diff --git a/data/nextstrain/flu/h1n1pdm/ha/CY121680/CHANGELOG.md b/data/nextstrain/flu/h1n1pdm/ha/CY121680/CHANGELOG.md index 5390bb90..e57b620a 100644 --- a/data/nextstrain/flu/h1n1pdm/ha/CY121680/CHANGELOG.md +++ b/data/nextstrain/flu/h1n1pdm/ha/CY121680/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z - add representative samples from early pandemic-era clades including 1, 2, 3, 4, 6C, 7, and 8 to improve clade label annotations for older sequences diff --git a/data/nextstrain/flu/h1n1pdm/ha/MW626062/CHANGELOG.md b/data/nextstrain/flu/h1n1pdm/ha/MW626062/CHANGELOG.md index 694aa5f8..2e0fd9cf 100644 --- a/data/nextstrain/flu/h1n1pdm/ha/MW626062/CHANGELOG.md +++ b/data/nextstrain/flu/h1n1pdm/ha/MW626062/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data/nextstrain/flu/h1n1pdm/na/MW626056/CHANGELOG.md b/data/nextstrain/flu/h1n1pdm/na/MW626056/CHANGELOG.md index f2c763f2..561efb44 100644 --- a/data/nextstrain/flu/h1n1pdm/na/MW626056/CHANGELOG.md +++ b/data/nextstrain/flu/h1n1pdm/na/MW626056/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data/nextstrain/flu/h3n2/ha/CY163680/CHANGELOG.md b/data/nextstrain/flu/h3n2/ha/CY163680/CHANGELOG.md index 783d3420..e31de8b0 100644 --- a/data/nextstrain/flu/h3n2/ha/CY163680/CHANGELOG.md +++ b/data/nextstrain/flu/h3n2/ha/CY163680/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data/nextstrain/flu/h3n2/ha/EPI1857216/CHANGELOG.md b/data/nextstrain/flu/h3n2/ha/EPI1857216/CHANGELOG.md index 783d3420..e31de8b0 100644 --- a/data/nextstrain/flu/h3n2/ha/EPI1857216/CHANGELOG.md +++ b/data/nextstrain/flu/h3n2/ha/EPI1857216/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data/nextstrain/flu/vic/ha/KX058884/CHANGELOG.md b/data/nextstrain/flu/vic/ha/KX058884/CHANGELOG.md index 3d532ba3..b77ee54b 100644 --- a/data/nextstrain/flu/vic/ha/KX058884/CHANGELOG.md +++ b/data/nextstrain/flu/vic/ha/KX058884/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data/nextstrain/sars-cov-2/BA.2.86/CHANGELOG.md b/data/nextstrain/sars-cov-2/BA.2.86/CHANGELOG.md index 4364454c..0236e743 100644 --- a/data/nextstrain/sars-cov-2/BA.2.86/CHANGELOG.md +++ b/data/nextstrain/sars-cov-2/BA.2.86/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data/nextstrain/sars-cov-2/BA.2/CHANGELOG.md b/data/nextstrain/sars-cov-2/BA.2/CHANGELOG.md index 70fdbfe3..ae135d71 100644 --- a/data/nextstrain/sars-cov-2/BA.2/CHANGELOG.md +++ b/data/nextstrain/sars-cov-2/BA.2/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data/nextstrain/sars-cov-2/XBB/CHANGELOG.md b/data/nextstrain/sars-cov-2/XBB/CHANGELOG.md index 4364454c..0236e743 100644 --- a/data/nextstrain/sars-cov-2/XBB/CHANGELOG.md +++ b/data/nextstrain/sars-cov-2/XBB/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data/nextstrain/sars-cov-2/wuhan-hu-1/orfs/CHANGELOG.md b/data/nextstrain/sars-cov-2/wuhan-hu-1/orfs/CHANGELOG.md index a7839944..a9eb5adc 100644 --- a/data/nextstrain/sars-cov-2/wuhan-hu-1/orfs/CHANGELOG.md +++ b/data/nextstrain/sars-cov-2/wuhan-hu-1/orfs/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data/nextstrain/sars-cov-2/wuhan-hu-1/proteins/CHANGELOG.md b/data/nextstrain/sars-cov-2/wuhan-hu-1/proteins/CHANGELOG.md index 5df63ac6..20db535a 100644 --- a/data/nextstrain/sars-cov-2/wuhan-hu-1/proteins/CHANGELOG.md +++ b/data/nextstrain/sars-cov-2/wuhan-hu-1/proteins/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/index.json b/data_output/index.json index 019682c0..ddba0b9c 100644 --- a/data_output/index.json +++ b/data_output/index.json @@ -93,7 +93,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -141,7 +142,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -212,7 +214,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -260,7 +263,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -334,7 +338,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -382,7 +387,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -453,7 +459,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -501,7 +508,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -572,7 +580,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -620,7 +629,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -688,7 +698,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -712,7 +723,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -782,7 +794,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -806,7 +819,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -871,7 +885,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -895,7 +910,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -963,7 +979,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -995,7 +1012,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -1066,7 +1084,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -1098,7 +1117,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -1250,7 +1270,8 @@ }, "versions": [ { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" @@ -1274,7 +1295,8 @@ } ], "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/CHANGELOG.md b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 98% rename from data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/CHANGELOG.md rename to data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/CHANGELOG.md index 5390bb90..e57b620a 100644 --- a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z - add representative samples from early pandemic-era clades including 1, 2, 3, 4, 6C, 7, and 8 to improve clade label annotations for older sequences diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/README.md b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/README.md rename to data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/dataset.zip b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/dataset.zip rename to data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/dataset.zip index b10f4596..0bff58c2 100644 Binary files a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/dataset.zip and b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/genome_annotation.gff3 b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/pathogen.json b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/pathogen.json similarity index 97% rename from data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/pathogen.json rename to data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/pathogen.json index 3063dca1..bd806f78 100644 --- a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/pathogen.json +++ b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/pathogen.json @@ -117,7 +117,8 @@ "reference name": "A/California/7/2009-egg" }, "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/reference.fasta b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/reference.fasta rename to data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/sequences.fasta b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/sequences.fasta rename to data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/tree.json b/data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/CY121680/unreleased/tree.json rename to data_output/nextstrain/flu/h1n1pdm/ha/CY121680/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/CHANGELOG.md b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 