From c82db0a029ca32cfef899ccdcca292af5daf39b8 Mon Sep 17 00:00:00 2001 From: Daniel Hardesty Lewis Date: Tue, 5 Oct 2021 12:35:33 -0500 Subject: [PATCH] updated documentation --- docs/build/doctrees/dem2basin.doctree | Bin 213223 -> 3964 bytes docs/build/doctrees/environment.pickle | Bin 33497 -> 18384 bytes docs/build/html/dem2basin.html | 634 +------------------------ docs/build/html/genindex.html | 313 +----------- docs/build/html/index.html | 4 +- docs/build/html/modules.html | 4 +- docs/build/html/objects.inv | Bin 1019 -> 317 bytes docs/build/html/py-modindex.html | 17 +- docs/build/html/searchindex.js | 2 +- 9 files changed, 17 insertions(+), 957 deletions(-) diff --git a/docs/build/doctrees/dem2basin.doctree b/docs/build/doctrees/dem2basin.doctree index f2996f4c2b8fdba0f8eb66f60ee54b5a275668a1..6caaf4905ce9ef445854cb486b214e228bb64bc0 100644 GIT binary patch delta 358 zcmaFf$oof*t$}4~AwR=Lwz*7`FEDaXzQiOm`7~3$Mq-A1?G%j+#n>r5QYopqMoEdq 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Sw`Fk>78gA7Pobu(&Ho1*0l&cj diff --git a/docs/build/html/dem2basin.html b/docs/build/html/dem2basin.html index d1fa05b..221141a 100644 --- a/docs/build/html/dem2basin.html +++ b/docs/build/html/dem2basin.html @@ -37,633 +37,11 @@

dem2basin package

Submodules

-
-

dem2basin.dem2basin module

-
-
-class dem2basin.dem2basin.ExceptionWrapper(ee)
-

Bases: object

-
-
-re_raise()
-
- -
- -
-
-class dem2basin.dem2basin.FathomIndex(hucs=None, fathom_availability_file=None, fathom_parent_directory=None)
-

Bases: object

-

Georeference Fathom 3m raster dataset, with option to associate by HUC

-
-
-index_fathom_files(fathom_parent_directory, hucs=None, availability_file=None, new_availability_file=None, drop_index_columns=True)
-
- -
- -
-
-class dem2basin.dem2basin.LidarIndex(hucs=None, lidar_availability_file=None, lidar_parent_directory=None)
-

Bases: object

-

Georeference TNRIS LIDAR 1m raster dataset

-
-
-index_lidar_files(hucs, lidar_availability_file, lidar_parent_directory, drop_index_columns=True)
-
- -
- -
-
-class dem2basin.dem2basin.TaskProcessor(n_cores, max_b, tempdir, percent_free_mem, percent_free_disk, return_dict, tasks)
-

Bases: threading.Thread

-

Processor class which monitors memory usage for running tasks (processes). -Suspends execution for tasks surpassing max_b and completes them one -by one, after behaving tasks have finished.

-
-
-run()
-

Main-function in new thread.

-
- -
- -
-
-dem2basin.dem2basin.argparser()
-

Parses command-line arguments for dem2basin run as a script

-
-
Returns
-

ArgumentParser.parse_args object for dem2basin

-
-
Return type
-

parser.parse_args

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-
-
- -
-
-dem2basin.dem2basin.build_vrt(filenames, vrt_filename, lowest_resolution=False)
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- -
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-dem2basin.dem2basin.build_vrts(lidar_index, vrt_filename_template, lowest_resolution=False)
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- -
-
-dem2basin.dem2basin.clip_geodataframe_by_attribute(geodataframe, geodataframe_with_attribute, attribute=None)
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-
assign attribute from one geodataframe to another

by their mutual index values

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-
-
- -
-
-dem2basin.dem2basin.close_rasters(raster, delete_rasters=False)
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- -
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-dem2basin.dem2basin.count_lidar_projects_in_lidar_index(lidar_index_by_huc)
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- -
-
-dem2basin.dem2basin.crop_and_convert_large_vector_file(filename, converted_filename, meta=None, bounding_box=None)
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- -
-
-dem2basin.dem2basin.delete_file(filename)
-

deletes a file in all versions of Python

-
- -
-
-dem2basin.dem2basin.extend_lidar_index(lidar_index, raster, vrt_filename)
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- -
-
-dem2basin.dem2basin.find_common_utm(shape_original)
-
-
determines the mode of the UTMs of the representative points of a

geodataframe’s geometries

-
-
-
- -
-
-dem2basin.dem2basin.find_huc_level(shape_original)
-

returns a geodataframe with its index set to its HUC column

-
-
Parameters
-

shape_original (geopandas.GeoDataFrame) – geopandas.GeoDataFrame with a column -named “HUC[0-9]*”

