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[TheiaCoV] Update nextclade dataset tag for H5N1 to the latest version (
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Michal-Babins authored Dec 6, 2024
1 parent be1247b commit 145188b
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Showing 2 changed files with 2 additions and 2 deletions.
2 changes: 1 addition & 1 deletion docs/workflows/genomic_characterization/theiacov.md
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Expand Up @@ -558,7 +558,7 @@ The `organism_parameters` sub-workflow is the first step in all TheiaCoV workflo
| nextclade_dataset_tag_input | flu | ha | yamagata | `"2024-01-30--16-34-55Z"` | |
| reference_genome | flu | ha | yamagata | `"gs://theiagen-public-files-rp/terra/flu-references/reference_yam_ha.fasta"` | |
| nextclade_dataset_name_input | flu | ha | h5n1 | `"community/moncla-lab/iav-h5/ha/all-clades"` | |
| nextclade_dataset_tag_input | flu | ha | h5n1 | `"2024-05-08--11-39-52Z"` | |
| nextclade_dataset_tag_input | flu | ha | h5n1 | `"2024-12-04--17-05-31Z"` | |
| reference_genome | flu | ha | h5n1 | `"gs://theiagen-public-files-rp/terra/flu-references/reference_h5n1_ha.fasta"` | |
| nextclade_dataset_name_input | flu | na | h1n1 | `"nextstrain/flu/h1n1pdm/na/MW626056"` | |
| nextclade_dataset_tag_input | flu | na | h1n1 | `"2024-11-05--09-19-52Z"` | |
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2 changes: 1 addition & 1 deletion workflows/utilities/wf_organism_parameters.wdl
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Expand Up @@ -158,7 +158,7 @@ workflow organism_parameters {
# H5N1 is a special case where the dataset used is the h5nx all clades dataset
String h5n1_ha_reference = "gs://theiagen-public-files-rp/terra/flu-references/reference_h5n1_ha.fasta"
String h5n1_ha_reference_gbk = "gs://theiagen-public-files-rp/terra/flu-references/reference_h5n1_ha.gb"
String h5n1_ha_nextclade_ds_tag = "2024-05-08--11-39-52Z"
String h5n1_ha_nextclade_ds_tag = "2024-12-04--17-05-31Z"
String h5n1_ha_nextclade_ds_name = "community/moncla-lab/iav-h5/ha/all-clades"
String h5n1_ha_clades_tsv = "gs://theiagen-public-files-rp/terra/flu-references/h5nx-clades.tsv"
String h5n1_ha_auspice_config = "gs://theiagen-public-files-rp/terra/flu-references/auspice_config_h5n1.json"
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