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On-the-fly operations on geographical maps.

Project description

dask-geomodeling

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Dask-geomodeling is a collection of classes that are to be stacked together to create configurations for on-the-fly operations on geographical maps. By generating Dask compute graphs, these operation may be parallelized and (intermediate) results may be cached.

Multiple Block instances together make a view. Each Block has the get_data method that fetches the data in one go, as well as a get_compute_graph method that creates a graph to compute the data later.

Read the docs for further information.

Changelog of dask-geomodeling

2.1.0 (2019-11-15)

  • Added RasterFileSource.close_dataset to close the GDAL file handle.
  • Run unittests on windows.
  • Adapt safe_abspath and safe_file_url functions: they now automatically interpret the geomodeling.root config instead of the ‘start’ kwarg.
  • Added a geomodeling.strict-file-paths that defaults to False. This changes the default behaviour of all blocks that handle file paths: by default, the path is not required to be in geomodeling.root.
  • Added installation instructions for windows.
  • Improved the ipyleaflet plugin so that it can deal with multiple notebook servers on the same machine. The parameter ‘hostname’ was replaced by ‘url’.

2.0.4 (2019-11-01)

  • Fixed propagation of the ‘extent’ and ‘geometry’ attributes through the raster.Clip. Both now return the intersection of the store and mask rasters.
  • The MemorySource and elementwise blocks now return None for ‘extent’ and ‘geometry’ if they are empty.
  • Preserve functionality of the geometry.Difference block with geopandas 0.6. When taking the difference of a geometry with a missing geometry (A - None), geopandas < 0.6 returned A as result, while >= 0.6 returns None as result.
  • Added default values for RasterFileSource’s time parameters.
  • Implemented the ‘columns’ attribute for GeometryFileSource.
  • Fixed the projection attribute of elementwise raster blocks in case one of the arguments is a number and not a Block instance.
  • Implemented the geo_transform attribute of elementwise raster blocks.
  • Added an ipyleaflet plugin for visualizing RasterBlocks in jupyter notebook.
  • Changed the default geomodeling.root setting to the current working directory

2.0.3 (2019-10-08)

  • Added documentation.
  • Fixed MemorySource incase of a request outside of the data boundary.
  • Fixed multiple bugs in Reclassify and added some tests. The ‘from’ dtype can now be boolean or integer, and the ‘to’ dtype integer or float. The returned dtype is now decided by numpy (int64 or float64).

2.0.2 (2019-09-04)

  • Clean up the .check() method for RasterBlocks.
  • Added a Travisfile testing with against versions since 2017 on Linux and OSX.
  • Took some python 3.5 compatibility measures.
  • Added fix in ParseText block for pandas 0.23.
  • Changed underscores in config to dashes for dask 0.18 compatibility.
  • Constrained dask to >= 0.18, numpy to >= 1.12, pandas to >= 0.19, geopandas to >= 0.4, scipy to >= 0.19.
  • Removed the explicit (py)gdal dependency.

2.0.1 (2019-08-30)

  • Renamed the package to dask-geomodeling.
  • Integrated the settings with dask.config.
  • Added BSD 3-Clause license.

2.0.0 (2019-08-27)

  • Remove raster-store dependency.
  • Removed RasterStoreSource, ThreediResultSource, Result, Interpolate, DeprecatedInterpolate, GeoInterface, and GroupTemporal geoblocks.
  • Removed all django blocks GeoDjangoSource, AddDjangoFields, GeoDjangoSink.
  • Simplified tokenization of Block objects.
  • Implemented construct_multiple to construct multiple blocks at once.
  • Implemented MemorySource and GeoTIFFSource as new raster sources.
  • Add Cumulative geoblock for performing temporal cumulatives.

1.2.13 (2019-08-20)

  • Add TemporalAggregate geoblock for performing temporal aggregates on raster data.
  • Fix raster math geoblocks to not have byte-sized integers ‘wrap around’ when they are added. All integer-types are now at least int32 and all float types at least float32.

1.2.12 (2019-07-30)

  • Made GeoDjangoSource backwards compatible with existing graph definitions.
  • Fix Interpolate wrapper.

1.2.11 (2019-07-19)

  • Added new parameter filters to GeoDjangoSource.

1.2.10 (2019-07-05)

  • Classify block return single series with dtype of labels if labels are floats or integers.

1.2.9 (2019-06-29)

  • Fix bug introduced in tokenization fix.