-
-
Returns
-

string of name of first column found matching “HUC[0-9]*”

-
-
Return type
-

str

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-
-
- -
-
-dem2basin.dem2basin.find_utm(gdf_original, select_utm=None)
-

finds a single UTM CRS best suited for the geometries of a geodataframe

-
- -
-
-dem2basin.dem2basin.get_catchments_by_huc(hucs, nhd_input, flowline_representative_points)
-

assigns HUCs to NHD catchments

-
- -
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-dem2basin.dem2basin.get_data_polygon_for_raster(raster_filename)
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- -
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-dem2basin.dem2basin.get_data_polygons_for_each_raster(raster_filelist)
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- -
-
-dem2basin.dem2basin.get_dataframes_with_elements_in_column(dataframes, elements, column='HUC')
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- -
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-dem2basin.dem2basin.get_filelist_from_parent_directory(parent_directory)
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- -
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-dem2basin.dem2basin.get_flowlines_and_catchments_by_shape(shape_input, hucs_input, nhd_input, reproject=True)
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- -
-
-dem2basin.dem2basin.get_flowlines_and_representative_points_by_huc(hucs, nhd_input)
-

Attributes HUCs to flowlines based on each flowline’s representative point

-

Assumes National Hydrography Dataset (NHD) vector image inputs for flowlines -HUCs are assumed to be derived from the Watershed Boundary Dataset (WBD),

-
-

and must have a column labelled HUC*, -for example HUC12 or HUC8

-
-
-
Parameters
-
    -

  • hucs (gpd.GeoDataFrame) – HUCs geodataframe, -with column labelled HUC*, such as HUC12 or HUC8

    • -

  • nhd_input (Union[str, gpd.GeoDataFrame]) – NHD Flowline vector image filename or geodataframe

    • -
-
-
Returns
-

Tuple of -flowlines geodataframe and flowlines representative points geodataframe, -both assigned a HUC attribute

-
-
Return type
-

tuple

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-
-
- -
-
-dem2basin.dem2basin.get_hucs_by_shape(shape_input, hucs_input, hucs_layer=None, sort=True, select_utm=None, to_utm=True, drop_index_columns=True)
-

finds HUCs that intersect a study area given as a vector image

-
-
Parameters
-
    -

  • shape_input (Union[str,geopandas.GeoDataFrame]) – filename or geopandas.GeoDataFrame input vector image -of area of interest

    • -

  • hucs_input (Union[str,geopandas.GeoDataFrame]) – filename or geopandas.GeoDataFrame Watershed Boundary -Dataset (WBD) input vector image with a column named “HUC[0-9]*”

    • -

  • hucs_layer (str) – optional name of HUC layer, -for example “HUC12”, “HUC8”, “HUC6”, “HUC4”, etc. Defaults to None.

    • -

  • sort (bool) – boolean to sort output by HUC ID

    • -

  • select_utm (int) – integer for UTM zone to explicitly select. -Defaults to None.

    • -

  • to_utm (bool) – boolean to reproject to UTM or not. Defaults to True.

    • -

  • drop_index_columns (bool) – boolean to drop columns named ‘index’, -‘index_left’, ‘index_right’ from output. Defaults to True.

