diff --git a/config/config.yaml b/config/config.yaml index 47f3faf..ccf15a6 100644 --- a/config/config.yaml +++ b/config/config.yaml @@ -7,6 +7,7 @@ variant_classifications: - pango_lineages geo_resolutions: - global + - usa # Params for the prepare data scripts # Define params for each data_provenance / variant_classification / geo_resolution combination @@ -24,11 +25,11 @@ prepare_data: usa: included_days: 150 location_min_seq: 90 - location_min_seq_days: 60 + location_min_seq_days: 150 excluded_locations: "defaults/usa_excluded_locations.txt" prune_seq_days: 12 clade_min_seq: 50 - clade_min_seq_days: 100 + clade_min_seq_days: 150 pango_lineages: global: included_days: 150 @@ -41,7 +42,7 @@ prepare_data: usa: included_days: 150 location_min_seq: 90 - location_min_seq_days: 60 + location_min_seq_days: 150 excluded_locations: "defaults/usa_excluded_locations.txt" prune_seq_days: 12 clade_min_seq: 1 @@ -59,7 +60,7 @@ prepare_data: usa: included_days: 150 location_min_seq: 80 - location_min_seq_days: 30 + location_min_seq_days: 150 excluded_locations: "defaults/usa_excluded_locations.txt" prune_seq_days: 12 clade_min_seq: 500 @@ -76,7 +77,7 @@ prepare_data: usa: included_days: 150 location_min_seq: 80 - location_min_seq_days: 30 + location_min_seq_days: 150 excluded_locations: "defaults/usa_excluded_locations.txt" prune_seq_days: 12 clade_min_seq: 1 @@ -89,16 +90,24 @@ models: nextstrain_clades: global: pivot: "24A" + usa: + pivot: "24A" pango_lineages: global: pivot: "JN.1" + usa: + pivot: "JN.1" open: nextstrain_clades: global: pivot: "24A" + usa: + pivot: "24A" pango_lineages: global: pivot: "JN.1" + usa: + pivot: "JN.1" # Model configs mlr_config: "config/mlr-config.yaml" @@ -163,3 +172,9 @@ clade_definitions: display_name: "other" defining_lineage: False color: '#777777' + +# param for sending forecast output to public s3 bucket +# if true, will send to public s3 bucket, +# and the website will automatically be updated. +# the s3 bucket is configured as an environment variable. +send_sfa_forecast_to_s3: True