1.2.8 (2019-06-29)

  • Skip tokenization if a block was already tokenized.

1.2.7 (2019-06-28)

  • Implemented AggregateRasterAboveThreshold.

1.2.6 (2019-06-27)

  • Fix in ParseTextColumn for empty column description.
  • Fix empty dataset case in ClassifyFromColumns.

1.2.5 (2019-06-26)

  • Skip (costly) call to tokenize() when constructing without validation. If a graph was supplied that was generated by geoblocks, the token should be present in the name. If the name has incorrect format, a warning is emitted and tokenize() is called after all.
  • Deal with empty datasets in ClassifyFromColumns.

1.2.4 (2019-06-21)

  • Updated ParseTextColumn: allow spaces in values.

1.2.3 (2019-06-21)

  • Rasterize geoblock has a limit of 10000 geometries.
  • Implemented Choose geoblock for Series.
  • Added the block key in the exception message when construction failed.
  • Added caching to get_compute_graph to speedup graph generation.
  • Improved the documentation.

1.2.2 (2019-06-13)

  • Fix tokenization of a geoblock when constructing with validate=False.
  • The raster requests generated in AggregateRaster have their bbox now snapped to (0, 0) for better reproducibility.

1.2.1 (2019-06-12)

  • Fix bug in geoblocks.geometry.constructive.Buffer that was introduced in 1.2.

1.2 (2019-06-12)

  • Extend geometry.field_operations.Classify for classification outside of the bins. For example, you can now supply 2 bins and 3 labels.
  • Implemented geometry.field_operations.ClassifyFromColumns that takes its bins from columns in a GeometryBlock, so that classification can differ per feature.
  • Extend geometry.base.SetSeriesBlock to setting constant values.
  • Implemented geometry.field_operations.Interp.
  • Implemented geometry.text.ParseTextColumn that parses a text column into multiple value columns.
  • AddDjangoFields converts columns to Categorical dtype automatically if the data is of ‘object’ dtype (e.g. strings). This makes the memory footprint of large text fields much smaller.
  • Make validation of a graph optional when constructing.
  • Use dask.get in construct and compute as to not doubly construct/compute.
  • Fix bug in geoblocks.geometry.constructive.Buffer that changed the compute graph inplace, prohibiting 2 computations of the same graph.

1.1 (2019-06-03)

  • GeoDjangoSink returns a dataframe with the ‘saved’ column indicating whether the save succeeded. IntegrityErrors result in saved=False.
  • Added projection argument to GeometryTiler. The GeometryTiler only accepts requests that have a projection equal to the tiling projection.
  • Raise a RuntimeError if the amount of returned geometries by GeoDjangoSource exceeds the GEOMETRY_LIMIT setting.
  • Added auto_pixel_size argument to geometry.AggregateRaster. If this is False, the process raises a RuntimeError when the required raster exceeds the max_size argument.
  • If max_size in the geometry.AggregateRaster is None, it defaults to the global RASTER_LIMIT setting.
  • Remove the index_field_name argument in GeoDjangoSource, instead obtain it automatically from model._meta.pk.name. The index can be added as a normal column by including it in ‘fields’.
  • Change the default behaviour of ‘fields’ in GeoDjangoSource: if not given, no extra fields are included. Also start and end field names are not included.
  • Added the ‘columns’ attribute to all geometry blocks except for the GeometryFileSource.
  • Added tests for SetSeriesBlock and GetSeriesBlock.
  • Added check that column exist in GetSeriesBlock, AddDjangoFields and GeoDjangoSink.
  • Implemented Round geoblock for Series.
  • Fixed AggregateRaster when aggregating in a different projection than the request projection.
  • Allow GeometryTiler to tile in a different projection than the request geometry is using.