98% rename from data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/CHANGELOG.md rename to data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/CHANGELOG.md index 694aa5f8..2e0fd9cf 100644 --- a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/README.md b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/README.md rename to data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/dataset.zip b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/dataset.zip rename to data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/dataset.zip index 5dba420e..8d85bbc7 100644 Binary files a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/dataset.zip and b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/genome_annotation.gff3 b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/pathogen.json b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/pathogen.json similarity index 97% rename from data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/pathogen.json rename to data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/pathogen.json index b8379077..f1c0aa97 100644 --- a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/pathogen.json +++ b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/pathogen.json @@ -119,7 +119,8 @@ "reference name": "A/Wisconsin/588/2019" }, "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/reference.fasta b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/reference.fasta rename to data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/sequences.fasta b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/sequences.fasta rename to data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/tree.json b/data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/ha/MW626062/unreleased/tree.json rename to data_output/nextstrain/flu/h1n1pdm/ha/MW626062/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/CHANGELOG.md b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 97% rename from data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/CHANGELOG.md rename to data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/CHANGELOG.md index f2c763f2..561efb44 100644 --- a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/README.md b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/README.md rename to data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/dataset.zip b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/dataset.zip rename to data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/dataset.zip index ce78c169..cd97f00f 100644 Binary files a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/dataset.zip and b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/genome_annotation.gff3 b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/pathogen.json b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/pathogen.json similarity index 97% rename from data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/pathogen.json rename to data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/pathogen.json index b31fd09f..5b648c80 100644 --- a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/pathogen.json +++ b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/pathogen.json @@ -113,7 +113,8 @@ "reference name": "A/Wisconsin/588/2019" }, "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/reference.fasta b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/reference.fasta rename to data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/sequences.fasta b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/sequences.fasta rename to data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/tree.json b/data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/flu/h1n1pdm/na/MW626056/unreleased/tree.json rename to data_output/nextstrain/flu/h1n1pdm/na/MW626056/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/CHANGELOG.md b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 98% rename from data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/CHANGELOG.md rename to data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/CHANGELOG.md index 783d3420..e31de8b0 100644 --- a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/README.md b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/README.md rename to data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/dataset.zip b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/dataset.zip rename to data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/dataset.zip index 6d080033..be622be1 100644 Binary files a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/dataset.zip and b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/genome_annotation.gff3 b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/pathogen.json b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/pathogen.json similarity index 97% rename from data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/pathogen.json rename to data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/pathogen.json index a55f3330..7ca68808 100644 --- a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/pathogen.json +++ b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/pathogen.json @@ -117,7 +117,8 @@ "reference name": "A/Wisconsin/67/2005-egg" }, "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/reference.fasta b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/reference.fasta rename to data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/sequences.fasta b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/sequences.fasta rename to data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/tree.json b/data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/tree.json rename to data_output/nextstrain/flu/h3n2/ha/CY163680/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/CHANGELOG.md b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 98% rename from data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/CHANGELOG.md rename to data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/CHANGELOG.md index 783d3420..e31de8b0 100644 --- a/data_output/nextstrain/flu/h3n2/ha/CY163680/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/README.md b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/README.md rename to data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/dataset.zip b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/dataset.zip rename to data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/dataset.zip index 82878bce..4fa38d33 100644 Binary files a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/dataset.zip and b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/genome_annotation.gff3 b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/pathogen.json b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/pathogen.json similarity index 98% rename from data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/pathogen.json rename to data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/pathogen.json index 031f1401..0572f0bc 100644 --- a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/pathogen.json +++ b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/pathogen.json @@ -165,7 +165,8 @@ "reference name": "A/Darwin/6/2021" }, "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/reference.fasta b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/reference.fasta rename to data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/sequences.fasta b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/sequences.fasta rename to data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/tree.json b/data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/flu/h3n2/ha/EPI1857216/unreleased/tree.json rename to data_output/nextstrain/flu/h3n2/ha/EPI1857216/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/CHANGELOG.md b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 98% rename from data_output/nextstrain/flu/vic/ha/KX058884/unreleased/CHANGELOG.md rename to data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/CHANGELOG.md index 3d532ba3..b77ee54b 100644 --- a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/README.md b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/flu/vic/ha/KX058884/unreleased/README.md rename to data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/dataset.zip b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/flu/vic/ha/KX058884/unreleased/dataset.zip rename to data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/dataset.zip index 7fdabdf4..b5e52c31 100644 Binary files a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/dataset.zip and b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/genome_annotation.gff3 b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/flu/vic/ha/KX058884/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/pathogen.json b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/pathogen.json similarity index 97% rename from data_output/nextstrain/flu/vic/ha/KX058884/unreleased/pathogen.json rename to data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/pathogen.json index 2ac211ed..cf7bb8cc 100644 --- a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/pathogen.json +++ b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/pathogen.json @@ -119,7 +119,8 @@ "reference name": "B/Brisbane/60/2008-egg" }, "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/reference.fasta b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/flu/vic/ha/KX058884/unreleased/reference.fasta rename to data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/sequences.fasta b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/flu/vic/ha/KX058884/unreleased/sequences.fasta rename to data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/flu/vic/ha/KX058884/unreleased/tree.json b/data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/flu/vic/ha/KX058884/unreleased/tree.json rename to data_output/nextstrain/flu/vic/ha/KX058884/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/CHANGELOG.md b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 99% rename from data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/CHANGELOG.md rename to data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/CHANGELOG.md index 4364454c..0236e743 100644 --- a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/README.md b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/README.md rename to data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/dataset.zip b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/dataset.zip rename to data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/dataset.zip index dc97b5e6..c0bebbd1 100644 Binary files a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/dataset.zip and b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/genome_annotation.gff3 b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/pathogen.json b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/pathogen.json similarity index 99% rename from data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/pathogen.json rename to data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/pathogen.json index 0bdab3a3..c72a83e8 100644 --- a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/pathogen.json +++ b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/pathogen.json @@ -2690,7 +2690,8 @@ }, "schemaVersion": "3.0.0", "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/reference.fasta b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/reference.fasta rename to data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/sequences.fasta b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/sequences.fasta rename to data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/tree.json b/data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2.86/unreleased/tree.json rename to data_output/nextstrain/sars-cov-2/BA.2.86/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/CHANGELOG.md b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 99% rename from data_output/nextstrain/sars-cov-2/BA.2/unreleased/CHANGELOG.md rename to data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/CHANGELOG.md index 70fdbfe3..ae135d71 100644 --- a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/README.md b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2/unreleased/README.md rename to data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/dataset.zip b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/sars-cov-2/BA.2/unreleased/dataset.zip rename to data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/dataset.zip index 7b1077d5..44c6ccf0 100644 Binary files a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/dataset.zip and b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/genome_annotation.gff3 b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/pathogen.json b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/pathogen.json similarity index 99% rename from data_output/nextstrain/sars-cov-2/BA.2/unreleased/pathogen.json rename to data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/pathogen.json index 753d0f1b..82cc5320 100644 --- a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/pathogen.json +++ b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/pathogen.json @@ -2690,7 +2690,8 @@ }, "schemaVersion": "3.0.0", "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/reference.fasta b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2/unreleased/reference.fasta rename to data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/sequences.fasta b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2/unreleased/sequences.fasta rename to data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/sars-cov-2/BA.2/unreleased/tree.json b/data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/sars-cov-2/BA.2/unreleased/tree.json rename to data_output/nextstrain/sars-cov-2/BA.2/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/sars-cov-2/XBB/unreleased/CHANGELOG.md b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 99% rename from data_output/nextstrain/sars-cov-2/XBB/unreleased/CHANGELOG.md rename to data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/CHANGELOG.md index 4364454c..0236e743 100644 --- a/data_output/nextstrain/sars-cov-2/XBB/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/sars-cov-2/XBB/unreleased/README.md