gdalParquetAvailable: Check if Parquet GDAL driver is available

In pachterlab/SpatialFeatureExperiment: Integrating SpatialExperiment with Simple Features in sf

Check if Parquet GDAL driver is available

Description

The GeoParquet files for geometries are typically written and read with the sfarrow package, but to add only a select few genes to the SFE object say for visualization purposes, the Parquet GDAL driver is required in order to use GDAL's SQL to query the GeoParquet file to only load the few genes requested. The transcript spots from a large dataset can take up a lot of memory if all loaded.

Usage

gdalParquetAvailable()

Details

The Parquet driver has been supported since GDAL 3.5.0. The arrow C++ library must be installed in order to make the Parquet driver available. When arrow is installed, newer versions of GDAL installed from Homebrew (Mac) should have the Parquet driver. For Linux, the binary from apt-get's default repo is 3.4.1 (as of April 2024). To use the Parquet driver, GDAL may need to be installed from source. See script from the geospatial rocker. A Voyager docker container with the Parquet driver will soon be provided.

Value

Logical, indicating whether the Parquet driver is present.

Examples

gdalParquetAvailable()

pachterlab/SpatialFeatureExperiment documentation built on May 17, 2024, 12:24 a.m.