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Automated Nextstrain Clade Monitoring & Variant Definition Creation #6

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Automated Nextstrain Clade Monitoring & Variant Definition Creation #6

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eaaa2c6
WIP - of Cornelius Roemer's draft
Jul 14, 2025
475528a
temporarily chaning branch to push to
Jul 14, 2025
cf0215c
move to right dir
Jul 14, 2025
e1e2bda
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 14, 2025
89d3030
enrich
Jul 14, 2025
062043e
enrich with display names and data
Jul 14, 2025
2c83f39
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 14, 2025
f38b4de
refine optics
Jul 14, 2025
2c7f71a
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 14, 2025
92dbc6c
remove clutter
Jul 14, 2025
10cc14b
with day
Jul 14, 2025
049b24c
add automatic PR
Jul 14, 2025
427957e
tate
Jul 14, 2025
2d988c0
add retry
Jul 14, 2025
9e9537b
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 15, 2025
87cc3de
only one variant
Jul 15, 2025
d2cd743
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 15, 2025
c9b11b6
Add temporary push trigger to variant-creator for testing
Jul 15, 2025
10efd56
Fix variant creator workflow: checkout master + add _bot suffix
Jul 15, 2025
e526d4c
test variant
Jul 15, 2025
4e68d04
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 15, 2025
f4bf3fa
test
Jul 15, 2025
ce68b43
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 15, 2025
d69317b
Add open issue check to variant creator
Jul 15, 2025
becc6c9
single change
Jul 15, 2025
8a9753d
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 15, 2025
7d40845
test
Jul 15, 2025
7dab3f1
Major improvement: Process ALL open issues with variant-creation-need…
Jul 15, 2025
1a3229d
🚀 FINAL: Complete automated variant creation workflow
Jul 15, 2025
8887a27
clean test
Jul 15, 2025
53a7f4f
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 15, 2025
f5330b6
to 7 days
Jul 22, 2025
7f0ceed
✨ Enhance workflows with CovSpectrum links and improved notifications
Jul 22, 2025
19723a4
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 22, 2025
0c1062e
🔧 Fix retry timing and reorganize CovSpectrum links
Jul 22, 2025
e03a280
🔄 Merge remote changes - resolve clade tracking conflict
Jul 22, 2025
1c058be
test
Jul 22, 2025
632454b
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 22, 2025
c756002
test
Jul 22, 2025
2304bd8
test
Jul 22, 2025
54e983c
Merge branch 'feat/nextclade_monitor' of https://github.com/cbg-ethz/…
Jul 22, 2025
673c800
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 22, 2025
965f630
test
Jul 22, 2025
ed0426e
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 22, 2025
c2b3286
test final
Jul 22, 2025
eafe776
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 22, 2025
e7ae5d9
test
Jul 22, 2025
15d7527
test
Jul 22, 2025
9edbd17
test
Jul 22, 2025
5e3f0e2
test
Jul 22, 2025
9b74489
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 22, 2025
f1d8ba4
FINNAL
Jul 22, 2025
be1cd10
Update Nextstrain clade tracking data [skip ci]
actions-user Jul 22, 2025
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52 changes: 52 additions & 0 deletions .github/nextstrain-monitor/previous_clade_hierarchy.tsv
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Original file line number Diff line number Diff line change
@@ -0,0 +1,52 @@
clade parent WHO
19B 19A
20A 19A
20B 20A
20C 20A
20D 20B
20E 20A
20F 20B
20G 20C
20H 20C Beta
20I 20B Alpha
20J 20B Gamma
21A 20A Delta
21B 20A Kappa
21C 20C Epsilon
21D 20A Eta
21E 20B Theta
21F 20C Iota
21G 20D Lambda
21H 20A Mu
21I 21A Delta
21J 21A Delta
21K 21M Omicron
21L 21M Omicron
21M 20B Omicron
22A 21L Omicron
22B 21L Omicron
22C 21L Omicron
22D 21L Omicron
22E 22B Omicron
22F 21L Omicron
23A 22F Omicron
23B 22F Omicron
23C 22D Omicron
23D 22F Omicron
23E 22F Omicron
23F 23D Omicron
23G 23A Omicron
23H 23F Omicron
23I 21L Omicron
24A 23I Omicron
24B 24A Omicron
24C 24B Omicron
24D 21L Omicron
24E 24C Omicron
24F 24A Omicron
24G 24B Omicron
24H 24A Omicron
24I 24A Omicron
25A 24B Omicron
25B 24D Omicron
25C 24A Omicron
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