1.0 (2019-05-09)

  • Improved GeoDjangoSink docstring + fixed bug.
  • Bug fix in GeoInterface for handling inf values.
  • Added Area Geoblock for area calculation in Geometry blocks.
  • Added MergeGeometryBlocks for merge operation between GeoDataFrames.
  • Added GeometryBlock.__getitem__ `and `GeometryBlock.set, getting single columns from and setting multiple columns to a GeometryBlock. Corresponding geoblocks are geometry.GetSeriesBlock and geometry.SetSeriesBlock.
  • Added basic operations for add,`sub`,`mul`,`div`,`truediv`,`floordiv`, mod, eq,`neq`,`ge`,`gt`,`le`,`lt`, and, or, xor and not operation in SeriesBlocks.
  • Documented the request and response protocol for GeometryBlock.
  • Added a tokenizer for shapely geometries, so that GeometryBlock request hashes are deterministic.
  • Added a tokenizer for datetime and timedelta objects.
  • Added geopandas dependency.
  • Removed GeoJSONSource and implemented GeometryFileSource. This new reader has no simplify and intersect functions.
  • Implemented geometry.set_operations.Intersection.
  • Implemented geometry.constructive.Simplify.
  • Adjusted the MockGeometry test class.
  • Reimplemented utils.rasterize_geoseries and fixed raster.Rasterize.
  • Reimplemented geometry.AggregateRaster.
  • Fixed time requests for 3Di Result geoblocks that are outside the range of the dataset
  • Implemented geometry.GeoDjangoSource.
  • Implemented geometry.GeoDjangoSink.
  • Added support for overlapping geometries when aggregating.
  • Increased performance of GeoSeries coordinate transformations.
  • Fixed inconsistent naming of the extent-type geometry response.
  • Consistently return an empty geodataframe in case there are no geometries.
  • Implemented geometry.Difference.
  • Implemented geometry.Classify.
  • Implemented percentile statistic for geometry.AggregateRaster.
  • Implemented geometry.GeometryTiler.
  • Explicitly set the result column name for AggregateRaster (default: ‘agg’).
  • Implemented count statistic for geometry.AggregateRaster.
  • Implemented geometry.AddDjangoFields.
  • Added temporal filtering for Django geometry sources.
  • Allow boolean masks in raster.Clip.
  • Implemented raster.IsData.
  • Implemented geometry.Where and geometry.Mask.
  • Extended raster.Rasterize to rasterize float, int and bool properties.
  • Fixed bug in Rasterize that set ‘min_size’ wrong.

0.6 (2019-01-18)

  • Coerce the geo_transform to a list of floats in the raster.Interpolate, preventing TypeErrors in case it consists of decimal.Decimal objects.

0.5 (2019-01-14)

  • Adapted path URLs to absolute paths in RasterStoreSource, GeoJSONSource, and ThreediResultSource. They still accept paths relative to the one stored in settings.

0.4 (2019-01-11)

  • The ‘store_resolution’ result field of GeoInterface now returns the resolution as integer (in milliseconds) and not as datetime.timedelta.
  • Added metadata fields to Optimizer geoblocks.
  • Propagate the union of the geometries in a Group (and Optimizer) block.
  • Propagate the intersection of the geometries in elementwise blocks.
  • Implement the projection metadata field for all blocks.
  • Fixed the Shift geoblock by storing the time shift in milliseconds instead of a datetime.timedelta, which is not JSON-serializable.

0.3 (2018-12-12)

  • Added geoblocks.raster.Classify.
  • Let the raster.Interpolate block accept the (deprecated) layout kwarg.

0.2 (2018-11-20)

  • Renamed ThreediResultSource path property to hdf5_path and fixed it.

0.1 (2018-11-19)

  • Initial project structure created.
  • Copied graphs.py, tokenize.py, wrappers.py, results.py, interfaces.py, and relevant tests and factories from raster-store.
  • Wrappers are renamed into ‘geoblocks’, which are al subclasses of Block. The wrappers were restructured into submodules core, raster, geometry, and interfaces.
  • The new geoblocks.Block baseclass now provides the infrastructure for a) describing a relational block graph and b) generating compute graphs from a request for usage in parallelized computations.
  • Each element in a relational block graph or compute graph is hashed using the tokenize module from dask which is able to generate unique and deterministic tokens (hashes).
  • Blocks are saved to a new json format (version 2).
  • Every block supports the attributes period, timedelta, extent, dtype, fillvalue, geometry, and geo_transform.
  • The check method is implemented on every block and refreshes the primitives (stores.Store / results.Grid).
  • geoblocks.raster.sources.RasterStoreSource should now be wrapped around a raster_store.stores.Store in order to include it as a datasource inside a graph.
  • Reformatted the code using black code formatter.
  • Implemented GroupTemporal as replacement for multi-store Lizard objects.
  • Adapted GeoInterface to mimic now deprecated lizard_nxt.raster.Raster.
  • Fixed issue with ciso8601 2.*
  • Bumped raster-store dependency to 4.0.0.

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