    • -
-
-
Returns
-

geopandas.GeoDataFrame of HUCs that cover area of interest

-
-
Return type
-

geopandas.GeoDataFrame

-
-
-
- -
-
-dem2basin.dem2basin.get_hucs_from_catchments(catchments)
-

dissolves NHD catchments into HUC equivalents

-
- -
-
-dem2basin.dem2basin.get_lidar_intermediate_vectors(shape_input, hucs_input, nhd_input, lidar_availability_input=None, lidar_parent_directory=None, new_lidar_availability_file=None, reproject=True)
-
- -
-
-dem2basin.dem2basin.get_merged_column(column, dataframes, sort=True)
-

returns the mutual elements of an identically names column in multiple dataframes

-
- -
-
-dem2basin.dem2basin.get_mosaic(lidar_index, huc_id, dst_crs, subdirectory, memoryfile=False, log=None, temporary_dir=None, temporary_dir_for_each_huc=False, lowest_resolution=True)
-
- -
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-dem2basin.dem2basin.get_mosaic_and_output_raster(lidar_index_by_huc, huc, output_raster_filename, parent_temporary_directory, skip_existing=True)
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- -
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-dem2basin.dem2basin.get_mosaic_dev(lidar_index, vrt_options, directory)
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- -
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-dem2basin.dem2basin.get_mutual_column_elements_of_dataframes(dataframes, column='HUC')
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- -
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-dem2basin.dem2basin.get_nhd_by_shape(shape, nhd_input, layer=None, drop_index_columns=True, comid_column=None, fix_invalid_geometries=False)
-

retrieves specific NHD layer masked by another geodataframe

-
-
Parameters
-
    -

  • shape (geopandas.GeoDataFrame) – geopandas.GeoDataFrame of vector image area of interest

    • -

  • nhd_input (Union[str,geopandas.GeoDataFrame]) – filename or geopandas.GeoDataFrame input of -National Hydrography Dataset Medium Resolution (NHD MR) vector image

    • -

  • layer (str) – name of NHD MR layer, for example ‘Catchment’ or ‘Flowline’. -Default is None.

    • -

  • drop_index_columns (bool) – boolean whether to drop columns named ‘index’, -‘index_left’, ‘index_right’ from the output. Default is True.

    • -

  • comid_column (str) – column name of the COMID attribute in NHD MR, -for example ‘COMID’ or ‘FEATUREID’. Default is None.

    • -

  • fix_invalid_geometries (bool) – boolean to fix invalid geometries in output. -Default is False.

    • -
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Returns
-

geopandas.GeoDataFrame of NHD MR layer that covers the area of -interest and has been re-indexed by COMID

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Return type
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geopandas.GeoDataFrame

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-
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- -
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-dem2basin.dem2basin.get_representative_points(flowlines, hucs, drop_index_columns=True, set_index_to_comid=False)
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retrieve representative points of flowlines and assign HUCs to these points

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Parameters
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    -

  • shape (geopandas.GeoDataFrame) – geopandas.GeoDataFrame of NHD flowlines, possibly with ‘COMID’ -column

    • -

  • hucs (geopandas.GeoDataFrame) – geopandas.GeoDataFrame of HUCs with column named ‘HUC’

    • -

  • drop_index_columns (bool) – boolean whether to drop columns named ‘index’, -‘index_left’, ‘index_right’. Default is True.

    • -

  • set_index_to_comid (bool) – boolean whether to set index to COMID column. -Default is False.

    • -
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Returns
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geopandas.GeoDataFrame of representative points of each flowline

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Return type
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geopandas.GeoDataFrame

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- -
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-dem2basin.dem2basin.index_dataframe_by_dataframe(dataframe_left, dataframe_right)
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indexes a dataframe by another dataframe

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Parameters
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    -

  • dataframe_left (pandas.DataFrame) – pandas.DataFrame of which certain index values will -be selected

    • -

  • dataframe_right (pandas.DataFrame) – pandas.DataFrame whose index will be selected -against

    • -
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Returns
-

pandas.DataFrame after index has been selected from index values of -other pandas.DataFrame

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Return type
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pandas.DataFrame

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- -
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-dem2basin.dem2basin.main()
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- -
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-dem2basin.dem2basin.make_directories_and_error_files(directory, output_prefix, huc_id)
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- -
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-dem2basin.dem2basin.make_parent_directories(filenames)
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- -
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-dem2basin.dem2basin.mask_raster_dev(raster, meta, mask_geometry, memoryfile=False)
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- -
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-dem2basin.dem2basin.output_files(arguments, return_dict)
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- -
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-dem2basin.dem2basin.output_raster(hu_buff, mosaic, out_meta, raster_filename, tempdir, huc_id, memoryfile=False)
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- -
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-dem2basin.dem2basin.pickle_multiple_objects(pickle_file, objects)
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- -
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-dem2basin.dem2basin.read_file_or_gdf(shape_input, **kwargs)
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enables functions to take either filenames or geodataframes as inputs

