Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / ssi-dk/bifrost issues and pull requests
#85 - Documentation link at readme.md yields a 404
Issue -
State: open - Opened by KasperThystrup almost 2 years ago
#84 - Change to support S.sonnei as E.coli on ariba_mlst and removing symlinks
Pull Request -
State: closed - Opened by PovilasMat over 2 years ago
#83 - Adding kma_pointmutations and reslab_stamper
Pull Request -
State: closed - Opened by PovilasMat over 2 years ago
#81 - chewBBACA component for Bifrost
Issue -
State: closed - Opened by finngl almost 3 years ago
- 4 comments
Labels: bifrost, Blocked
#80 - QC score
Issue -
State: open - Opened by finngl over 3 years ago
- 4 comments
#79 - Update submodule hashes
Pull Request -
State: closed - Opened by githubz0r over 3 years ago
#78 - move bifrostlib and resfinder to latest commits
Pull Request -
State: closed - Opened by githubz0r over 3 years ago
#77 - Requirements not passed failing the component
Issue -
State: open - Opened by martinbaste almost 4 years ago
Labels: 🐛 bug
#76 - Fix for bifrost_run_launcher test will affect other tests as calling run_program isn't neccesary or desired now
Issue -
State: closed - Opened by kimleeng almost 4 years ago
#75 - Adjust sample_component path to include final path not just sample path
Issue -
State: open - Opened by kimleeng almost 4 years ago
#74 - Create version tag for all components and check dockerhub (update github actions)that it reflects properly
Issue -
State: closed - Opened by kimleeng almost 4 years ago
- 1 comment
#73 - turn bifrost into bifrostlib submodule and reporter submodule so that bifrost is just the collection and documentation organization
Issue -
State: closed - Opened by kimleeng almost 4 years ago
#72 - Update datahandling.py
Pull Request -
State: closed - Opened by kimleeng almost 4 years ago
#71 - push newest bifrostlib to all components
Issue -
State: open - Opened by kimleeng almost 4 years ago
#70 - Fix issue where a component requirement isn't working. Currently it's checking off it's own id and not that of the target.
Issue -
State: closed - Opened by kimleeng almost 4 years ago
Labels: 🐛 bug, 📲 api
#69 - custom run creation basic functionality
Pull Request -
State: closed - Opened by martinbaste about 4 years ago
#68 - Split tests into fast and slow (or unit/integration) so that the watchdog runs quick ones first and then bigger ones after for faster feedback loops
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 🤖 automation
#67 - Update tests with new bifrostlib functionality
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 📲 api, 💾 data schemes, 🤖 automation
#66 - Update bifrostlib for samplecomponents to reflect schema2.0 and beyond, right now its more hardcoded for snakemake purposes
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 📲 api, 💾 data schemes
#65 - Add input species for components with a species requirement. This is so if the user changes the species the component still has info on which species it ran against
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 🔨 pipelines
#64 - Download finders result for selected samples as csv
Issue -
State: open - Opened by martinbaste about 4 years ago
Labels: 🏞 dashboard
#63 - Columns can be added/hidden by the user
Issue -
State: open - Opened by martinbaste about 4 years ago
Labels: 🏞 dashboard
#62 - Clean up setup folder. shouldnt be needed but currently dockerfiles in others are pulling common resources from it. Should move those into the components (or base)
Issue -
State: closed - Opened by kimleeng about 4 years ago
Labels: 🐛 bug, 🔨 pipelines, 😊 verified
#61 - Change it so components can be re-installed onto themselves (for development adjustments to config.yaml) as deleting from DB to update is less than ideal.
Issue -
State: closed - Opened by kimleeng about 4 years ago
Labels: 🔨 pipelines, 🗄 database
#60 - Dockerize run_launcher
Pull Request -
State: closed - Opened by kimleeng about 4 years ago
#59 - Fix setup to install indexes for DB and species install.
