v5.3.5

🐛 Bug Fixes

• Filter SV by custom driver annotations in oncoprint and study page @BasLee (cbioportal-frontend#4552)
• Fix oncokb card for intragenic gene in mutation table @alisman (cbioportal-frontend#4594)
• 🐛 Add Missing Operations Button Txt to Clinical Event Type Table @haynescd (cbioportal-frontend#4592)

👷‍♀️ Testing, Configuration & Deployment

• 🔧 Add Configuration Properties for study view summary limits @haynescd (#10128)

🎨 Style Tweaks

• Tweak style of oncoprint controls @aditygrg2 (cbioportal-frontend#4548)

🧰 Maintenance

• Update api clients @alisman (cbioportal-frontend#4591)

🕵️‍♀️ Full commit logs

• Backend: v5.3.4...v5.3.5
• Frontend: cBioPortal/cbioportal-frontend@v5.3.4...v5.3.5

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning

v5.3.4

🧬 Enhancements

• Impl. study search on Query Page using 'study tags' @BasLee cBioPortal/cbioportal-frontend#4571
• Improve Oncoprint Add-track UI @aditygrg2 cBioPortal/cbioportal-frontend#4542
• Add studyId to CancerStudyTag entity @BasLee (#10116)

🐛 Bug Fixes

• Hide defunct download tab on home page @gblaih cBioPortal/cbioportal-frontend#4585
• Do not call next study view filter when no samples left @pvannierop (#10124)

🧰 Maintenance

• Update yarn lock file to fix build error @alisman cBioPortal/cbioportal-frontend#4584
• [Snyk] Security upgrade xml2js from 0.4.23 to 0.5.0 @oplantalech cBioPortal/cbioportal-frontend#4578

📘 Documentation

• Update database migration documentation @dippindots (#10115)

🕵️‍♀️ Full commit logs

• Backend: v5.3.3...v5.3.4
• Frontend: cBioPortal/cbioportal-frontend@v5.3.3...v5.3.4

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning

v5.3.3

🧬 Features

• Disable autocommit and manually commit filters in study view @BasLee (cbioportal-frontend#4502)

🐛 Bug Fixes

• Disable oncokb fetch from MutationMapper when show_oncokb config is off @alisman (cbioportal-frontend#4572)

👷‍♀️ Testing, Configuration & Deployment

• Update circleci config to parametrize Workflow for e2e tests @haynescd (cbioportal-frontend#4570)

⚙️ REST API Changes

• fix swagger page validation errors @jfkonecn (#10101)
• Include driver filter in sv count query @BasLee (#10092)

📘 Documentation

• Update news.md @sbabyanusha (#9994)

🕵️‍♀️ Full commit logs

• Backend: v5.3.2...v5.3.3
• Frontend: cBioPortal/cbioportal-frontend@v5.3.2...v5.3.3

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning

v5.3.2

🧬 Features

• Allow numeric data type for custom data charts @TJMKuijpers (cbioportal-frontend#4533)

✨ Enhancements

• Update gene related search in Oncoprint and Plots tab @dippindots (cbioportal-frontend#4517)
• Oql upstream downstream fusions in oncoprint @pvannierop (cbioportal-frontend#4494)

🐛 Bug Fixes

• Apply oncokb configuration to patient page (where it was missing) @alisman (cbioportal-frontend#4568)
• Fix showNA undefined for numerical data type @TJMKuijpers (cbioportal-frontend#4562)

👷‍♀️ Testing, Configuration & Deployment

• Add screenshots and adjust waitForOncoprint @alisman (cbioportal-frontend#4573)
• Fix localdb keycloak docker image issue @fuzhaoyuan (cbioportal-frontend#4564)

🧰 Maintenance

• Update api clients and make associated changes @alisman (cbioportal-frontend#4567)

🕵️‍♀️ Full commit logs

• Backend: v5.3.1...v5.3.2
• Frontend: cBioPortal/cbioportal-frontend@v5.3.1...v5.3.2

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning

v5.3.1

✨ Enhancements

• ✨ Add Clinical Event Type Counts Table @haynescd (cbioportal-frontend#4530)

🐛 Bug Fixes

• Fix StructuralVariantMapper.xml @pvannierop (#10091)
• Fix driver/vus filter in badge selector for results and comparison @gblaih (cbioportal-frontend#4559)
• 🐛 Update Freq Col Alignment in Timeline Event Availability Chart @haynescd (cbioportal-frontend#4558)
• Selected genes list populates when there is only one group selected @jfkonecn (cbioportal-frontend#4551)

👷‍♀️ Testing, Configuration & Deployment

• Fix and reduce flakiness in oncoprint tests @gblaih (cbioportal-frontend#4560)
• Update screenshots after data change @alisman (cbioportal-frontend#4557)
• Fix studyview e2e failure @alisman (cbioportal-frontend#4555)
• Add compression in some GSVA tests @oplantalech (cbioportal-frontend#4549)
• Don't do retries in cancer gene filter test @alisman (cbioportal-frontend#4554)

🖊️ Data Importer & Validator

• update cosmic importer for new cosmic datafiles @MatthijsPon (#10054)

🕵️‍♀️ Full commit logs

• Backend: v5.3.0...v5.3.1
• Frontend: cBioPortal/cbioportal-frontend@v5.3.0...v5.3.1

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning

v5.3.0

🧬 Features

• Edit filter panel layout and group "Other" mutations into drivers and vus in comparison lollipop @gblaih (cbioportal-frontend#4524)

