Skip to content

Commit

Permalink
update catalog
Browse files Browse the repository at this point in the history
  • Loading branch information
github-actions committed Jun 13, 2024
1 parent 9e83430 commit 78bc3ce
Show file tree
Hide file tree
Showing 6 changed files with 900 additions and 20 deletions.
164 changes: 164 additions & 0 deletions catalog/forecasts/aquatics/Daily_Chlorophyll_a/collection.json
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,164 @@
{
"id": "Daily_Chlorophyll_a",
"description": "All models for the Daily_Chlorophyll_a variable. The variable description is as follows: daily mean Chlorophyll-a (ug/L)",
"stac_version": "1.0.0",
"license": "CC0-1.0",
"stac_extensions": [
"https://stac-extensions.github.io/scientific/v1.0.0/schema.json",
"https://stac-extensions.github.io/item-assets/v1.0.0/schema.json",
"https://stac-extensions.github.io/table/v1.2.0/schema.json"
],
"type": "Collection",
"sci:doi": "10.1002/fee.2616",
"sci:publications": {},
"links": [
{
"rel": "item",
"type": "application/json",
"href": "./models/persistenceRW.json"
},
{
"rel": "item",
"type": "application/json",
"href": "./models/USGSHABs1.json"
},
{
"rel": "item",
"type": "application/json",
"href": "./models/climatology.json"
},
{
"rel": "parent",
"type": "application/json",
"href": "../collection.json"
},
{
"rel": "root",
"type": "application/json",
"href": "../collection.json"
},
{
"rel": "self",
"type": "application/json",
"href": "collection.json"
},
{
"rel": "cite-as",
"href": "https://doi.org/10.1002/fee.2616"
},
{
"rel": "about",
"href": "https://projects.ecoforecast.org/usgsrc4cast-docs/",
"type": "text/html",
"title": "EFI-USGS River Chlorophyll Forecasting Challenge Documentation"
},
{
"rel": "describedby",
"href": "https://projects.ecoforecast.org/usgsrc4cast-ci/",
"title": "EFI-USGS River Chlorophyll Forecast Challenge Dashboard",
"type": "text/html"
}
],
"title": "Daily_Chlorophyll_a",
"extent": {
"spatial": {
"bbox": [
[-122.6692, 39.6328, -74.7781, 45.5175]
]
},
"temporal": {
"interval": [
[
"2024-02-07T00:00:00Z",
"2024-07-17T00:00:00Z"
]
]
}
},
"table:columns": [
{
"name": "13 columns",
"type": null,
"description": {}
},
{
"name": "datetime",
"type": "timestamp[us, tz=UTC]",
"description": "datetime of the forecasted value (ISO 8601)"
},
{
"name": "site_id",
"type": "string",
"description": "For forecasts that are not on a spatial grid, use of a site dimension that maps to a more detailed geometry (points, polygons, etc.) is allowable. In general this would be documented in the external metadata (e.g., alook-up table that provides lon and lat)"
},
{
"name": "prediction",
"type": "double",
"description": "predicted value for variable"
},
{
"name": "parameter",
"type": "string",
"description": "ensemble member or distribution parameter"
},
{
"name": "family",
"type": "string",
"description": "For ensembles: “ensemble.” Default value if unspecified for probability distributions: Name of the statistical distribution associated with the reported statistics. The “sample” distribution is synonymous with “ensemble.”For summary statistics: “summary.”"
