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Status: **FINALISED** BioInfo Platform Release: - _codename_: **Ocicat (backport 5)** - _version_: **2023.02-b5** --- Topics: - Portal maintenance - https://github.com/umccr/data-portal-apis/milestone/23?closed=1 - https://github.com/umccr/data-portal-client/milestone/15?closed=1 ...
No due date•2/2 issues closedStatus: **FINALISED** BioInfo Platform Release: - _codename_: **Ocicat (backport 4)** - _version_: **2023.02-b4** --- Topics: - Portal maintenance - https://github.com/umccr/data-portal-apis/milestone/22?closed=1 - https://github.com/umccr/data-portal-client/milestone/14?closed=1 ...
No due date•1/1 issues closedStatus: **FINALISED** BioInfo Platform Release: - _codename_: **Ocicat (backport 3)** - _version_: **2023.02-b3** --- Topics: - Oncoanalyser MarkDups update - Portal maintenance - https://github.com/umccr/data-portal-apis/milestone/21?closed=1 ...
No due date•1/1 issues closedStatus: **FINALISED** BioInfo Platform Release: - _codename_: **Ocicat (backport 2)** - _version_: **2023.02-b2** --- Topics: - RNAsum-1.0.0 (major release) - Holmes Fingerprint PTC - https://trello.com/c/RsJMrnwC - Portal maintenance - https://github.com/umccr/data-portal-apis/milestone/20?closed=1 - https://github.com/umccr/data-portal-client/milestone/13?closed=1 ...
No due date•17/17 issues closedStatus: **FINALISED** BioInfo Platform Release: - _codename_: **Ocicat (backport 1)** - _version_: **2023.02-b1** --- Topics: - https://umccr.slack.com/archives/CP356DDCH/p1705889252341909 - https://umccr.slack.com/archives/CP356DDCH/p1707872486473599 ...
No due date•5/5 issues closedStatus: **FINALISED** BioInfo Platform Release: - _codename_: **Ocicat** - _version_: **2023.02** --- Sprint: - https://trello.com/b/9OhwNDci/umccr-bioinformatics?filter=label:Portal+Release+-+Ocicat Topics: - DRAGEN-4.2.4 - RNAsum-0.4.9 - umccrise-2.3.1 - ctTSO-v1.2.0 - Oncoanalyser-0.1.3 - Holmes: Improved fingerprint service - Portal Backend: [2.2](https://github.com/umccr/data-portal-apis/milestone/18?closed=1) - Portal Frontend: [2.2](https://github.com/umccr/data-portal-client/milestone/10?closed=1) | [1.1.3](https://github.com/umccr/data-portal-client/milestone/11?closed=1) - libica: [2.3](https://github.com/umccr-illumina/libica/releases/tag/2.3.0) ....
No due date•50/50 issues closedStatus: **FINALISED** BioInfo Platform Release: - _codename_: **Snowshoe** - _version_: **2023.01** --- Sprint: - https://trello.com/b/9OhwNDci/umccr-bioinformatics?filter=label:Portal+Release+-+Snowshoe Validation: - https://trello.com/c/FJlNZA2x/1347-portal-release-snowshoe-staging-validation-runs Topics: - htsget-rs: [1.0.0](https://github.com/umccr/htsget-rs/projects/3) - _upgraded production with htsget-rs_ - Holmes/Somalier: ctTSO BAM fingerprint support - GPL: [0.2.1](https://github.com/umccr/gridss-purple-linx-nf/milestone/1?closed=1) | [0.2.2](https://github.com/umccr/gridss-purple-linx-nf/milestone/2?closed=1) - WTS pipeline: MultiQC reference sample config fix [PR#280](https://github.com/umccr/infrastructure/pull/280) - WGS pipeline: Introduce somatic+germline workflow; more optimal standalone umccrise run - Portal Backend: [2.1](https://github.com/umccr/data-portal-apis/milestone/17) - Portal Frontend: [2.1](https://github.com/umccr/data-portal-client/milestone/8) | [1.1.2](https://github.com/umccr/data-portal-client/milestone/9) - libica: [2.2.0](https://github.com/umccr-illumina/libica/milestone/7?closed=1) | [2.2.1](https://github.com/umccr-illumina/libica/milestone/8?closed=1) ...
Due by March 7, 2023•30/30 issues closedStatus: **FINALISED** Portal/Pipeline Release (codename): **Chausie** Workflow Components: - umccrise-2.2.0 - rnasum-0.4.5 Portal Components: - Portal Backend: [2.0](https://github.com/umccr/data-portal-apis/milestone/16?closed=1) - Portal Frontend: [2.0](https://github.com/umccr/data-portal-client/milestone/5?closed=1) | [1.1.1](https://github.com/umccr/data-portal-client/milestone/7?closed=1) ...
