v5.2.11

🧬 Features

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

🐛 Bug Fixes

• Patient view tooltip months numbers should be rounded @dubincorey (#4531)
• MSKTabs should not interpret tooltip clicks as clicks on tab buttons @jfkonecn (#4538)
• Right Aligned numbers in study view @aditygrg2 (#4539)

👷‍♀️ Testing, Configuration & Deployment

• Fix the localdb tests for ARM architecture macOS @fuzhaoyuan (#4535)

🧰 Maintenance

• Update API clients @alisman (#4543)

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.10...v5.2.11
• 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

• Show reference genome in study list @BasLee (#4407)
• Support Mutational Signatures for COSMIC v3 @TJMKuijpers (#4467)
• Do not display a default plot if the survival prefix table is initially empty @onursumer (#4511)

🐛 Bug Fixes

• Fix patient navigation bug @alisman (#4510)
• Handle empty body in registerRequestBodyCompression function @oplantalech (#4529)
• fix formatNumberValueInSignificantDigits function for bigger numbers @onursumer (#4525)

🎨 Style Tweaks

• #9925 Issue: Mass Spec label changed in dataset page @manik-dhanjal (#4526)

👷‍♀️ Testing, Configuration & Deployment

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

🧰 Maintenance

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

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.9...v5.2.10
• 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 (#4498)

🐛 Bug Fixes

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

👷‍♀️ Testing, Configuration & Deployment

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

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.8...v5.2.9
• 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 (#4514)
• Revamp filter panel format and add only functionality in comparison lollipop @gblaih (#4497)

🎨 Style Tweaks

• Update Treatment Filters to wrap groupLogic wrapper with parent to ho… @haynescd (#4512)

👷‍♀️ Testing, Configuration & Deployment

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

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.7...v5.2.8
• 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

v5.2.7

✨ Enhancements

• Update DataSetList to include treatmentCount col @haynescd (#4503)

👷‍♀️ Testing, Configuration & Deployment

• Update screenshots and api clients @alisman (#4508)

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.6...v5.2.7
• Frontend: v5.2.6...v5.2.7

🏷Notes on versioning and release procedure

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

v5.2.6

✨ Enhancements

• Improve Pathway Mapper default genes of interest list to include all alteration types @YusufZiyaOzgul (#4492)

🐛 Bug Fixes

• Fix issue with indexing/naming samples in timeline @alisman (#4489)
• Fix quick submit when on results view default tab @alisman (#4491)

🏎 Performance Tweaks

• Improve performance of sample identifier filtering in study view @alisman (#4499)
• Fire genome nexus variant annotation call earlier @onursumer (#4488)

👷‍♀️ Testing, Configuration & Deployment

• Update skipped test for Structural Variant table @dippindots (#4496)

🧰 Maintenance

• Update genome nexus client to include reVUE @leexgh (#4500)

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.5...v5.2.6
• Frontend: v5.2.5...v5.2.6

🏷Notes on versioning and release procedure

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

v5.2.5

✨ Enhancements

• Add functionality to show selected columns in copy-number and structural variant tables on init @oplantalech (#4483)
• Paginated download of Clinical Table in Study View @pvannierop (#4422)
• Move driver annotation settings button to mutation filter panel in comparison view lollipop @gblaih (#4475)

🐛 Bug Fixes

• Results view mutations tab should show filtered and total counts in filter alert @gblaih (#4485)

👷‍♀️ Testing, Configuration & Deployment

• Add e2e tests for comparison view lollipop plot @gblaih (#4484)

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.4...v5.2.5
• Frontend: v5.2.4...v5.2.5

🏷Notes on versioning and release procedure

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

v5.2.4

✨ Enhancements

• Add driver annotation source selector and maintain track visibility in comparison view lollipop @gblaih (#4463)

🐛 Bug Fixes

• Fix missing oncokb-frontend-commons dependency and styles @onursumer (#4481)
• Show counts separately for each group and fix resize issue in comparison lollipop @gblaih (#4469)

🎨 Style Tweaks

• Update error messages for GN and Oncokb with recommendation to reload… @alisman (#4482)

👷‍♀️ Testing, Configuration & Deployment

• Add e2e test for mutation badges/filtering in mutation tab @alisman (#4478)
• Fix localdb test which is failing on retry @alisman (#4476)

🧰 Maintenance

• Set OncoKB prop usingPublicOncoKbInstance default to false + modify README @scarrero4660 (#4474)
• Eliminate cbioportal count and cosmic count from driver settings @alisman (#4473)
• Add missing react-bootstrap dependency for cbioportal-frontend-commons @onursumer (#4477)

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.3...v5.2.4
• Frontend: v5.2.3...v5.2.4

🏷Notes on versioning and release procedure

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

v5.2.3

🧬 Features

• Add pathways tab to group comparison view @YusufZiyaOzgul (#4372)

✨ Enhancements

• Add error alert type for non-catastrophic errors @alisman (#4428)
• Add abstract reference linkouts in OncoKB Card @calvinlu3 (#4464)
• Allow resistant mutations in the OncoKB track @onursumer (#4462)
• Format and fix gene selector and tab contents in group comparison lollipop plot @gblaih (#4444)
• Show both tooltips on hover when lollipop exists in both groups in comparison view lollipop @gblaih (#4458)
• Add driver annotation source selector and maintain track visibility in comparison view lollipop @gblaih (#4463)

🐛 Bug Fixes

• renaming "Log Ratio" to "Log2 Ratio" @alisman (#4386)

📘 Documentation

• Add README for oncokb-frontend-commons @scarrero4660 (#4465)
• Update upload data email @inodb (#4461)

👷‍♀️ Testing, Configuration & Deployment

• Update localdb tests @dippindots (#4472)

🧰 Maintenance

• Include stacktrace in loggly error tracking @alisman (#4471)
• Improve loggly tracking of oncokb errors @alisman (#4466 #4468)

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.2...v5.2.3
• Frontend: v5.2.2...v5.2.3

🏷Notes on versioning and release procedure

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

v5.2.2

✨ Enhancements

• Add driver/VUS categories for group comparison lollipop plot @gblaih (#4425)
• Cloodge to get lgggbm study overlap detection (other tcga studies are prefixed "lgg") @alisman (#4455)
• Use profiled patients count in axis labels and tooltips in comparison view lollipop @gblaih (#4454)
• Add functionality to show selected columns in mutations table on init @alisman (#4453)
• Enable log scale on plots tab for any clinical data type that is a positive number @haynescd (#4450)

🐛 Bug Fixes

• Fix axis label rounding issue in group comparison lollipop @gblaih (#4449)
• Update Patient View Mutations chart to force sequential mode when all samples do not have date data points @haynescd (#4434)

🧹 Cleanup & Refactoring 🔧

• Move OncoKB card and icons into separate package oncokb-frontend-commons @scarrero4660 (#4404)

🕵️‍♀️ Full commit logs

• Backend: cBioPortal/cbioportal@v5.2.1...v5.2.2
• Frontend: v5.2.1...v5.2.2

🏷Notes on versioning and release procedure

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