CAM Pipeline v1.0.0

What's Changed

• Prettier visualization by @gaurav in #13
• Add multiline labels and improve output by @gaurav in #14
• Add README. by @balhoff in #15
• adding quiet arg to arq commands by @jdr0887 in #19
• Commit slot-mappings query. by @balhoff in #20
• adding target for slot_mappings and formatting ontologies-merged by @jdr0887 in #21
• Avoid "argument list too long" problem by @balhoff in #22
• Use ro-base. by @balhoff in #23
• Revise handling of biolink to ontology mappings. by @balhoff in #24
• Fix various issues with Makefile. by @balhoff in #25
• Create query wrt issue#28 by @rajshruti18 in #29
• Create query wrt issue#28 by @rajshruti18 in #30
• Fix for issue #31 by @rajshruti18 in #32
• Issue 31 by @Shalsh23 in #33
• Stop reasoning over Biolink slots by @balhoff in #35
• Update from master by @balhoff in #36
• Fix typo by @balhoff in #37
• Use memory settings for robot and arq by @balhoff in #38
• Fix for issue #40 by @rajshruti18 in #41
• Issue 27 jenkins by @Shalsh23 in #43
• Update Makefile by @rajshruti18 in #45
• Add mapping from new gene-to-gene chain to biolink by @balhoff in #44
• Update missing-biolink-relation query to new mapping style. by @balhoff in #46
• Update Makefile by @rajshruti18 in #47
• Add target to extract predicates between all pairs of source and target by @Shalsh23 in #42
• adding predicates.tsv post processing/formatting by @jdr0887 in #49
• Fixing missing mappings due to biolink modeling changes. by @balhoff in #50
• Remove accidental pipe. by @balhoff in #52
• Update to fix problem with swrl variable incorrectly becoming an OWL individual. by @balhoff in #53
• Fix for #57 by @rajshruti18 in #58
• Fix for #59 by @rajshruti18 in #61
• Fix for #59 by @rajshruti18 in #60
• Use canonical_record to map any types, not just Uniprot. by @balhoff in #62
• Update to new linkml namespace. by @balhoff in #63
• Too many classes are being put under gene. by @balhoff in #64
• Filter for triples from reactome model by @Shalsh23 in #55
• Filter for bl:Entity class by @Shalsh23 in #54
• Update owl-missing-biolink-relation.rq by @balhoff in #65
• Specify biolink version. by @balhoff in #67
• Update pipeline-tools version. by @balhoff in #68
• Use biolink-model 2. by @balhoff in #69
• Update delete-non-production-models.ru by @rajshruti18 in #71
• Use materializer for computing inferences. by @balhoff in #72
• Add provenance for SIGNOR by @gaurav in #77
• Add Kubernetes CronJob file to repo by @gaurav in #78
• Improve debugging of cam-pipeline on Kubernetes by @gaurav in #84
• Convert the CAM-KP knowledge graph into TSV for import into Orion by @gaurav in #97
• Make branch kg-tsv run on Sterling by @gaurav in #100
• Add qualifiers to the CAM-KP TSV output by @gaurav in #98
• Add a property chain to increase entity-to-entity causal inferences. by @balhoff in #107
• Include AOP models in KG. by @balhoff in #106
• Re-enable CTD by @balhoff in #108
• Fix incorrect relation mapping by @balhoff in #121
• Add Python tests for Automat-CAM-KP by @gaurav in #111
• Add mapping for 'regulates characteristic'. by @balhoff in #127
• Updated tests for 2024feb15 release by @gaurav in #130
• Updated PubChem identifiers to the correct ones for the test by @gaurav in #126
• Add a GitHub Pages-based frontend to query CAM-KP by @gaurav in #131
• Update tests as per Automat-CAM-KP changes by @gaurav in #139

New Contributors

• @gaurav made their first contribution in #13
• @balhoff made their first contribution in #15
• @jdr0887 made their first contribution in #19
• @rajshruti18 made their first contribution in #29
• @Shalsh23 made their first contribution in #33

Full Changelog: https://github.com/ExposuresProvider/cam-pipeline/commits/v1.0.0