Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / Clinical-Genomics/cg issues and pull requests
#2796 - Refactor delivery api
Pull Request -
State: open - Opened by seallard 6 months ago
- 1 comment
#2795 - Slow upload command
Issue -
State: open - Opened by seallard 6 months ago
#2794 - Parallelize tests
Pull Request -
State: closed - Opened by seallard 6 months ago
- 1 comment
#2793 - feat(Nanopore) Database model for Nanopore runs
Pull Request -
State: open - Opened by Vince-janv 6 months ago
- 2 comments
#2792 - Update database to fit new sequencing technologies
Issue -
State: open - Opened by Vince-janv 6 months ago
Labels: Project Task
#2791 - feat(Nanopore) Check manifest file to confirm data transfer
Pull Request -
State: open - Opened by Vince-janv 6 months ago
- 1 comment
Labels: Project Task
#2790 - feat(is_deleted): remove
Pull Request -
State: open - Opened by henrikstranneheim 6 months ago
- 1 comment
Labels: Enhancement
#2789 - feat(Nanopore) Re-write create manifest command to support Nanopore structure
Pull Request -
State: closed - Opened by Vince-janv 6 months ago
- 2 comments
#2788 - feat(sql): Refactor addhandler
Pull Request -
State: open - Opened by henrikstranneheim 6 months ago
- 1 comment
Labels: Enhancement
#2787 - Check transfer of Nanopore data to server
Issue -
State: open - Opened by Vince-janv 6 months ago
Labels: Project Task
#2786 - Remove is uploaded to vogue
Pull Request -
State: open - Opened by henrikstranneheim 6 months ago
- 1 comment
Labels: Enhancement
#2785 - Export new concentration field
Pull Request -
State: open - Opened by islean 7 months ago
- 2 comments
#2784 - underscores in sample internal_ids issues for balsamic
Issue -
State: open - Opened by mathiasbio 7 months ago
Labels: Urgency M, Needs Refinement
#2783 - Bump paramiko from 3.3.1 to 3.4.0
Pull Request -
State: open - Opened by dependabot[bot] 7 months ago
- 1 comment
Labels: dependencies
#2782 - Refactor sample sequencing QC logic
Pull Request -
State: open - Opened by karlnyr 7 months ago
- 1 comment
#2781 - Update rules for V2 sample sheet generation for HiSeq flow cell compatibility
Issue -
State: closed - Opened by diitaz93 7 months ago
Labels: demultiplex
#2780 - Refactor gender to sex
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 3 comments
Labels: Enhancement
#2779 - Change tuple to set for panel combo
Pull Request -
State: closed - Opened by seallard 7 months ago
- 1 comment
#2778 - mip-dna case cannot be started due to panel issue
Issue -
State: closed - Opened by seallard 7 months ago
Labels: Bug, Gain M, Effort S, Urgency L
#2777 - feat(refactor): family
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 1 comment
Labels: Enhancement
#2776 - Add columns
Pull Request -
State: closed - Opened by islean 7 months ago
- 5 comments
#2775 - feat(clean): Do not abort but continue
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 3 comments
Labels: Bug
#2774 - Treat panel abbrevs as case sensitive
Issue -
State: closed - Opened by seallard 7 months ago
- 1 comment
#2773 - Add workflow protected tags for rnafusion
Pull Request -
State: closed - Opened by fevac 7 months ago
- 2 comments
#2772 - Clean up run_analysis method for nf_analysis
Pull Request -
State: closed - Opened by fevac 7 months ago
- 4 comments
#2771 - Redefine flow cell and sequencing data status
Issue -
State: open - Opened by henrikstranneheim 7 months ago
Labels: Gain L, Effort L, Urgency M, Needs Refinement
#2770 - Pre analysis check
Issue -
State: open - Opened by karlnyr 7 months ago
Labels: Enhancement, Gain M, Effort S, Urgency M
#2769 - Fix bug causing mip workflow start to fail
Pull Request -
State: closed - Opened by seallard 7 months ago
- 2 comments
#2768 - MIP workflow start fails for specific case
Issue -
State: closed - Opened by seallard 7 months ago
Labels: Bug, Gain M, Effort S, Urgency L
#2767 - Update tower binary
Pull Request -
State: closed - Opened by fevac 7 months ago
- 3 comments
#2766 - (Archiving) Refactor DDN flow
Pull Request -
State: closed - Opened by islean 7 months ago
- 3 comments
#2765 - Set priority for tower compute environment
Pull Request -
State: closed - Opened by fevac 7 months ago
- 6 comments
#2764 - Handle cfDNA concentration
Issue -
State: closed - Opened by islean 7 months ago