},
{
"name": "reference_datetime",
"type": "timestamp[us, tz=UTC]",
"description": "datetime that the forecast was initiated (horizon = 0)"
},
{
"name": "pub_datetime",
"type": "timestamp[us, tz=UTC]",
"description": "datetime that forecast was submitted"
},
{
"name": "date",
"type": "date32[day]",
"description": "date of the forecasted value"
},
{
"name": "project_id",
"type": "string",
"description": "unique identifier for the forecast project"
},
{
"name": "duration",
"type": "string",
"description": "temporal duration of forecast (hourly, daily, etc.); follows ISO 8601 duration convention"
},
{
"name": "variable",
"type": "string",
"description": "name of forecasted variable"
},
{
"name": "model_id",
"type": "string",
"description": "unique model identifier"
}
],
"assets": {
"data": {
"href": "s3://anonymous@bio230014-bucket01/challenges/forecasts/parquet/project_id=usgsrc4cast/duration=P1D/variable=chla?endpoint_override=sdsc.osn.xsede.org",
"type": "application/x-parquet",
"title": "Database Access",
"roles": [
"data"
],
"description": "Use `arrow` for remote access to the database. This R code will return results for forecasts of the variable by the specific model .\n\n### R\n\n```{r}\n# Use code below\n\nall_results <- arrow::open_dataset(\"s3://anonymous@bio230014-bucket01/challenges/forecasts/parquet/project_id=usgsrc4cast/duration=P1D/variable=chla?endpoint_override=sdsc.osn.xsede.org\")\ndf <- all_results |> dplyr::collect()\n\n```\n \n\nYou can use dplyr operations before calling `dplyr::collect()` to `summarise`, `select` columns, and/or `filter` rows prior to pulling the data into a local `data.frame`. Reducing the data that is pulled locally will speed up the data download speed and reduce your memory usage.\n\n\n"
},
"thumbnail": {
"href": "https://d9-wret.s3.us-west-2.amazonaws.com/assets/palladium/production/s3fs-public/thumbnails/image/Back-b.jpg",
"type": "image/JPEG",
"roles": [
"thumbnail"
],
"title": "Thumbnail Image"
}
}
}
191 changes: 191 additions & 0 deletions catalog/forecasts/aquatics/Daily_Chlorophyll_a/models/USGSHABs1.json
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,191 @@
{
"stac_version": "1.0.0",
"stac_extensions": [
"https://stac-extensions.github.io/table/v1.2.0/schema.json"
],
"type": "Feature",
"id": "USGSHABs1_chla_P1D_forecast",
"bbox": [
[-122.6692, 39.6328, -74.7781, 45.5175]
],
"geometry": {
"type": "MultiPoint",
"coordinates": [
[-122.6692, 45.5175],
[-122.2974, 44.7538],
[-90.6077, 39.6328],
[-122.5773, 45.3793],
[-74.7781, 40.2217],
[-89.3562, 41.1073],
[-88.984, 41.3248],
[-88.6142, 41.2999],
[-88.2515, 42.31],
[-75.0574, 41.7567]
]
},
"properties": {
"title": "USGSHABs1",
"description": "All forecasts for the Daily_Chlorophyll_a variable for the USGSHABs1 model. Information for the model is provided as follows: Uses the randomForest::randomForest() R package model to train site-specific models for predicting river chl-a. Uses ensemble Kalman filter to adjust predicted chl-a states..\n The model predicts this variable at the following sites: USGS-14211720, USGS-14181500, USGS-05586300, USGS-14211010, USGS-01463500, USGS-05558300, USGS-05553700, USGS-05543010, USGS-05549500, USGS-01427510.\n Forecasts are the raw forecasts that includes all ensemble members or distribution parameters. Due to the size of the raw forecasts, we recommend accessing the forecast summaries or scores to analyze forecasts (unless you need the individual ensemble members)",
"start_datetime": "2024-02-13",
"end_datetime": "2024-07-14",
"providers": [
{
"url": "[email protected]",
"name": "Jacob Zwart",
"roles": [
"producer",
"processor",
"licensor"
]
},
{
"url": "https://www.ecoforecastprojectvt.org",
"name": "Ecoforecast Challenge",
"roles": [
"host"
]
}
],
"license": "CC0-1.0",
"keywords": [
"Forecasts",
"usgsrc4cast",
"aquatics",
"USGSHABs1",
"Chlorophyll_a",
"chla",
"Daily",
"P1D",
"USGS-14211720",
"USGS-14181500",
"USGS-05586300",
"USGS-14211010",
"USGS-01463500",
"USGS-05558300",
"USGS-05553700",
"USGS-05543010",
"USGS-05549500",
"USGS-01427510"
],
"table:columns": [
{
"name": "13 columns",
"type": null,
"description": {}
},
{
"name": "datetime",
"type": "timestamp[us, tz=UTC]",
"description": "datetime of the forecasted value (ISO 8601)"
},
{
"name": "site_id",
"type": "string",
"description": "For forecasts that are not on a spatial grid, use of a site dimension that maps to a more detailed geometry (points, polygons, etc.) is allowable. In general this would be documented in the external metadata (e.g., alook-up table that provides lon and lat)"
},
{
"name": "prediction",
"type": "double",
"description": "predicted value for variable"
},
{
"name": "parameter",
"type": "string",
"description": "ensemble member or distribution parameter"
},
{
"name": "family",
"type": "string",
"description": "For ensembles: “ensemble.” Default value if unspecified for probability distributions: Name of the statistical distribution associated with the reported statistics. The “sample” distribution is synonymous with “ensemble.”For summary statistics: “summary.”"