b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/sars-cov-2/XBB/unreleased/README.md rename to data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/sars-cov-2/XBB/unreleased/dataset.zip b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/sars-cov-2/XBB/unreleased/dataset.zip rename to data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/dataset.zip index f181995b..c1b612be 100644 Binary files a/data_output/nextstrain/sars-cov-2/XBB/unreleased/dataset.zip and b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/sars-cov-2/XBB/unreleased/genome_annotation.gff3 b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/sars-cov-2/XBB/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/sars-cov-2/XBB/unreleased/pathogen.json b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/pathogen.json similarity index 99% rename from data_output/nextstrain/sars-cov-2/XBB/unreleased/pathogen.json rename to data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/pathogen.json index 6b296214..4e020e76 100644 --- a/data_output/nextstrain/sars-cov-2/XBB/unreleased/pathogen.json +++ b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/pathogen.json @@ -2690,7 +2690,8 @@ }, "schemaVersion": "3.0.0", "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/sars-cov-2/XBB/unreleased/reference.fasta b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/XBB/unreleased/reference.fasta rename to data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/sars-cov-2/XBB/unreleased/sequences.fasta b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/XBB/unreleased/sequences.fasta rename to data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/sars-cov-2/XBB/unreleased/tree.json b/data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/sars-cov-2/XBB/unreleased/tree.json rename to data_output/nextstrain/sars-cov-2/XBB/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/CHANGELOG.md b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 99% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/CHANGELOG.md rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/CHANGELOG.md index a7839944..a9eb5adc 100644 --- a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/README.md b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/README.md rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/dataset.zip b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/dataset.zip rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/dataset.zip index c733b81e..fd70441f 100644 Binary files a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/dataset.zip and b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/genome_annotation.gff3 b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/pathogen.json b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/pathogen.json similarity index 99% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/pathogen.json rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/pathogen.json index 7971e503..332ffdac 100644 --- a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/pathogen.json +++ b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/pathogen.json @@ -2690,7 +2690,8 @@ }, "schemaVersion": "3.0.0", "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/reference.fasta b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/reference.fasta rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/sequences.fasta b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/sequences.fasta rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/tree.json b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/unreleased/tree.json rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/orfs/2024-07-03--08-29-55Z/tree.json diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/CHANGELOG.md b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/CHANGELOG.md similarity index 99% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/CHANGELOG.md rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/CHANGELOG.md index 5df63ac6..20db535a 100644 --- a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/CHANGELOG.md +++ b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/CHANGELOG.md @@ -1,4 +1,4 @@ -## Unreleased +## 2024-07-03T08:29:55Z Added configuration of current and recent vaccine strains as 'reference nodes' on the reference tree, against which query sequences can be compared. This feature is in addition to the new 'compare to clade founder' feature, allowing to compare each query sequence to the most ancestral node of a clade or lineage. diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/README.md b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/README.md similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/README.md rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/README.md diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/dataset.zip b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/dataset.zip similarity index 99% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/dataset.zip rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/dataset.zip index bcb2fad9..5ada2059 100644 Binary files a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/dataset.zip and b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/dataset.zip differ diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/genome_annotation.gff3 b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/genome_annotation.gff3 similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/genome_annotation.gff3 rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/genome_annotation.gff3 diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/pathogen.json b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/pathogen.json similarity index 99% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/pathogen.json rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/pathogen.json index 92d60c86..2af74631 100644 --- a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/pathogen.json +++ b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/pathogen.json @@ -2690,7 +2690,8 @@ }, "schemaVersion": "3.0.0", "version": { - "tag": "unreleased", + "updatedAt": "2024-07-03T08:29:55Z", + "tag": "2024-07-03--08-29-55Z", "compatibility": { "cli": "3.0.0-alpha.0", "web": "3.0.0-alpha.0" diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/reference.fasta b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/reference.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/reference.fasta rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/reference.fasta diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/sequences.fasta b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/sequences.fasta similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/sequences.fasta rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/sequences.fasta diff --git a/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/tree.json b/data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/tree.json similarity index 100% rename from data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/unreleased/tree.json rename to data_output/nextstrain/sars-cov-2/wuhan-hu-1/proteins/2024-07-03--08-29-55Z/tree.json