the contain_hyper_edges flag to extend hulls (rubber bands) around hyperedge positions. Useful for when the bipartite graph is passed in, e.g. with_additional_edges=H.bipartite() (73f9c2e, Dustin Arendt, Thu Feb 1 14:35:59 2024 -0800)
  • updated tutorial (d7af03f, Brenda Praggastis, Wed Feb 14 17:30:23 2024 -0800)
  • update paper folder (aa22bd5, Brenda Praggastis, Wed Oct 18 13:23:29 2023 -0700)
  • updated paper with orcid and doi ids (57e4075, Brenda Praggastis, Tue Oct 17 10:17:39 2023 -0700)
  • fixed bib error (ffd67a1, Brenda Praggastis, Mon Oct 16 12:45:46 2023 -0700)
  • rm pdf (c26dc10, Brenda Praggastis, Mon Oct 16 12:28:48 2023 -0700)
  • adding Github action (30a91d3, Brenda Praggastis, Mon Oct 16 12:22:23 2023 -0700)
  • adding paper for journal consideration (52e3cec, Brenda Praggastis, Mon Oct 16 12:14:22 2023 -0700)
  • Update factory (079cb3e, Mark Bonicillo, Wed Feb 14 12:46:11 2024 -0800)
  • Update property_store (32eec45, Mark Bonicillo, Wed Feb 14 06:43:48 2024 -0800)
  • updating tests to function correctly. (62f51a1, audun myers, Mon Feb 12 15:04:41 2024 -0500)
  • Coding incidence store and adding incidence store tests (3c09b18, audun myers, Mon Feb 12 12:25:43 2024 -0500)
  • Update property_store, tests; add factory stubs (9d89948, Mark Bonicillo, Tue Feb 6 15:53:49 2024 -0800)
  • updating descriptions on hypergraph and entityset methods (8045e3f, audun myers, Thu Jan 18 10:22:52 2024 -0500)
  • HYP-367 Add factory method stubs for PropertyStoreFactory; update tests; add methods to HarryPotter toy (1128fe2, Mark Bonicillo, Tue Jan 16 16:10:20 2024 -0800)
  • Adding comments at top of each method in hypergraph.py and entityset.py for where new methods will belong in stores. (1ec92ec, audun myers, Wed Jan 17 12:45:42 2024 -0500)
  • update incidence view and hypview (83a3723, Brenda Praggastis, Wed Jan 24 14:04:40 2024 -0800)
  • updated hypview and incidence store (13248dd, Brenda Praggastis, Wed Jan 24 13:59:25 2024 -0800)
  • Adding more detailed stubs (3bbee81, audun myers, Tue Jan 16 11:56:19 2024 -0500)
  • Continued stubbing out incidenceStore (23471bf, audun myers, Tue Jan 16 11:31:20 2024 -0500)
  • HYP-367 Add stubs for PropertyStore (6a0c087, Mark Bonicillo, Mon Jan 15 17:09:09 2024 -0800)
  • Merge pull request #147 from wlruys/networkx3-support-develop (f37c169, Mark Bonicillo, Mon Mar 4 11:02:31 2024 -0800)
  • Update usage of deprecated NetworkX adjacency matrix to graph conversion function. (18b04a4, dialecticDolt, Fri Feb 16 19:55:21 2024 -0600)
  • Pull request #142: Release/v2.2.0 (d31c24d, Bonicillo, Mark A, Fri Mar 1 23:21:35 2024 +0000)
  • Pull request #141: Release/v2.2.0 (706d842, Bonicillo, Mark A, Fri Mar 1 23:01:05 2024 +0000)
  • Pull request #138: Hotfix/joss paper (87be2bc, Bonicillo, Mark A, Wed Feb 14 23:54:01 2024 +0000)

Full Changelog:https://github.com/pnnl/HyperNetX/compare/v2.2.0...v2.3