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Merge pull request #2409 from aviczhl2/master
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add_1_ref_from_main_page_and_54_from_lineage_proposal
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@AngieHinrichs
AngieHinrichs committed Dec 11, 2023
2 parents 569e2a9 + 7a8e13a commit 40e637b
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157 changes: 70 additions & 87 deletions automated-issue-ref.ipynb
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"id": "f64573a2",
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"processed 1080 milestones\n",
"processed 1090 milestones\n",
"processed 1100 milestones\n",
"processed 1110 milestones\n"
"processed 1110 milestones\n",
"processed 1120 milestones\n",
"processed 1130 milestones\n",
"processed 1140 milestones\n",
"processed 1150 milestones\n",
"processed 1160 milestones\n",
"processed 1170 milestones\n",
"processed 1180 milestones\n",
"processed 1190 milestones\n"
]
}
],
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},
{
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"id": "88a367db",
"metadata": {},
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},
{
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},
{
"cell_type": "code",
"execution_count": 5,
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"id": "a56544a8",
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"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"['JV.1', 'sars-cov-2-variants/lineage-proposals#760']\n",
"['DV.7.1.3', 'sars-cov-2-variants/lineage-proposals#851']\n",
"['DV.7.1.5', 'sars-cov-2-variants/lineage-proposals#729']\n",
"['JN.3', 'sars-cov-2-variants/lineage-proposals#892']\n",
"['JQ.1', 'sars-cov-2-variants/lineage-proposals#906']\n",
"['DV.7.1.6', 'sars-cov-2-variants/lineage-proposals#765']\n",
"['JN.1.1', 'sars-cov-2-variants/lineage-proposals#987']\n",
"['JN.1.1.1', 'sars-cov-2-variants/lineage-proposals#1097']\n",
"['JN.1.2', 'sars-cov-2-variants/lineage-proposals#1087']\n",
"['JN.4', 'sars-cov-2-variants/lineage-proposals#1009']\n",
"['JN.5.1', 'sars-cov-2-variants/lineage-proposals#954']\n",
"['JN.7', 'sars-cov-2-variants/lineage-proposals#856']\n",
"['JN.10', 'sars-cov-2-variants/lineage-proposals#954']\n",
"['BA.2.86.4', 'sars-cov-2-variants/lineage-proposals#1032']\n",
"['JH.2', '#2068']\n",
"['FD.5.1', 'sars-cov-2-variants/lineage-proposals#385']\n",
"['GK.1.2.1', '#2314']\n",
"['GK.1.6', 'sars-cov-2-variants/lineage-proposals#643']\n",
"['GK.1.6.1', 'sars-cov-2-variants/lineage-proposals#643']\n",
"['GK.2.4', 'sars-cov-2-variants/lineage-proposals#823']\n",
"['GK.5', 'sars-cov-2-variants/lineage-proposals#736']\n",
"['GK.5.1', 'sars-cov-2-variants/lineage-proposals#736']\n",
"['GK.6', 'sars-cov-2-variants/lineage-proposals#715']\n",
"['GK.7', 'sars-cov-2-variants/lineage-proposals#907']\n",
"['GK.8', 'sars-cov-2-variants/lineage-proposals#909']\n",
"['GK.8.1', 'sars-cov-2-variants/lineage-proposals#909']\n",
"['GK.10', 'sars-cov-2-variants/lineage-proposals#761']\n",
"['GN.1.3', 'sars-cov-2-variants/lineage-proposals#816']\n",
"['JD.1.1.3', 'sars-cov-2-variants/lineage-proposals#896']\n",
"['KA.1', 'sars-cov-2-variants/lineage-proposals#822']\n",
"['JZ.1', 'sars-cov-2-variants/lineage-proposals#224']\n",
"['HN.2', 'sars-cov-2-variants/lineage-proposals#676']\n",
"['HN.2.1', 'sars-cov-2-variants/lineage-proposals#676']\n",
"['HN.3.1', 'sars-cov-2-variants/lineage-proposals#383']\n",
"['HN.5', 'sars-cov-2-variants/lineage-proposals#936']\n",
"['FL.13.4', 'sars-cov-2-variants/lineage-proposals#638']\n",