},
{
"name": "reference_datetime",
"type": "timestamp[us, tz=UTC]",
"description": "datetime that the forecast was initiated (horizon = 0)"
},
{
"name": "pub_datetime",
"type": "timestamp[us, tz=UTC]",
"description": "datetime that forecast was submitted"
},
{
"name": "date",
"type": "date32[day]",
"description": "date of the forecasted value"
},
{
"name": "project_id",
"type": "string",
"description": "unique identifier for the forecast project"
},
{
"name": "duration",
"type": "string",
"description": "temporal duration of forecast (hourly, daily, etc.); follows ISO 8601 duration convention"
},
{
"name": "variable",
"type": "string",
"description": "name of forecasted variable"
},
{
"name": "model_id",
"type": "string",
"description": "unique model identifier"
}
]
},
"collection": "forecasts",
"links": [
{
"rel": "collection",
"href": "../collection.json",
"type": "application/json",
"title": "USGSHABs1"
},
{
"rel": "root",
"href": "../../../catalog.json",
"type": "application/json",
"title": "Forecast Catalog"
},
{
"rel": "parent",
"href": "../collection.json",
"type": "application/json",
"title": "USGSHABs1"
},
{
"rel": "self",
"href": "USGSHABs1.json",
"type": "application/json",
"title": "Model Forecast"
},
{
"rel": "item",
"href": "https://code.usgs.gov/wma/proxies/habs/habs-forecast-chl-usgsrc4cast/-/blob/main/2_model/src/chla_models.R?ref_type=heads",
"type": "text/html",
"title": "Link for Model Code"
}
],
"assets": {
"1": {
"type": "application/json",
"title": "Model Metadata",
"href": "https://sdsc.osn.xsede.org/bio230014-bucket01/challenges/metadata/model_id/USGSHABs1.json",
"description": "Use `jsonlite::fromJSON()` to download the model metadata JSON file. This R code will return metadata provided during the model registration.\n \n\n### R\n\n```{r}\n# Use code below\n\nmodel_metadata <- jsonlite::fromJSON(\"https://sdsc.osn.xsede.org/bio230014-bucket01/challenges/metadata/model_id/USGSHABs1.json\")\n\n"
},
"2": {
"type": "text/html",
"title": "Link for Model Code",
"href": "https://code.usgs.gov/wma/proxies/habs/habs-forecast-chl-usgsrc4cast/-/blob/main/2_model/src/chla_models.R?ref_type=heads",
"description": "The link to the model code provided by the model submission team"
},
"3": {
"type": "application/x-parquet",
"title": "Database Access for Daily Chlorophyll_a",
"href": "s3://anonymous@bio230014-bucket01/challenges/forecasts/parquet/project_id=usgsrc4cast/duration=P1D/variable=chla/model_id=USGSHABs1?endpoint_override=sdsc.osn.xsede.org",
"description": "Use `arrow` for remote access to the database. This R code will return results for this variable and model combination.\n\n### R\n\n```{r}\n# Use code below\n\nall_results <- arrow::open_dataset(\"s3://anonymous@bio230014-bucket01/challenges/forecasts/parquet/project_id=usgsrc4cast/duration=P1D/variable=chla/model_id=USGSHABs1?endpoint_override=sdsc.osn.xsede.org\")\ndf <- all_results |> dplyr::collect()\n\n```\n \n\nYou can use dplyr operations before calling `dplyr::collect()` to `summarise`, `select` columns, and/or `filter` rows prior to pulling the data into a local `data.frame`. Reducing the data that is pulled locally will speed up the data download speed and reduce your memory usage.\n\n\n"
}
}
}
Loading

0 comments on commit 78bc3ce

Please sign in to comment.