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Parameters
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    -

  • shape_input (Union[str,geopandas.GeoDataFrame]) – filename or geopandas.GeoDataFrame for more flexible -function input

    • -

  • **kwargs –

    keyword arguments for geopandas.read_file

    -

    • -
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Returns
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geopandas.GeoDataFrame for filename

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Return type
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geopandas.GeoDataFrame

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- -
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-dem2basin.dem2basin.reproject_and_buffer(gdf_original, crs, meters_buffered=500.0)
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reprojects geodataframe to a CRS and then buffers it

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- -
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-dem2basin.dem2basin.reproject_append(fp, dst_crs, memoryfile_dict, mosaic_metadata, subdirectory, memoryfile=False)
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- -
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-dem2basin.dem2basin.reproject_raster(filename, reprojected_filename, raster_mask_filename=None, dst_crs=None)
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- -
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-dem2basin.dem2basin.reproject_rasters(filenames, reprojected_filenames, dst_crs=None)
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- -
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-dem2basin.dem2basin.reproject_to_utm_and_buffer(gdf_original, select_utm=None)
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finds best UTM for a geodataframe, reprojects, and then buffers it

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- -
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-dem2basin.dem2basin.set_and_sort_index(dataframe, column, drop=True)
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sets a pandas dataframe’s index to column and sorts by that column

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Parameters
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    -

  • dataframe (pandas.DataFrame) – pandas.DataFrame whose index will be set to column and -then sorted by that new index

    • -

  • column (str) – column name which will be the new index of this -pandas.DataFrame

    • -

  • drop (bool) – boolean whether to drop original column the index -is being set to. Defaults to True.

    • -
-
-
Returns
-

pandas.DataFrame with index set to column attribute and sorted by -that new index

-
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Return type
-

pandas.DataFrame

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-
-
- -
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-dem2basin.dem2basin.set_index_to_huc(shape_original, sort=True)
-
-
find HUC attribute of geopandas.GeoDataFrame and sets the index of this

geopandas.GeoDataFrame to that attribute

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-
-
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Parameters
-
    -

  • shape_original (geopandas.GeoDataFrame) – geopandas.GeoDataFrame with a column -named “HUC[0-9]*”

    • -

  • sort (bool) – boolean to sort or not sort the geopandas.GeoDataFrame. -Defaults to True.

    • -
-
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Returns
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geopandas.GeoDataFrame with index set to HUC attribute

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Return type
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geopandas.GeoDataFrame

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-
-
- -
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-dem2basin.dem2basin.set_roughness_by_streamorder(flowlines_original, streamorder_col='StreamOrde', roughness_col='Roughness')
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assign Manning’s n roughness value by each flowline’s stream order

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-
Parameters
-
    -

  • flowlines_original (geopandas.GeoDataFrame) – geopandas.GeoDataFrame of flowlines with a -stream order column attribute

    • -

  • streamorder_col (str) – column name of stream order attribute

    • -

  • roughness_col (str) – column name of Manning’s n roughness attribute

    • -
-
-
Returns
-

geopandas.GeoDataFrame of flowlines with the Manning’s n roughness -column set by stream order

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Return type
-

geopandas.GeoDataFrame

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-
-
- -
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-dem2basin.dem2basin.skip_function_if_file_exists(function, filename, skip_existing=True)
-

wrapper to skip a particular step in a workflow if a file already exists

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- -
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-dem2basin.dem2basin.sort_values(column, geodataframes)
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- -
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-dem2basin.dem2basin.to_crs(crs, geodataframes)
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reprojects multiples geodataframes simultaneously

