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loculus-project
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loculus
An open-source software package to power microbial genomic databases
https://loculus.org
GNU Affero General Public License v3.0
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Investigate adding a distributed lock for ingest
#2843
anna-parker
opened
1 hour ago
1
test preview of another author branch
#2842
theosanderson
opened
14 hours ago
0
We currently include stop codons in protein sequences
#2841
theosanderson
opened
17 hours ago
8
ena-submission: Better logging of webin-cli errors
#2840
anna-parker
opened
17 hours ago
0
fix(ci): make filename changes change file hash in docker cache
#2839
corneliusroemer
closed
17 hours ago
1
Renaming file is not enough to change the docker image cache hash in our CI
#2838
corneliusroemer
opened
19 hours ago
1
(don't merge) test branch to test ingest change effects
#2837
corneliusroemer
closed
1 hour ago
2
Only allow historical countries before a country-specific cutoff, something submitted in 2010 shouldn't say "USSR"
#2836
corneliusroemer
opened
21 hours ago
5
Create "region/continent" field derived from country in preprocessing
#2835
corneliusroemer
opened
21 hours ago
0
Include extra metadata from Genbank that is in the full Genbank files but not (yet) parsed and emitted by NCBI virus
#2834
corneliusroemer
opened
21 hours ago
1
fix: don't ingest region as geoLocAdmin2 (it's continent)
#2833
corneliusroemer
closed
17 hours ago
4
Ingest: get nucleotide accessions to ignore from extended metadata table
#2832
corneliusroemer
opened
22 hours ago
5
ena-submission: refactoring comments
#2831
anna-parker
opened
22 hours ago
0
Fix ingest in one go
#2830
corneliusroemer
opened
22 hours ago
0
feat(ingest): Update datasets package in ingest
#2829
anna-parker
closed
1 day ago
0
NCBI datasets error causing ingest to fail for west nile and cchf
#2828
anna-parker
closed
1 day ago
0
The ingest logs contain the ingest user's password
#2827
fengelniederhammer
opened
1 day ago
1
chore(deps): bump the patch group across 1 directory with 13 updates
#2826
dependabot[bot]
opened
1 day ago
1
Revert "refactor(website): rename `siloVersionStatus` to `versionStatus`"
#2825
anna-parker
closed
1 day ago
2
Add groups table to tables whose updates invalidate eleased data cache
#2824
corneliusroemer
opened
1 day ago
0
chore(deps-dev): bump vite from 5.4.5 to 5.4.6 in /keycloak/keycloakify in the npm_and_yarn group
#2823
dependabot[bot]
closed
4 hours ago
2
chore(deps): bump vite from 5.4.3 to 5.4.6 in /docs in the npm_and_yarn group
#2822
dependabot[bot]
closed
1 day ago
1
chore(deps): bump vite from 5.4.2 to 5.4.6 in /website in the npm_and_yarn group
#2821
dependabot[bot]
closed
1 day ago
0
Preferentially use insdc_ingest_group's id instead of group name (which isn't unique)
#2820
corneliusroemer
closed
1 day ago
6
Group name in `/get-released-data` should not come from preprocessed data but from join on the db table
#2819
corneliusroemer
closed
1 day ago
10
refactor(website): rename `siloVersionStatus` to `versionStatus`
#2818
corneliusroemer
closed
1 day ago
1
refactor(backend): rename enum `SiloVersionStatus` to `VersionStatus` and document the enum
#2817
corneliusroemer
closed
1 day ago
0
Revoked and non-latest sequences are entirely inaccessible through the Search UI
#2816
theosanderson
opened
1 day ago
0
Investigate how group name ends up in released data
#2815
corneliusroemer
closed
1 day ago
5
feat(website): Only count latest versions for stats on main page
#2814
theosanderson
closed
1 day ago
2
Add countries in NIH list which are missing from ENA list
#2813
anna-parker
closed
19 hours ago
4
chore(deps): bump the patch group across 1 directory with 12 updates
#2812
dependabot[bot]
closed
1 day ago
1
Rename "ENA submission" to "ENA Deposition"
#2811
theosanderson
opened
2 days ago
0
[do not merge] Temporary pop up that cross ref is down when user clicks to create DOI
#2810
anna-parker
closed
39 minutes ago
0
Test ENA submission updates
#2809
corneliusroemer
opened
2 days ago
0
feat(ci): Make deploy script cleaner: use temp file, add logs
#2808
anna-parker
closed
2 days ago
0
Test database persistency on argocd
#2807
anna-parker
opened
2 days ago
4
deploy.py does not always correctly substitute external content referenced by URL when running locally
#2806
anna-parker
closed
2 days ago
7
Make swagger UI sections more logical for API consumers: regroup and separate public/private endpoints
#2805
corneliusroemer
opened
2 days ago
0
In ingest, populate the version comment field with a diff versus the previous version
#2804
corneliusroemer
opened
3 days ago
5
Diff view of Loculus versions
#2803
corneliusroemer
opened
3 days ago
2
feat(deployment): Allow detailed customizable resources
#2802
theosanderson
closed
2 days ago
0
Command line interface (CLI)
#2801
chaoran-chen
opened
3 days ago
1
Review and potentially restructure configuration
#2800
chaoran-chen
opened
3 days ago
0
Ingest: Potentially refactor ingest to hash metadata fields earlier?
#2799
anna-parker
closed
2 days ago
5
Config file validation
#2798
chaoran-chen
opened
3 days ago
0
Add custom gitHub url setting
#2797
theosanderson
opened
3 days ago
0
Config file schema
#2796
chaoran-chen
opened
3 days ago
0
Review code and identify things to refactor and missing tests
#2795
chaoran-chen
opened
3 days ago
0
How to handle seqs that INSDC doesn't accept (gappy)?
#2794
chaoran-chen
opened
3 days ago
0
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