✨ Enhancements

• Enable expression and protein data on multi-study when configurable condition is met @alisman (cbioportal-frontend#4534)
• Pathway mapper followup issues @YusufZiyaOzgul (cbioportal-frontend#4480)

🐛 Bug Fixes

• Update SQL to fix incompatibility with sqlmode OnlyFullGroupBy @haynescd (#10079)

👷‍♀️ Testing, Configuration & Deployment

• Fix LocalDB e2e StudyView Test @haynescd (cbioportal-frontend#4550)

⚙️ REST API Changes

• Binning of custom data @BasLee (#10039)

🗄 Database Migration

• Fix 9461 mutations api endpoint @jagnathan (#9914)

🕵️‍♀️ Full commit logs

• Backend: v5.2.11...v5.2.12
• Frontend: cBioPortal/cbioportal-frontend@v5.2.11...v5.2.12

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning

v5.2.11

🧬 Features

• Support '::' structural variant notation in OQL @pvannierop (cbioportal-frontend#4413)

🐛 Bug Fixes

• Patient view tooltip months numbers should be rounded @dubincorey (cbioportal-frontend#4531)
• MSKTabs should not interpret tooltip clicks as clicks on tab buttons @jfkonecn (cbioportal-frontend#4538)
• Right Aligned numbers in study view @aditygrg2 (cbioportal-frontend#4539)
• Fix validator bug with DFS_STATUS error log message @pvannierop (#10045)

👷‍♀️ Testing, Configuration & Deployment

• Fix the localdb tests for ARM architecture macOS @fuzhaoyuan (cbioportal-frontend#4535)
• Add property to control cross study expression data in frontend @alisman (#10073)

🧰 Maintenance

• Update API clients @alisman (cbioportal-frontend#4543)

🕵️‍♀️ Full commit logs

• Backend: v5.2.10...v5.2.11
• Frontend: cBioPortal/cbioportal-frontend@v5.2.10...v5.2.11

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning

v5.2.10

✨ Enhancements

• Update to Add Clinical Event Filtering to backend, and create new api… @haynescd (#10038)
• Add property to customize the display name for authenticated users @oplantalech (#9986)
• Show reference genome in study list @BasLee (cbioportal-frontend#4407)
• Support Mutational Signatures for COSMIC v3 @TJMKuijpers (cbioportal-frontend#4467)
• Do not display a default plot if the survival prefix table is initially empty @onursumer (cbioportal-frontend#4511)

🐛 Bug Fixes

• fix several bugs in oncokb annotation scripts and improve code robustness @SRodenburg (#10049)
• Update germline values in mutation status selector @dippindots (#10061)
• Do not call next study view filter when no samples left @pvannierop (#10035)
• Fix patient navigation bug @alisman (cbioportal-frontend#4510)
• Handle empty body in registerRequestBodyCompression function @oplantalech (cbioportal-frontend#4529)
• fix formatNumberValueInSignificantDigits function for bigger numbers @onursumer (cbioportal-frontend#4525)

🎨 Style Tweaks

• Mass Spec label changed in dataset page @manik-dhanjal (cbioportal-frontend#4526)

📘 Documentation

• Update documentation on test logging @BasLee (#9909)

👷‍♀️ Testing, Configuration & Deployment

• Add default parameters to DB schema migration script @oplantalech (#10060)
• Cleanup unused "user_email_address" variable @oplantalech (cbioportal-frontend#4532)
• Update circle ci localdb @dippindots (#10058)

🧰 Maintenance

• Cleanup unused "user_email_address" variable @oplantalech (cbioportal-frontend#4532)

🕵️‍♀️ Full commit logs

• Backend: v5.2.9...v5.2.10
• Frontend: cBioPortal/cbioportal-frontend@v5.2.9...v5.2.10

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning

v5.2.9

✨ Enhancements

• Rename 'user email' variables to 'user display name' for consistency @oplantalech (cbioportal-frontend#4498)

🐛 Bug Fixes

• Fix the tooltip text not wrapping @fuzhaoyuan (cbioportal-frontend#4518)
• Remove fusions from group comparison lollipop plot @gblaih (cbioportal-frontend#4515)

📘 Documentation

• update DFCI contributors @tmazor (#10042)

👷‍♀️ Testing, Configuration & Deployment

• Update screenshots and api client @alisman (cbioportal-frontend#4516)

🕵️‍♀️ Full commit logs

• Backend: v5.2.8...v5.2.9
• Frontend: cBioPortal/cbioportal-frontend@v5.2.8...v5.2.9

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning

v5.2.8

✨ Enhancements

• Add link to study view to view a group of comparison view @alisman @dubincorey (cbioportal-frontend#4514)
• Revamp filter panel format and add only functionality in comparison lollipop @gblaih (cbioportal-frontend#4497)

⚙️ REST API Changes

• Support Gene1/Gene2 structural variant queries with /structural-variants/fetch endpoint @pvannierop (#9949)

🎨 Style Tweaks

• Update Treatment Filters to show group name @haynescd (cbioportal-frontend#4512)

👷‍♀️ Testing, Configuration & Deployment

• Fix localdb bootup (on local linux machines) @alisman (cbioportal-frontend#4513)

🕵️‍♀️ Full commit logs

• Backend: v5.2.7...v5.2.8
• Frontend: cBioPortal/cbioportal-frontend@v5.2.7...v5.2.8

🏷Notes on versioning and release procedure

https://docs.cbioportal.org/4.-development/release-procedure#a-note-on-versioning