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- -
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-dem2basin.dem2basin.try_except_for_huc(function, huc_id)
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- -
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-dem2basin.dem2basin.unpickle_multiple_objects(pickle_file)
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- -
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-dem2basin.dem2basin.write_error_file_and_print_message(filename, message)
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- -
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-dem2basin.dem2basin.write_geodataframe(shapefile, filename, skip_existing=True, reset_index=True, driver='ESRI Shapefile')
-

write geodataframe to filename or concrete path

-
- -
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-dem2basin.dem2basin.write_roughness_table(roughness_table, filename, skip_existing=True, column=None, sort=True)
-

write Manning’s n roughness table to CSV filename or concrete path

-
- +
+

dem2basin.dem2basin module

-
-

dem2basin.dem2basin_1m_dev module

-

GeoFlood preprocessing 1m DEM data

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-
Returns buffered digital elevation map (DEM) based on NFIE catchments

corresponding with HUC12s encompassing the area of interest

-
-
-

__author__ = “Daniel Hardesty Lewis” -__copyright__ = “Copyright 2020, Daniel Hardesty Lewis” -__credits__ = [“Daniel Hardesty Lewis”] -__license__ = “GPLv3” -__version__ = “1.0.0” -__maintainer__ = “Daniel Hardesty Lewis” -__email__ = “dhl@tacc.utexas.edu” -__status__ = “Production”

-
-
-class dem2basin.dem2basin_1m_dev.ExceptionWrapper(ee)
-

Bases: object

-
-
-re_raise()
-
- -
- -
-
-class dem2basin.dem2basin_1m_dev.TaskProcessor(n_cores, max_b, tasks)
-

Bases: threading.Thread

-

Processor class which monitors memory usage for running tasks (processes). -Suspends execution for tasks surpassing max_b and completes them one -by one, after behaving tasks have finished.

-
-
-run()
-

Main-function in new thread.

-
- -
- -
-
-dem2basin.dem2basin_1m_dev.argparser()
-
- -
-
-dem2basin.dem2basin_1m_dev.available(hucscatchs)
-
- -
-
-dem2basin.dem2basin_1m_dev.buffer(catchs)
-
- -
-
-dem2basin.dem2basin_1m_dev.collect_results(result)
-
- -
-
-dem2basin.dem2basin_1m_dev.flows_catchs()
-
- -
-
-dem2basin.dem2basin_1m_dev.main()
-
- -
-
-dem2basin.dem2basin_1m_dev.output_files(arguments)
-
- +
+

dem2basin.dem2basin_1m_dev module

Module contents

@@ -696,8 +74,8 @@

Navigation

  • dem2basin package
    • diff --git a/docs/build/html/genindex.html b/docs/build/html/genindex.html index 1936646..caa7a25 100644 --- a/docs/build/html/genindex.html +++ b/docs/build/html/genindex.html @@ -34,78 +34,13 @@

    Index

    - A - | B - | C - | D - | E - | F - | G - | I - | L + D | M - | O - | P - | R - | S - | T - | U - | W
    -

    A

    - - - -
    - -

    B

    - - - -
    - -

    C

    - - - -
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    D

    - -
      -
    • - dem2basin.dem2basin - -
      • -
    • - dem2basin.dem2basin_1m_dev - -
      • -
    - -

    E

    - - - -
    - -

    F

    - - - -
    - -

    G

    - - - -
    - -

    I

    - - - -
    - -

    L

    - -

    M

    -
    -

    O

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    - -

    P

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    - -

    R

    - - - -
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    S

    - - - -
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    T

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    - -

    U

    - - -
    - -

    W

    - - - -
    - diff --git a/docs/build/html/index.html b/docs/build/html/index.html index 1acd3d7..85d2400 100644 --- a/docs/build/html/index.html +++ b/docs/build/html/index.html @@ -50,8 +50,8 @@

    Welcome to dem2
  • dem2basin package
    • diff --git a/docs/build/html/modules.html b/docs/build/html/modules.html index cb813ac..b8ca02c 100644 --- a/docs/build/html/modules.html +++ b/docs/build/html/modules.html @@ -39,8 +39,8 @@

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    Python Module Index

    d - + dem2basin - - -     - dem2basin.dem2basin - - - -     - dem2basin.dem2basin_1m_dev - diff --git a/docs/build/html/searchindex.js b/docs/build/html/searchindex.js index 4220210..0c76a7b 100644 --- a/docs/build/html/searchindex.js +++ b/docs/build/html/searchindex.js @@ -1 +1 @@ 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