Rebase RFC72 #10337
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Rebase RFC72 #10337
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- modified java files to remove unused properties and changes to tests - db changes, mutationmapper.xml - Update seed_mini.sql roll back changes for refseqMrnaId roll back changes for refseqMrnaId Update ExtendedMutation.java Added required property setOncotatorRefseqMrnaId and getOncotatorRefseqMrnaId
Updated more files for removed fields Remove unused oncotator fields Remove unused oncotator fields ONCOTATOR_DBSNP_RS ONCOTATOR_UNIPROT_ENTRY_NAME remove fields from sql file ONCOTATOR_DBSNP_RS and ONCOTATOR_UNIPROT_ENTRY_NAME removal from sql file
db changes in sql for renaming columns renamed the column prefixes from oncotator to mutation on multiple classes and files
Update testSql.sql updating testSql for the name change of columns from ONCOTATOR to MUTATION Update DaoMutation.java The data files still use the old column prefix of ONCOTATOR instead of MUTATION Update DaoMutation.java Update migration.sql Adding quotes around column names
db changes in sql for renaming columns renamed the column prefixes from oncotator to mutation on multiple classes and files
Update migration.sql fix syntax errors in mysql change column Update migration.sql fix syntax errors in mysql change column setting db version setting db version
Removed Link columns and modified the documentation
…nt-final Fix 9461 mutations api endpoint final
…d support for multiple database impls to support mysql and h2
…patible-with-sqlmodeOnlyFullGroupBy
…th-sqlmodeOnlyFullGroupBy Update SQL to fix incompatibility with sqlmode OnlyFullGroupBy
Binning of custom data
Merge master into v5.3.0
We need to update this test because it's not java 8 compatible.
Release v5.3.0
update cosmic importer for new cosmic datafiles
Fix StructuralVariantMapper.xml
Set download button visibility in UI based on user role/group
Frontend v5.3.15
Two sided fishers test
Allow Redis service unavailable when Redis is enabled
Frontend v5.3.16
* Add two-sided fisher tests news --------- Co-authored-by: Ino de Bruijn <ino@ino.bio>
* implement getting CNA types for a gene specific * add tests for genomic-data-counts endpoint * change CopyNumberDataCounterFilter to StudyViewFilter and GenomicDataCountFilter * change to molecularDataService to fetch data * add filter logic for DISCRETE molecular profiles * Refactor * count NA and clean up codes * Updates * Update StudyViewServiceImplTest.java --------- Co-authored-by: Qi-Xuan Lu <qlu@carisls.com> Co-authored-by: Karthik <kalletlakarthik@gmail.com>
Update about us page
Frontend v5.3.17
* Add defaults for mutation heatmap and line chart checkboxes * Update text --------- Co-authored-by: Gaofei Zhao <15748980+dippindots@users.noreply.github.com>
* Add data access token user role filter feature * Update and more tests * Update failing test --------- Co-authored-by: Jeremy R. Easton-Marks <j.r.eastonmarks@gmail.com>
Update About-Us.md
Add label check test for pull request
Frontend v5.3.18
…10303) * update backend * finish tests * modify controller file structure * modify import * update backend * finish tests * modify controller file structure * refactor some variables * modify enrichment compare and validate issue * refactor the controllers and services * refactor test * Update GenericAssayEnrichmentServiceImpl.java * fixed simplification issues * add inline comments * modify import * solve core test issue * test check * modify expressionenrichment * modify imports * update backend * finish tests * modify controller file structure * modify import * update backend * finish tests * modify controller file structure * refactor some variables * modify enrichment compare and validate issue * refactor the controllers and services * refactor test * Update GenericAssayEnrichmentServiceImpl.java * fixed simplification issues * add inline comments * modify import * solve core test issue * test check * modify expressionenrichment * modify imports * update imports * Update GenericAssayEnrichment.java
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Rebase RFC72