"['FL.13.4.1', 'sars-cov-2-variants/lineage-proposals#638']\n",
"['FL.13.5', 'sars-cov-2-variants/lineage-proposals#692']\n",
"['FL.23.2', 'sars-cov-2-variants/lineage-proposals#381']\n",
"['HK.1.2', 'sars-cov-2-variants/lineage-proposals#631']\n",
"['HK.2.1', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.3.4', 'sars-cov-2-variants/lineage-proposals#764']\n",
"['HK.3.5', 'sars-cov-2-variants/lineage-proposals#865']\n",
"['HK.3.6', 'sars-cov-2-variants/lineage-proposals#809']\n",
"['HK.3.7', 'sars-cov-2-variants/lineage-proposals#793']\n",
"['HK.11.1', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.13', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.13.2', 'sars-cov-2-variants/lineage-proposals#943']\n",
"['HK.14', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.15', 'sars-cov-2-variants/lineage-proposals#588']\n",
"['HK.16', 'sars-cov-2-variants/lineage-proposals#841']\n",
"['HK.18', 'sars-cov-2-variants/lineage-proposals#800']\n",
"['JG.3.1', 'sars-cov-2-variants/lineage-proposals#829']\n",
"['HV.1.1', 'sars-cov-2-variants/lineage-proposals#866']\n",
"['HV.1.3', 'sars-cov-2-variants/lineage-proposals#924']\n",
"['JR.1.1', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['EG.6.1.2', 'sars-cov-2-variants/lineage-proposals#826']\n",
"['GA.4.1.3', 'sars-cov-2-variants/lineage-proposals#968']\n",
"['GA.4.3', 'sars-cov-2-variants/lineage-proposals#908']\n",
"['GA.7.1', 'sars-cov-2-variants/lineage-proposals#755']\n",
"['FE.1.1.5', 'sars-cov-2-variants/lineage-proposals#556']\n",
"['GW.5.3', 'sars-cov-2-variants/lineage-proposals#815']\n",
"['GW.5.3.1', 'sars-cov-2-variants/lineage-proposals#815']\n",
"['FY.1.4', 'sars-cov-2-variants/lineage-proposals#165']\n",
"['FY.5.1', 'sars-cov-2-variants/lineage-proposals#929']\n",
"['FY.5.1.1', 'sars-cov-2-variants/lineage-proposals#790']\n",
"['FY.6.2', 'sars-cov-2-variants/lineage-proposals#637']\n",
"['FY.8', 'sars-cov-2-variants/lineage-proposals#635']\n",
"['JC.2', 'sars-cov-2-variants/lineage-proposals#961']\n",
"['JC.5', 'sars-cov-2-variants/lineage-proposals#629']\n",
"['HH.2.1', 'sars-cov-2-variants/lineage-proposals#236']\n",
"['HH.5', 'sars-cov-2-variants/lineage-proposals#438']\n",
"['HH.6', 'sars-cov-2-variants/lineage-proposals#236']\n",
"['HH.8.1', 'sars-cov-2-variants/lineage-proposals#236']\n",
"['JE.1.1', 'sars-cov-2-variants/lineage-proposals#827']\n",
"['GJ.1.2.6', 'sars-cov-2-variants/lineage-proposals#726']\n",
"['GJ.1.2.7', 'sars-cov-2-variants/lineage-proposals#726']\n",
"['GJ.5', 'sars-cov-2-variants/lineage-proposals#429']\n",
"['GJ.5.1', 'sars-cov-2-variants/lineage-proposals#429']\n",
"['GJ.6', 'sars-cov-2-variants/lineage-proposals#675']\n",
"['GJ.7', 'sars-cov-2-variants/lineage-proposals#439']\n",
"['XBB.2.3.15', 'sars-cov-2-variants/lineage-proposals#722']\n",
"['JS.2', 'sars-cov-2-variants/lineage-proposals#722']\n",
"['XBB.2.3.18', 'sars-cov-2-variants/lineage-proposals#738']\n",
"['JY.1', 'sars-cov-2-variants/lineage-proposals#731']\n",
"['XBC.1.6.5', 'sars-cov-2-variants/lineage-proposals#479']\n",
"['JT.1', 'sars-cov-2-variants/lineage-proposals#203']\n",
"['XCZ', 'sars-cov-2-variants/lineage-proposals#839']\n",
"['XDB', 'sars-cov-2-variants/lineage-proposals#969']\n"
"['JD.1.1.5', 'sars-cov-2-variants/lineage-proposals#1079']\n",
"['KC.1', 'sars-cov-2-variants/lineage-proposals#614']\n",
"['KF.1', 'sars-cov-2-variants/lineage-proposals#890']\n",
"['KF.2', 'sars-cov-2-variants/lineage-proposals#1111']\n",
"['HK.3.2.2', 'sars-cov-2-variants/lineage-proposals#867']\n",
"['HK.3.9', 'sars-cov-2-variants/lineage-proposals#1092']\n",
