-
Notifications
You must be signed in to change notification settings - Fork 0
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
- Loading branch information
1 parent
e8b1891
commit c1c2181
Showing
1 changed file
with
51 additions
and
0 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -1,3 +1,54 @@ | ||
# ZarrDatasets | ||
|
||
[![Build Status](https://github.com/JuliaGeo/ZarrDatasets.jl/actions/workflows/CI.yml/badge.svg?branch=main)](https://github.com/JuliaGeo/ZarrDatasets.jl/actions/workflows/CI.yml?query=branch%3Amain) | ||
[![Build Status](https://github.com/JuliaGeo/ZarrDatasets.jl/workflows/CI/badge.svg)](https://github.com/JuliaGeo/ZarrDatasets.jl/actions) | ||
[![codecov.io](http://codecov.io/github/JuliaGeo/ZarrDatasets.jl/coverage.svg?branch=main)](http://app.codecov.io/github/JuliaGeo/ZarrDatasets.jl?branch=main) | ||
[![documentation dev](https://img.shields.io/badge/docs-dev-blue.svg)](https://juliageo.github.io/ZarrDatasets.jl/dev/) | ||
|
||
|
||
ZarrDatasets.jl is a package to read Zarr datasets using the native julia implementation [Zarr.jl](https://github.com/JuliaIO/Zarr.jl) | ||
using the [CommonDataModel.jl](https://github.com/JuliaGeo/CommonDataModel.jl) interface. | ||
|
||
In the following example data from [Copernicus marine service](https://marine.copernicus.eu/) are loaded using `ZarrDatasets` and a subset | ||
is saved as a NetCDF file: | ||
|
||
|
||
```julia | ||
using CommonDataModel: @select | ||
using Dates | ||
using NCDatasets | ||
using STAC | ||
using ZarrDatasets | ||
|
||
# get the data set URL from product_id and dataset_id and the STAC catalog | ||
function copernicus_marine_catalog(product_id,dataset_id, | ||
stac_url = "https://stac.marine.copernicus.eu/metadata/catalog.stac.json", | ||
asset = "timeChunked") | ||
|
||
cat = STAC.Catalog(stac_url); | ||
item_canditates = filter(startswith(dataset_id),keys(cat[product_id].items)) | ||
# use last version per default | ||
dataset_version_id = sort(item_canditates)[end] | ||
item = cat[product_id].items[dataset_version_id] | ||
return href(item.assets[asset]) | ||
end | ||
|
||
product_id = "MEDSEA_MULTIYEAR_PHY_006_004" | ||
dataset_id = "med-cmcc-ssh-rean-d" | ||
|
||
url = copernicus_marine_catalog(product_id,dataset_id) | ||
# surprisingly requesting missing data chunks results in the HTTP error | ||
# code 403 (permission denied) rather than 404 (not found) for the CMEMS server. | ||
ds = ZarrDataset(url,_omitcode=[404,403]); | ||
|
||
# longitude, latitude and time are the coordinate variables defined in the | ||
# zarr dataset | ||
ds_sub = @select(ds, time == DateTime(2001,1,1) | ||
&& 7 <= longitude <= 11 | ||
&& 42.3 <= latitude <= 44.5) | ||
|
||
# save selection as NetCDF file | ||
NCDataset("$(dataset_id)_selection.nc","c") do ds_nc | ||
write(ds_nc,ds_sub) | ||
end | ||
``` |