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Merge pull request #292 from Vizzuality/feature/protected_seas_pipe
Feature/protected seas pipe
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,152 @@ | ||
| import pandas as pd | ||
| import shutil | ||
|
|
||
| from data.src.helpers.utils import downloadFile, rm_tree | ||
| from data.src.pipelines.pipes.utils import define_paths_intermediate | ||
|
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||
|
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| def eez_intermediate(force_clean: bool = True) -> None: | ||
| # Pipe params | ||
| step = "intermediate" | ||
| pipe = "eez" | ||
| # Data sources | ||
| ## EEZ | ||
| EEZ_url = "https://www.marineregions.org/download_file.php" | ||
| EEZ_file_name = "eez_v11.shp" | ||
| EEZ_params = {"name": "World_EEZ_v11_20191118.zip"} | ||
| EEZ_headers = { | ||
| "content-type": "application/x-www-form-urlencoded", | ||
| "cookie": "PHPSESSID=29190501b4503e4b33725cd6bd01e2c6; vliz_webc=vliz_webc2; jwplayer.captionLabel=Off", | ||
| "dnt": "1", | ||
| "origin": "https://www.marineregions.org", | ||
| "sec-fetch-dest": "document", | ||
| "sec-fetch-mode": "navigate", | ||
| "sec-fetch-site": "same-origin", | ||
| "sec-fetch-user": "?1", | ||
| "upgrade-insecure-requests": "1", | ||
| } | ||
|
|
||
| EEZ_body = { | ||
| "name": "Jason", | ||
| "organisation": "skytruth", | ||
| "email": "[email protected]", | ||
| "country": "Spain", | ||
| "user_category": "academia", | ||
| "purpose_category": "Conservation", | ||
| "agree": "1", | ||
| } | ||
|
|
||
| ## High seas | ||
| hs_url = "https://www.marineregions.org/download_file.php" | ||
| hs_file_name = "High_seas_v1.shp" | ||
| hs_params = {"name": "World_High_Seas_v1_20200826.zip"} | ||
| hs_headers = { | ||
| "content-type": "application/x-www-form-urlencoded", | ||
| "cookie": "PHPSESSID=29190501b4503e4b33725cd6bd01e2c6; vliz_webc=vliz_webc2; jwplayer.captionLabel=Off", | ||
| "dnt": "1", | ||
| "origin": "https://www.marineregions.org", | ||
| "sec-fetch-dest": "document", | ||
| "sec-fetch-mode": "navigate", | ||
| "sec-fetch-site": "same-origin", | ||
| "sec-fetch-user": "?1", | ||
| "upgrade-insecure-requests": "1", | ||
| } | ||
| hs_body = { | ||
| "name": "Jason", | ||
| "organisation": "skytruth", | ||
| "email": "[email protected]", | ||
| "country": "Spain", | ||
| "user_category": "academia", | ||
| "purpose_category": "Conservation", | ||
| "agree": "1", | ||
| } | ||
| input_path, temp_working_path, output_path, output_file, zipped_output_file, remote_path = ( | ||
| define_paths_intermediate(pipe, step) | ||
| ) | ||
|
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||
| # Extract data | ||
| ## download files EEZ & High seas | ||
| downloadFile( | ||
| EEZ_url, | ||
| input_path, | ||
| EEZ_body, | ||
| EEZ_params, | ||
| EEZ_headers, | ||
| overwrite=force_clean, | ||
| ) | ||
| downloadFile(hs_url, input_path, hs_body, hs_params, hs_headers, overwrite=force_clean) | ||
| ## unzip file if needed & load data | ||
| unziped_folders = [] | ||
| for idx, path in enumerate(input_path.glob("*.zip")): | ||
| unziped_folder = temp_working_path.joinpath(path.stem) | ||
| print(unziped_folder) | ||
|
|
||
| if unziped_folder.exists() and force_clean: | ||
| rm_tree(unziped_folder) | ||
|
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| shutil.unpack_archive(path, unziped_folder.parent if idx == 0 else unziped_folder) | ||
|
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| files = [ | ||
| gpd.read_file(file) | ||
| for file in unziped_folder.rglob("*.shp") | ||
| if "boundaries" not in file.stem | ||
| ] | ||
| unziped_folders.append(pd.concat(files)) | ||
|
|
||
| # Transform data | ||
| ## set the same structure for both datasets updating the high seas one | ||
| unziped_folders[1] = ( | ||
| unziped_folders[1] | ||
| .rename( | ||
| columns={"name": "GEONAME", "area_km2": "AREA_KM2", "mrgid": "MRGID"}, | ||
| ) | ||
| .assign( | ||
| POL_TYPE="High Seas", | ||
| ISO_SOV1="ABNJ", | ||
| ) | ||
| ) | ||
|
|
||
| # merge datasets | ||
| df = pd.concat(unziped_folders, ignore_index=True) | ||
|
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||
| df.drop( | ||
| columns=list( | ||
| set(df.columns) | ||
| - set( | ||
| [ | ||
| "MRGID", | ||
| "GEONAME", | ||
| "POL_TYPE", | ||
| "ISO_SOV1", | ||
| "ISO_SOV2", | ||
| "ISO_SOV3", | ||
| "AREA_KM2", | ||
| "geometry", | ||
| ] | ||
| ) | ||
| ), | ||
| inplace=True, | ||
| ) | ||
|
|
||
| # save data | ||
| gpd.GeoDataFrame( | ||
| df, | ||
| crs=unziped_folders[0].crs, | ||
| ).to_file(filename=output_file.as_posix(), driver="ESRI Shapefile") | ||
|
|
||
| # zip data | ||
| make_archive(output_path, zipped_output_file) | ||
|
|
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| # clean unzipped files | ||
| rm_tree(temp_working_path) if temp_working_path.exists() else None | ||
| rm_tree(output_path) if output_path.exists() else None | ||
|
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| # LOAD | ||
| ## load zipped file to GCS | ||
| writeReadGCP( | ||
| credentials=mysettings.GCS_KEYFILE_JSON, | ||
| bucket_name=mysettings.GCS_BUCKET, | ||
| blob_name=remote_path, | ||
| file=zipped_output_file, | ||
| operation="w", | ||
| ) |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,13 @@ | ||
| from data.src.helpers.file_handler import FileConventionHandler | ||
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| def define_paths_intermediate(pipe: str, step: str): | ||
| working_folder = FileConventionHandler(pipe) | ||
| input_path = working_folder.pipe_raw_path | ||
| temp_working_path = working_folder.get_temp_file_path(step) | ||
|
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| output_path = working_folder.get_processed_step_path(step) | ||
| output_file = working_folder.get_step_fmt_file_path(step, "shp") | ||
| zipped_output_file = working_folder.get_step_fmt_file_path(step, "zip", True) | ||
| remote_path = working_folder.get_remote_path(step) | ||
| return input_path, temp_working_path, output_path, output_file, zipped_output_file, remote_path |