- 1 comment
#2763 - Refactor link fastq files
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 3 comments
Labels: Enhancement, Project Task
#2762 - Remove cg / hermes redundancy
Issue -
State: open - Opened by fevac 7 months ago
- 1 comment
Labels: Needs Refinement
#2761 - Add panel Inherited cancer to the clinical masterlist
Pull Request -
State: closed - Opened by beatrizsavinhas 7 months ago
- 3 comments
#2760 - (Archiving) delete files
Pull Request -
State: closed - Opened by islean 7 months ago
- 5 comments
#2759 - rnafusion HK tags as constants
Pull Request -
State: closed - Opened by fevac 7 months ago
- 5 comments
#2758 - Add column to determine if eligible for skip qc
Pull Request -
State: closed - Opened by islean 7 months ago
- 5 comments
#2757 - Added method get_managed_variants to mip rna workflow
Pull Request -
State: closed - Opened by diitaz93 7 months ago
- 2 comments
#2756 - Clean directories of old cancelled cases
Issue -
State: open - Opened by fevac 7 months ago
- 1 comment
#2755 - feat(refactor): Remove deprecated code
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 2 comments
#2754 - Add automatic quality control of analyses for microbial samples
Pull Request -
State: closed - Opened by seallard 7 months ago
- 5 comments
#2753 - Add all files uploaded to scout in delivery report
Issue -
State: open - Opened by fevac 7 months ago
#2752 - Patch broken enums
Pull Request -
State: closed - Opened by islean 7 months ago
- 5 comments
#2751 - Update flow cell readiness check logging
Pull Request -
State: closed - Opened by karlnyr 7 months ago
- 2 comments
#2750 - Add export managed variants
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 4 comments
Labels: Project Task
#2749 - Add CLI command to delete a flow cell from databases
Issue -
State: open - Opened by Vince-janv 7 months ago
#2748 - Update drop-down presets for flow cell status in statusdb
Issue -
State: closed - Opened by Karl-Svard 7 months ago
- 2 comments
#2747 - Keep old log files in flow cell bundles in Housekeeper
Issue -
State: open - Opened by Vince-janv 7 months ago
#2746 - feat(ruff): Update
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 2 comments
#2745 - refactor nf_analysis get_deliverables to consider multiple samples
Issue -
State: open - Opened by fevac 7 months ago
- 1 comment
#2744 - mapped_reads as property
Issue -
State: closed - Opened by fevac 7 months ago
- 3 comments
#2743 - add class AnalysisSampleTags
Issue -
State: closed - Opened by fevac 7 months ago
#2742 - Allow customers to use the same panel name
Issue -
State: closed - Opened by seallard 7 months ago
- 1 comment
Labels: customer-experience, Needs Refinement
#2741 - Add more recipients to the MUTANT "kompletterings" email
Issue -
State: open - Opened by Karl-Svard 7 months ago
#2740 - Parse new concentration field
Pull Request -
State: closed - Opened by islean 7 months ago
- 2 comments
#2739 - feat(black): Update
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 2 comments
#2738 - Remove deprecated field from the sample model
Issue -
State: open - Opened by seallard 7 months ago
Labels: Gain S, Effort M, Urgency S, backend
#2737 - (Archiving) Fix behaviour for non-positive limits
Pull Request -
State: closed - Opened by islean 7 months ago
- 4 comments
#2736 - Set BCLConvert as default in automation
Pull Request -
State: closed - Opened by diitaz93 7 months ago
- 10 comments
Labels: demultiplex
#2735 - (Archiving) Delete archived files via API
Issue -
State: open - Opened by islean 7 months ago
- 1 comment
#2734 - Feat(Orders) Merged metagenome orderform with others
Pull Request -
State: closed - Opened by Vince-janv 7 months ago
- 2 comments
#2733 - Fix verification of HTTPS requests
Pull Request -
State: closed - Opened by islean 7 months ago
- 3 comments
#2732 - Add raredisease run case
Pull Request -
State: open - Opened by rannick 7 months ago
- 1 comment
Labels: raredisease
#2731 - Deprecate constant BCLConvert.DRAGEN
Pull Request -
State: closed - Opened by diitaz93 7 months ago
- 2 comments
Labels: demultiplex
#2730 - (Archiving) Use tag when fetching spring files
Pull Request -
State: closed - Opened by islean 7 months ago
- 4 comments
#2729 - (Archiving) Use archive location tag to filter files to archive
Issue -