"['HK.3.10', 'sars-cov-2-variants/lineage-proposals#1055']\n",
"['HK.3.12', 'sars-cov-2-variants/lineage-proposals#886']\n",
"['HK.3.13', 'sars-cov-2-variants/lineage-proposals#601']\n",
"['HK.20', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.20.1', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.23.1', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.23.1.1', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.24.1', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.26', 'sars-cov-2-variants/lineage-proposals#763']\n",
"['HK.26.1', 'sars-cov-2-variants/lineage-proposals#763']\n",
"['HK.27.1', 'sars-cov-2-variants/lineage-proposals#525']\n",
"['HK.32', 'sars-cov-2-variants/lineage-proposals#601']\n",
"['HK.33', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['HK.34', 'sars-cov-2-variants/lineage-proposals#905']\n",
"['HK.34.1', 'sars-cov-2-variants/lineage-proposals#1048']\n",
"['HV.1.2', 'sars-cov-2-variants/lineage-proposals#957']\n",
"['HV.1.4', 'sars-cov-2-variants/lineage-proposals#957']\n",
"['HV.1.5', 'sars-cov-2-variants/lineage-proposals#957']\n",
"['HV.1.6.1', 'sars-cov-2-variants/lineage-proposals#957']\n",
"['HV.1.7', 'sars-cov-2-variants/lineage-proposals#957']\n",
"['KB.3', 'sars-cov-2-variants/lineage-proposals#1052']\n",
"['KB.4', 'sars-cov-2-variants/lineage-proposals#891']\n",
"['JR.1.1.1', 'sars-cov-2-variants/lineage-proposals#1015']\n",
"['EG.5.1.16', 'sars-cov-2-variants/lineage-proposals#899']\n",
"['EG.5.1.17', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['EG.5.1.19', 'sars-cov-2-variants/lineage-proposals#537']\n",
"['EG.5.2.4', 'sars-cov-2-variants/lineage-proposals#770']\n",
"['GY.1.1', 'sars-cov-2-variants/lineage-proposals#804']\n",
"['GY.1.1.1', 'sars-cov-2-variants/lineage-proposals#804']\n",
"['XBB.1.16.26', 'sars-cov-2-variants/lineage-proposals#685']\n",
"['GA.10.1', 'sars-cov-2-variants/lineage-proposals#919']\n",
"['KE.2', 'sars-cov-2-variants/lineage-proposals#945']\n",
"['FY.5.2', 'sars-cov-2-variants/lineage-proposals#267']\n",
"['FY.5.4', 'sars-cov-2-variants/lineage-proposals#929']\n",
"['FY.5.5.1', 'sars-cov-2-variants/lineage-proposals#929']\n",
"['FY.8.1', 'sars-cov-2-variants/lineage-proposals#1002']\n",
"['FY.8.1.1', 'sars-cov-2-variants/lineage-proposals#1002']\n",
"['XBC.1.3.1', 'sars-cov-2-variants/lineage-proposals#542']\n",
"['KD.1', 'sars-cov-2-variants/lineage-proposals#673']\n"
]
}
],
Expand Down Expand Up @@ -423,17 +406,17 @@
},
{
"cell_type": "code",
"execution_count": 10,
"execution_count": 6,
"id": "1c9369e1",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"Add 5 references from cov-lineages/pango-designation.\n",
"Add 2 references from cov-lineages/pango-designation.\n",
"Upgrade 0 references from cov-lineages/pango-designation.\n",
"Add 18 references from sars-cov-2-variants/lineage-proposals.\n"
"Add 78 references from sars-cov-2-variants/lineage-proposals.\n"
]
}
],
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91 changes: 82 additions & 9 deletions autoref/milestone.txt
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Expand Up @@ -961,7 +961,6 @@ sars#67 GA.4.1 GA.4.1
sars#68 XBB.1.41.2 XBB.1.41.2
sars#69 GE.1.1 GE.1.1
sars#70 GE.1.2 GE.1.2
sars#71 FL.1.5.2 FL.1.5.2
sars#72 GS.2 GS.2
sars#73 GS.3 GS.3
sars#74 JB.2 JB.2+JB.2.1
Expand Down Expand Up @@ -1045,13 +1044,6 @@ sars#151 HV.1.1 HV.1.1
sars#152 HV.1.3 HV.1.3
sars#154 HK.13.2 HK.13.2
sars#156 HK.1.2 HK.1.2
sars#157 EG.5.1.8 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1
sars#157 HK.13 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1
