* Create security.yml

* Update security.yml

* Update security.yml

* Update security.yml

* Update security.yml

* Update security.yml

* Delete .github/workflows/security-scan.yml

* Update security.yml

* Create email-report.yml

* Update email-report.yml

* Update security.yml

* Update security.yml

* Update security.yml

* Update Data sources from schema invitro --> invitro41 #72 (#73)

* Update Data sources from schema invitro --> invitro41 #72

* Update AssayResource.java

* Update AssayResource.java

* Update for new config.

* fixed the issue with projects and added tcpl projection.

* Rename data source in domains from invitro41 --> invitro #74 (#75)

Co-authored-by: asif rashid <58010651+asif-rashid@users.noreply.github.com>

* Add code for projection ccd-assay-reagents.

* Update security.yml

* CE-4541 Added new endpoint for anyalytical qc data (#76)

* CE-4537 Added ccd assay detail field for assay list details (#78)

* CE-4542 updated assay list as an array of AssayList objects (#79)

* CE-4561 Updated ccd-assay-list projection to return gene, single conc,multi conc in arrays (#80)

* CE-4561 Updated ccd-assay-list projection to return gene, single
conc,multi conc in arrays

* CE-4561 Made changes to pull all records of gene array

* CE-4561- mapped common name and taxon name (#82)

* Create new AOP endpoints for Toxcast AOPs #83 (#84)

* Added projection `ccd-assay-aop`.

* Add single concentration data retrieval by AEID

* Add single concentration data retrieval by AEID

* Update README to include Bioactivity Microservice overview, technologies, configuration, and project structure

* CE-4574 Added ToxCastAssayDescription field with clowder uid (#85)

* Refactor single concentration data retrieval to include chid_rep filtering. It is now matched the count in assay_agg.

* Update README to enhance Available Data section and add Disclaimer

* Add CONTRIBUTING.md to provide guidelines for project contributions

* Add Code of Conduct to outline community expectations and standards

* Add initial code.json file for CTX Bioactivity APIs with metadata and licensing information

* Add MIT License file to the repository

* CE-4636 Add 'preferred_name' into ccd-single-conc projection #86 (#87)

* Bioactivity data by dtxsid AND tissue #88 (#89)

* CE-3338- Added two new endpoints to search AED data by dtxsid and list of dtxsids (#90)

* CE-3338- Added two new endpoints to search AED data by dtxsid and list
of dtxsids

* CE-3338- Formatted code

* Create AssayAnnotation by Gene Symbol #91 (#92)

* Create endpoint for Assay Count #94 (#95)

* Fix ccd-assay-list projection #96 (#97)

* Create AssayEndpointsList.java (#98)

added projection to fix build

* Create projection for toxcast summary plot #99 (#100)

* Create ToxcastSummaryPlot.java (#101)

* Added missing levelApplied field (#102)

* CE-3338 updated aeid search endpoint to to exclude mc7Param nulls (#107)

* Update ToxcastSummaryPlot.java (#109)

* Rename ToxcastSummaryPlot.java to ToxcastSummaryPlot.java (#103)

Co-authored-by: Asif Rashid <rashid.asif@epa.gov>

* Update Bioactivity API to version 2.0.0 (#108)

* 104 update swagger documentation (#105)

* Update AnalyticalQCApi.java

* Update DataApi.java

* Update SearchAssayApi.java

* Update AssayApi.java

* Update DataApi.java (#110)

* Update Dockerfile (#111)

* Bridirks patch 8 (#112)

* Update manifest-prod.yml

* Update manifest-stg.yml

* Update pom.xml

* Update Dockerfile

* CE-4666 Added assay list name and description for (#113)

ccd-assy-list-projection

* Update AssayApi.java (#115)

* CE-4676- Added logic to retrieve aenm from mv_assay_annotation table (#117)

* CE-4676- Added logic to retrive aenm from mv_assay_annotation table

* CE-4676- Added logic to retrieve aenm from mv_assay_annotation table

* Fix Swagger UI config #119 (#120)

* Fix export annotations #121 (#122)

* Refactor Assay API to replace BioactivityAgg with String in response schema and update repository dependencies

* Update query in BioactivityDataRepository to filter out null dsstox_substance_id values

* CE-4860 Added ccdassaylist projection for chemical search by aeid (#125)

* CE-4860 Added ccdassaylist projection for chemical search by aeid

* Ce-4860 updated ccdassylist projection query and springboot version

* CE-4860 Changed hitc to Double data type (#126)

* CE-4895 made changes to return hitc as Active or Inactive (#127)

* CE-4895- updated hitc case statement to include NA (#129)

* CE-4895- updated hitc case statement to include NA

* CE-4895 - Added hitCall retaining hitc numeric value

* CE-4895 updated case for hitc

* CE-4912- Added id field for AOP domain class. (#131)

* CE-4916 Updated Reagents query to use json array assay_reagent (#132)

* Add aeid field to SearchAssay and update related query in AssayAnnotationRepository

* CE-4921 Updated query to sort tcpl methods by assayRunType and (#133)

levelApplied

* CE-4910 Updated get full ccd assay details query by adding chid_rep (#135)

filter to remove duplicates

* Update API URL in application configuration

* CE-4603 CTX Support For ToxCast Model #140 (#141)

Co-authored-by: BDIRKS <BDIRKS@host.docker.internal>

* CERAPP ToxCast model predictions #59 (#142)

Co-authored-by: BDIRKS <BDIRKS@host.docker.internal>

* Update API URL in application configuration to https://comptox.epa.gov/ctx-api

---------

Co-authored-by: Odile Kemghou <128539129+okemghou@users.noreply.github.com>
Co-authored-by: Brianna Dirks <148362578+bridirks@users.noreply.github.com>
Co-authored-by: Joshua Powell <62256825+jpowel01@users.noreply.github.com>
Co-authored-by: SrikanthDeevi <62434984+SrikanthDeevi@users.noreply.github.com>
Co-authored-by: BDIRKS <BDIRKS@host.docker.internal>