State: closed - Opened by islean 7 months ago
#2728 - Write start-available tests for all pipelines
Issue -
State: open - Opened by Vince-janv 7 months ago
Labels: help wanted
#2727 - Enable delivery of external samples
Pull Request -
State: closed - Opened by seallard 7 months ago
- 3 comments
#2726 - Add new development priority to cases
Pull Request -
State: open - Opened by seallard 7 months ago
- 1 comment
#2725 - add raredisease config
Pull Request -
State: open - Opened by peterpru 7 months ago
- 1 comment
Labels: raredisease
#2724 - Fix Sonarcloud issues
Pull Request -
State: closed - Opened by seallard 7 months ago
- 2 comments
#2723 - Remove balsamic r flag
Pull Request -
State: closed - Opened by seallard 7 months ago
- 4 comments
#2722 - Remove required -r option from cg workflow balsamic
Issue -
State: closed - Opened by fevac 7 months ago
- 2 comments
#2721 - Create application versions via admin ui
Pull Request -
State: closed - Opened by seallard 7 months ago
- 1 comment
#2720 - fix - catch sample sheet errors in sample sheet generation automation
Pull Request -
State: closed - Opened by diitaz93 7 months ago
- 3 comments
Labels: Bug, demultiplex
#2719 - add new priority "development" to cases
Issue -
State: open - Opened by ChrOertlin 7 months ago
- 1 comment
Labels: Needs Refinement
#2718 - Add raredisease panel cmd
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 8 comments
Labels: Project Task, raredisease
#2717 - (Archiving) Add archive location tag to spring files
Pull Request -
State: closed - Opened by islean 7 months ago
- 2 comments
#2716 - (Archiving) How to determine archive location for files
Issue -
State: closed - Opened by islean 7 months ago
- 7 comments
#2715 - feat(gpg): Answer yes for symmetric cmd
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 3 comments
#2714 - Bump cryptography from 41.0.4 to 41.0.6
Pull Request -
State: closed - Opened by dependabot[bot] 7 months ago
- 3 comments
Labels: dependencies
#2713 - skip model validation for existing path
Pull Request -
State: closed - Opened by fevac 7 months ago
- 2 comments
#2712 - Refactor to pep0663
Pull Request -
State: closed - Opened by henrikstranneheim 7 months ago
- 4 comments
Labels: Enhancement
#2711 - Integration of taxprofiler and post-processing pipeline in cg
Issue -
State: open - Opened by LilyAnderssonLee 7 months ago
Labels: Needs Refinement
#2710 - Fix fastq tag assignment from spring file
Pull Request -
State: closed - Opened by diitaz93 7 months ago
- 3 comments
#2709 - Spring file tags not being passed correctly to fastq files upon decompression
Issue -
State: closed - Opened by diitaz93 8 months ago
Labels: Bug
#2708 - fix(pytests) Clarify some tests and fixtures
Pull Request -
State: closed - Opened by Vince-janv 8 months ago
- 1 comment
#2707 - feat(encrypt): Answer yes in gpg encrypt and decrypt cmds
Pull Request -
State: closed - Opened by henrikstranneheim 8 months ago
- 3 comments
Labels: Bug
#2706 - Refactor to pep 0604
Pull Request -
State: closed - Opened by henrikstranneheim 8 months ago
- 5 comments
Labels: Enhancement
#2705 - Skip lims data retrieval if downsampled for rnafusion report
Pull Request -
State: closed - Opened by fevac 8 months ago
- 8 comments
#2704 - Make delivery report mandatory for Scout uploads
Pull Request -
State: open - Opened by ivadym 8 months ago
- 1 comment
#2703 - Add cg nas and encryption dir
Pull Request -
State: closed - Opened by henrikstranneheim 8 months ago
- 4 comments
Labels: Project Task
#2702 - Deliveries and storage of incomplete analyses AND proper tracking of deliveries.
Issue -
State: open - Opened by karlnyr 8 months ago
- 2 comments
Labels: Gain L, Urgency S
#2701 - (feat taxprofiler) Add metrics-deliver
Pull Request -
State: open - Opened by sofstam 8 months ago
- 1 comment
Labels: cg, taxprofiler
#2700 - Run panel PANELAPP-GREEN by default in all MIP runs
Pull Request -
State: closed - Opened by beatrizsavinhas 8 months ago
- 4 comments
#2699 - New orderform version
Pull Request -
State: closed - Opened by islean 8 months ago
- 2 comments
#2698 - Add PANELAPP-GREEN to all MIP runs, like OMIM-AUTO
Issue -
State: closed - Opened by dnil 8 months ago
#2697 - Export managed variants from scout
Issue -
State: closed - Opened by jemten 8 months ago