sars#157 HK.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1
sars#157 HK.14 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1
sars#157 JR.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1
sars#157 HK.2.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1
sars#157 HK.11.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1
sars#158 HK.15 HK.15
sars#159 GA.4.3 GA.4.3
sars#160 HK.16 HK.16
Expand Down Expand Up @@ -1108,7 +1100,6 @@ sars#206 HN.3.1 HN.3.1
sars#207 FY.8 FY.8
sars#208 FY.6.2 FY.6.2
sars#209 FY.1.4 FY.1.4
sars#211 FY.5.1 FY.5.1
sars#212 FY.5.1.1 FY.5.1.1
sars#213 HN.2 HN.2+HN.2.1
sars#213 HN.2.1 HN.2+HN.2.1
Expand All @@ -1117,3 +1108,85 @@ sars#215 XDA XDA
sars#216 XDB XDB
sars#217 XDC XDC
sars#218 HH.5 HH.5
sars#220 EG.5.1.8 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.13 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.14 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 JR.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.2.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.11.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.20 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.20.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.24.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.23.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.23.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 EG.5.1.17 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 EG.5.1.19 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#220 HK.33 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33
sars#221 JN.4 JN.4
sars#222 XCT.1 XCT.1
sars#223 HK.21 HK.21
sars#224 JD.1.2.1 JD.1.2.1
sars#225 XBB.1.16.26 XBB.1.16.26
sars#226 XDD XDD
sars#227 JG.3.3 JG.3.3
sars#228 JG.3.2 JG.3.2
sars#229 GK.1.10 GK.1.10
sars#230 JN.7 JN.7
sars#231 HR.1.1 HR.1.1
sars#233 BA.2.86.4 BA.2.86.4
sars#234 JN.10 JN.10+JN.5.1
sars#234 JN.5.1 JN.10+JN.5.1
sars#235 JD.1.1.4 JD.1.1.4
sars#236 HK.3.8 HK.3.8
sars#237 HK.3.2.1 HK.3.2.1
sars#238 FL.15.4 FL.15.4
sars#240 HK.8.1 HK.8.1
sars#241 XDE XDE
sars#242 KB.1 KB.1
sars#243 XBB.1.16.27 XBB.1.16.27
sars#244 XDF XDF
sars#246 EG.5.2.4 EG.5.2.4+XDG
sars#246 XDG EG.5.2.4+XDG
sars#247 HK.3.10 HK.3.10
sars#248 HK.3.9 HK.3.9
sars#250 HK.3.2.2 HK.3.2.2
sars#252 HK.25 HK.25
sars#253 KB.4 KB.4
sars#254 JN.1.1 JN.1.1
sars#255 HK.26 HK.26+HK.26.1
sars#255 HK.26.1 HK.26+HK.26.1
sars#256 FL.1.5.2 FL.1.5.2+KC.1
sars#256 KC.1 FL.1.5.2+KC.1
sars#257 HK.27.1 HK.27.1
sars#258 EG.5.1.16 EG.5.1.16
sars#259 KB.3 KB.3
sars#260 DV.7.1.6 DV.7.1.6
sars#261 JR.1.1.1 JR.1.1.1
sars#263 GY.1.1 GY.1.1+GY.1.1.1
sars#263 GY.1.1.1 GY.1.1+GY.1.1.1
sars#264 KD.1 KD.1
sars#265 XBC.1.3.1 XBC.1.3.1
sars#266 JN.1.1.1 JN.1.1.1
sars#267 JN.1.2 JN.1.2
sars#268 HV.1.2 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4
sars#268 HV.1.5 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4
sars#268 HV.1.6.1 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4
sars#268 HV.1.7 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4
sars#268 HV.1.4 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4
sars#271 HK.32 HK.32+HK.3.13
sars#271 HK.3.13 HK.32+HK.3.13
sars#272 HK.3.12 HK.3.12
sars#273 HK.34 HK.34
sars#274 KE.2 KE.2
sars#275 JD.1.1.5 JD.1.1.5
sars#276 FY.5.2 FY.5.2
sars#277 KF.2 KF.2
sars#278 KF.1 KF.1
sars#280 FY.5.1 FY.5.1+FY.5.5.1+FY.5.4
sars#280 FY.5.5.1 FY.5.1+FY.5.5.1+FY.5.4
sars#280 FY.5.4 FY.5.1+FY.5.5.1+FY.5.4
sars#281 FY.8.1 FY.8.1+FY.8.1.1
sars#281 FY.8.1.1 FY.8.1+FY.8.1.1
sars#282 HK.34.1 HK.34.1
sars#283 GA.10.1 GA.10.1

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