Due by November 10, 2022•20/20 issues closedStatus: **FINALIZED** Portal/Pipeline Release (codename): **Kinkalow** Workflow Components: - GPL: [0.2.0](https://github.com/umccr/gridss-purple-linx-nf/releases/tag/0.2.0) -- Added support for ICA/GDS - ctTSO: [1.1.0--1.0.0--d7621f6](https://github.com/umccr/cwl-ica/pull/112) - RNAsum: [v0.4.4](https://github.com/umccr/RNAsum/releases/tag/v0.4.4) -- related PRs [PR#71](https://github.com/umccr/RNAsum/pull/71) | [PR#113](https://github.com/umccr/cwl-ica/pull/113) | [PR#114](https://github.com/umccr/cwl-ica/pull/114) - WTS: [3.9.3--a4236ba](https://github.com/umccr/cwl-ica/pull/111) **Portal Components:** - Portal Backend: [1.1.0](https://github.com/umccr/data-portal-apis/milestone/14?closed=1) - Portal Frontend: [1.1.0](https://github.com/umccr/data-portal-client/milestone/6?closed=1) **Auxiliary Components:** - libumccr: [0.3.0](https://github.com/umccr/libumccr/milestone/3?closed=1)
Due by August 23, 2022•12/12 issues closedStatus: **FINALIZED** Portal Release (codename): **Chartreux** Workflow Components: - umccrise 2.0.2 | [2.1.1--3.9.3--e4195a6](https://github.com/umccr/infrastructure/pull/245) [2.0.2 - 2.1.1 diff](https://github.com/umccr/umccrise/compare/2.0.2..2.1.1) - General cleanup of codebase (remove GRIDSS, GPL wrappers, submodules, circos configs etc.). - PCGR: - Disable mutational signature estimation ([commitbf0605](https://github.com/umccr/umccrise/commit/bf0605f3d74e815be487b2b6858a8dad1076927e)). - Add option to keep only coding in VEP ([commit08ebff](https://github.com/umccr/umccrise/commit/08ebff7e0b33f357587adfbd13aa76b0e2f13518)). - Update [`vcf_stuff`](https://github.com/umccr/vcf_stuff) to the conda-based 0.6.0 version (instead of pipping the master directly) ([commit3b4afd](https://github.com/umccr/umccrise/commit/3b4afd2d3962b52f538c6275adb8aae145e4cf9c)). - This version enables VEP in PCGR to annotate only those variants within coding regions when there are > 500K variants (hypermutated samples). The variants without VEP annotation get filtered out in PCGR. - Cancer report relocation to [gpgr](https://github.com/umccr/gpgr/tree/main/inst/rmd/umccrise) ([pr105](https://github.com/umccr/umccrise/pull/105), [issue96](https://github.com/umccr/umccrise/issues/96)). - Increase max mem for BPI ([pr107](https://github.com/umccr/umccrise/pull/107), [issue88](https://github.com/umccr/umccrise/issues/88)). - Add documentation for SNV, SV, and PCGR workflows ([pr102](https://github.com/umccr/umccrise/pull/102), [pr109](https://github.com/umccr/umccrise/pull/109)). - GPL trigger integration [PR#20](https://github.com/umccr/gridss-purple-linx-nf/pull/20) - Required >= [GPL v0.1.14](https://github.com/umccr/gridss-purple-linx-nf/releases/tag/0.1.14) - [Holmes](https://github.com/umccr/holmes) (somalier pipeline) integration Main Components: - Portal Backend: **[1.0.0](https://github.com/umccr/data-portal-apis/milestone/9?closed=1)** - Portal Frontend: **[1.0.0](https://github.com/umccr/data-portal-client/milestone/4?closed=1)** Auxiliary Components: - libumccr: **[0.2.0](https://github.com/umccr/libumccr/milestone/2?closed=1)** - ica_credentials: Added support for ICAv2 Token
Due by May 30, 2022•16/16 issues closedStatus: **FINALISED** Portal Release (codename): **Korat** Workflow Components: - [RNAsum Automation](https://github.com/umccr/infrastructure/pull/197) - [BCL Convert Adapterread2 Fix](https://github.com/umccr/infrastructure/pull/198) - [Secondary & Tertiary Analysis Workflows Updates](https://github.com/umccr/infrastructure/pull/205) Main Components: - Portal Backend: **[0.9.0](https://github.com/umccr/data-portal-apis/milestone/6?closed=1)** - Portal Frontend: **[0.4.1](https://github.com/umccr/data-portal-client/milestone/3?closed=1)** Auxiliary Components: - [libica-2.0.0](https://github.com/umccr-illumina/libica/milestone/4?closed=1)
Due by March 14, 2022•14/14 issues closedStatus: **FINALISED** Portal Release (codename): **Sokoke** Main Components: - Portal Backend: **[0.8.0](https://github.com/umccr/data-portal-apis/milestone/5?closed=1)** | **[0.8.1](https://github.com/umccr/data-portal-apis/milestone/8?closed=1)** - Portal Frontend: **[0.4.0](https://github.com/umccr/data-portal-client/milestone/2?closed=1)** Auxiliary Components: - NA
Due by February 4, 2022•4/4 issues closedStatus: **FINALISED** Portal Release (codename): **Ragdoll** Main Components: - Portal Backend: **[Release 0.7.0](https://github.com/umccr/data-portal-apis/milestone/4?closed=1)** - Portal Frontend: **[Release 0.3.0](https://github.com/umccr/data-portal-client/milestone/1?closed=1)** Auxiliary Components: - [libumccr-0.1.0](https://github.com/umccr/libumccr/milestone/1?closed=1) - [libica-1.1.0](https://github.com/umccr-illumina/libica/milestone/5?closed=1)
Due by November 29, 2021•8/8 issues closed