Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / nextstrain/measles issues and pull requests

#58 - Properly handle CSV-like TSVs

Issue - State: open - Opened by joverlee521 2 months ago

#57 - Configure pre-commit checks

Pull Request - State: closed - Opened by victorlin 3 months ago

#56 - Add pre-commit checks

Issue - State: closed - Opened by victorlin 3 months ago

#55 - wip! workflows as programs prototyping

Pull Request - State: open - Opened by tsibley 3 months ago - 4 comments

#54 - Ensure all text files have end-of-file newlines

Pull Request - State: closed - Opened by tsibley 3 months ago - 3 comments

#52 - Update Nextclade metadata merge to use `augur curate rename` and `augur merge`

Pull Request - State: closed - Opened by tsibley 5 months ago - 2 comments

#51 - Add .gitattributes file

Pull Request - State: closed - Opened by genehack 7 months ago

#50 - chore(dev): set default profile for convenience

Pull Request - State: open - Opened by corneliusroemer 7 months ago

#48 - chore(ingest): quieten nextclade, warnings pollute logs

Pull Request - State: open - Opened by corneliusroemer 7 months ago

#47 - feat(ci): Use cached ncbi dataset package to isolate tests

Pull Request - State: closed - Opened by corneliusroemer 7 months ago - 3 comments

#46 - Bypass/mock ncbi datasets call in ci

Issue - State: closed - Opened by corneliusroemer 7 months ago - 1 comment

#45 - Switch CI to pathogen-repo-ci workflow

Pull Request - State: closed - Opened by joverlee521 7 months ago

#44 - ingest: use new augur curate commands

Issue - State: open - Opened by joverlee521 7 months ago

#43 - Trim reuse text

Pull Request - State: closed - Opened by victorlin 7 months ago

#42 - Include frequencies for N450 build

Pull Request - State: closed - Opened by trvrb 7 months ago - 2 comments

#41 - Pad out page footer

Pull Request - State: closed - Opened by kimandrews 7 months ago - 2 comments

#39 - Update titles for live builds

Pull Request - State: closed - Opened by kimandrews 8 months ago - 1 comment

#38 - Fixup: Add date annotations for rare genotypes

Pull Request - State: open - Opened by kimandrews 8 months ago

#37 - Pad out page footer and update byline

Issue - State: closed - Opened by trvrb 8 months ago - 1 comment
Labels: enhancement

#36 - Assign genotypes using Nextclade dataset and visualize on tree

Pull Request - State: closed - Opened by kimandrews 8 months ago - 1 comment

#34 - Fixup: Remove time information from Nextclade dataset tree

Pull Request - State: closed - Opened by kimandrews 8 months ago

#33 - Remove time information from Nextclade dataset tree

Pull Request - State: closed - Opened by kimandrews 8 months ago

#32 - Call measles genotypes during ingest and display on tree

Issue - State: closed - Opened by trvrb 9 months ago - 2 comments
Labels: enhancement

#31 - Package the Nextclade dataset

Issue - State: open - Opened by kimandrews 9 months ago

#30 - Fixup: Add ambiguous month and day to date annotations

Pull Request - State: closed - Opened by kimandrews 9 months ago

#29 - Line endings are CRLF

Issue - State: closed - Opened by jameshadfield 9 months ago - 1 comment

#28 - Make nextclade tree

Pull Request - State: closed - Opened by kimandrews 9 months ago - 4 comments

#27 - fixup: use include file in `augur filter`

Pull Request - State: closed - Opened by kimandrews 9 months ago

#25 - phylogenetic: Use inline root sequence

Pull Request - State: closed - Opened by joverlee521 10 months ago - 3 comments

#24 - Primary key shouldn't include version number in GenBank accession

Issue - State: closed - Opened by trvrb 10 months ago
Labels: bug

#23 - Include vaccine strains

Pull Request - State: closed - Opened by trvrb 10 months ago

#22 - Automate ingest and phylogenetic workflows

Pull Request - State: closed - Opened by kimandrews 10 months ago - 1 comment

#21 - Add nextstrain-automation build-configs to phylogenetic workflow

Pull Request - State: closed - Opened by kimandrews 10 months ago

#21 - Add nextstrain-automation build-configs to phylogenetic workflow

Pull Request - State: closed - Opened by kimandrews 10 months ago

#20 - Make tree for 450bp of the N gene ("N450")

Pull Request - State: closed - Opened by kimandrews 11 months ago

#18 - Add phylogenetic directory

Pull Request - State: closed - Opened by kimandrews 12 months ago

#17 - ingest: Move intermediate file to `data` directory

Pull Request - State: closed - Opened by kimandrews 12 months ago

#16 - Parse genotype from NCBI data

Issue - State: closed - Opened by kimandrews 12 months ago - 2 comments

#15 - Update top-level .gitignore

Pull Request - State: closed - Opened by kimandrews 12 months ago

#14 - Create custom code to parse Measles strain names

Issue - State: open - Opened by kimandrews almost 1 year ago

#13 - Consider building gene-specific phylogenies

Issue - State: closed - Opened by kimandrews about 1 year ago - 1 comment

#12 - Consider a human-host-specific workflow

Issue - State: open - Opened by kimandrews about 1 year ago

#11 - Use accession number in phylogenetic workflow

Issue - State: closed - Opened by kimandrews about 1 year ago - 1 comment

#10 - Add ingest

Pull Request - State: closed - Opened by kimandrews about 1 year ago - 1 comment

#9 - Use a config file to define hardcoded parameters

Pull Request - State: closed - Opened by kimandrews about 1 year ago

#8 - chore: Nextstrain/styleguide

Pull Request - State: closed - Opened by j23414 almost 2 years ago - 1 comment

#7 - zstd

Pull Request - State: closed - Opened by j23414 over 2 years ago

#6 - [do not merge] add cores flag

Pull Request - State: closed - Opened by j23414 over 2 years ago - 3 comments

#5 - Migrate CI to GitHub Actions

Pull Request - State: closed - Opened by tsibley almost 3 years ago

#4 - GitHub actions CI

Pull Request - State: closed - Opened by j23414 almost 3 years ago - 1 comment

#3 - pull data from https instead of fauna

Pull Request - State: closed - Opened by j23414 almost 3 years ago - 2 comments

#2 - CI: Upgrade setuptools suite prior to installation

Pull Request - State: closed - Opened by huddlej about 3 years ago

#1 - Export v2

Pull Request - State: closed - Opened by trvrb about 5 years ago