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 🗄 database
#58 - create a docker for bifrost launcher
Issue -
State: closed - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 🔨 pipelines
#57 - Add old azure devops CI/CD into github actions
Issue -
State: open - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 🤖 automation
#56 - Fix bug in container automation and add more for latest and dev
Issue -
State: closed - Opened by kimleeng about 4 years ago
Labels: 🐛 bug, 🤖 automation
#55 - Create github actions for creating docker images on release tags
Issue -
State: closed - Opened by kimleeng about 4 years ago
Labels: 🤖 automation
#54 - Mountable output folder for docker images
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement
#53 - 2.0.6 release
Pull Request -
State: closed - Opened by kimleeng about 4 years ago
#52 - Run class not checking against run name properly
Issue -
State: closed - Opened by kimleeng about 4 years ago
Labels: 🐛 bug, 💾 data schemes, 😊 verified
#51 - Establish test data set which can be attached via mongo atlas
Issue -
State: closed - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 🤗 data sharing, 🖥 server
#50 - Add species interface for managing species and alias's
Issue -
State: closed - Opened by kimleeng about 4 years ago
Labels: 📑 duplicate, 💪 enhancement, 🏞 dashboard
#49 - Update documentation to reflect schema2.0
Issue -
State: closed - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 📝 documentation
#48 - Convert user feedback into a sample component
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 🔨 pipelines
#47 - Generate requirements for a validation set
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 👾 other
#46 - Look into anonymization mappings for fields
Issue -
State: open - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 💪 enhancement, 🤗 data sharing, 💾 data schemes
#45 - Add a interface for managing species and there mappings
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 🏞 dashboard
#44 - Create github actions to automate testing
Issue -
State: closed - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 🤖 automation
#43 - Adjust it so that components store installation path
Issue -
State: closed - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 💾 data schemes
#42 - Port over non public components for schema 2.0
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💥 invalid, 🔨 pipelines
#41 - Unify classes and api for different DB requests and api into one location
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 📲 api
#40 - Add loading bars/spinners to data tables if possible
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 🏞 dashboard
#39 - Look into showing contigs/coverage in a more intuitive way
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 🏞 dashboard
#38 - Change data plots for QC to show a pregenerated density plot
Issue -
State: open - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 💪 enhancement, 🏞 dashboard
#37 - Adjust docker images to utilize a scratch folder
Issue -
State: open - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 💪 enhancement, 🖥 server
#36 - Adjust components to have a unique name based on name, version, db_date
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 💾 data schemes
#35 - Add a wideview for the QC dashboard
Issue -
State: closed - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 💪 enhancement, 🏞 dashboard
#34 - Ability to submit job requests to server from dashboard
Issue -
State: open - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 🏞 dashboard, 📲 api, 🖥 server
#33 - Run components on samples to fill out DB when server isn't busy
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 📲 api, 🖥 server
#32 - Add the functionality of 'tags' into bifrost
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 🏞 dashboard, 💾 data schemes
#31 - Have the run checker default to be sorted by sample name and supplying lab
Issue -
State: open - Opened by kimleeng about 4 years ago
- 1 comment
Labels: 💪 enhancement, 🏞 dashboard
#30 - Create github shields for bifrost repo
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 📝 documentation
#29 - API for checking run status
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 📲 api
#28 - Ability to create a collection of runs through the UI
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 🏞 dashboard, 📲 api
#27 - Add a clear job list button
Issue -
State: open - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 🏞 dashboard
#25 - Add a reason text box for supplying lab feedback
Issue -
State: closed - Opened by kimleeng about 4 years ago
Labels: 💪 enhancement, 🏞 dashboard
#19 - cleaning up branches
Pull Request -
State: closed - Opened by kimleeng about 4 years ago
#18 - Update install.sh, move samtools to env.yaml #16
Pull Request -
State: closed - Opened by martinbaste almost 5 years ago
#17 - Update bifrost_for_install_full.yaml fix #14
Pull Request -
State: closed - Opened by martinbaste almost 5 years ago
#16 - reorder conda environment channels
Issue -
State: closed - Opened by corburn almost 5 years ago
- 1 comment
#15 - install.sh was not updated when install directory was renamed setup
Issue -
State: closed - Opened by corburn almost 5 years ago
- 1 comment
#14 - pypi bifrostlib out-of-sync with repository bifrostlib
Issue -
State: closed - Opened by corburn almost 5 years ago
- 1 comment
#13 - remove_run.py unavailable
Issue -
State: closed - Opened by corburn almost 5 years ago
- 1 comment
#12 - Check what dev changes there are
Pull Request -
State: closed - Opened by kimleeng almost 5 years ago
#11 - fix nan priority and nan group/species issues fix AB#529 fix AB#530
Pull Request -
State: closed - Opened by martinbaste almost 5 years ago
#10 - sort runs by names fix AB#453
Pull Request -
State: closed - Opened by martinbaste about 5 years ago
#9 - some performance improvements to fix AB#452
Pull Request -
State: closed - Opened by martinbaste about 5 years ago
#8 - provided species flexibility AB#433
Pull Request -
State: closed - Opened by martinbaste about 5 years ago
#7 - fix AB#430
Pull Request -
State: closed - Opened by martinbaste over 5 years ago
#6 - Dev
Pull Request -
State: closed - Opened by martinbaste over 5 years ago
#5 - Should fix the tests
Pull Request -
State: closed - Opened by martinbaste over 5 years ago
#4 - Added code to allow email post run
Pull Request -
State: closed - Opened by kimleeng over 5 years ago
#3 - Installation files
Pull Request -
State: closed - Opened by kimleeng over 5 years ago
#2 - Add install file (rudementary)
Pull Request -
State: closed - Opened by kimleeng over 5 years ago
#1 - Implementation of cge_mlst components
Pull Request -
State: closed - Opened by kimleeng over 5 years ago