API Reference

PyGMT is a library for processing geospatial and geophysical data and making publication quality maps and figures. It provides a Pythonic interface for the Generic Mapping Tools (GMT), a command-line program widely used in the Earth Sciences. Besides making GMT more accessible to new users, PyGMT aims to provide integration with the PyData ecosystem as well as support for rich display in Jupyter notebooks.

Main Features

Here are just a few of the things that PyGMT does well:

• Easy handling of individual types of data like Cartesian, geographic, or time-series data.

• Processing of (geo)spatial data including gridding, filtering, and masking

• Allows plotting of a large spectrum of objects on figures including lines, vectors, polygons, and symbols (pre-defined and customized)

• Generate publication-quality illustrations and make animations

Plotting

All plotting is handled through the pygmt.Figure class and its methods.

Figure()

A GMT figure to handle all plotting.

Plotting data and laying out the map:

Figure.basemap(*[, region, projection, …])	Plot base maps and frames for the figure.
Figure.coast(*[, region, projection, …])	Plot continents, shorelines, rivers, and borders on maps
Figure.colorbar(*[, region, projection, …])	Plot a gray or color scale-bar on maps.
Figure.contour([x, y, z, data, annotation, …])	Contour table data by direct triangulation.
Figure.grdcontour(grid, *[, annotation, …])	Convert grids or images to contours and plot them on maps.
Figure.grdimage(grid, *[, img_out, frame, …])	Project and plot grids or images.
Figure.grdview(grid, *[, region, …])	Create 3-D perspective image or surface mesh from a grid.
Figure.histogram(table, *[, horizontal, …])	Plots a histogram, and can read data from a file or list, array, or dataframe.
Figure.image(imagefile, *[, region, …])	Place images or EPS files on maps.
Figure.inset(*[, position, box, margin, …])	Create an inset figure to be placed within a larger figure.
Figure.legend([spec, position, box, region, …])	Plot legends on maps.
Figure.logo(*[, region, projection, …])	Plot the GMT logo.
Figure.meca(spec, scale[, longitude, …])	Plot focal mechanisms.
Figure.plot([x, y, data, size, direction, …])	Plot lines, polygons, and symbols in 2-D.
Figure.plot3d([x, y, z, data, size, …])	Plot lines, polygons, and symbols in 3-D.
Figure.rose([length, azimuth, data, sector, …])	Plot windrose diagrams or polar histograms.
Figure.set_panel([panel, fixedlabel, …])	Set the current subplot panel to plot on.
Figure.shift_origin([xshift, yshift])	Shift plot origin in x and/or y directions.
Figure.solar([terminator, …])	Plot day-light terminators or twilights.
Figure.subplot([nrows, ncols, figsize, …])	Create multi-panel subplot figures.
Figure.text([textfiles, x, y, position, …])	Plot or typeset text strings of variable size, font type, and orientation.
Figure.velo([data, vector, frame, cmap, …])	Plot velocity vectors, crosses, anisotropy bars, and wedges.
Figure.wiggle([x, y, z, data, frame, …])	Plot z=f(x,y) anomalies along tracks.

Color palette table generation:

grd2cpt(grid, *[, transparency, cmap, …])	Make GMT color palette tables from a grid file.
makecpt(*[, transparency, cmap, background, …])	Make GMT color palette tables.

Saving and displaying the figure:

Figure.savefig(fname[, transparent, crop, …])	Save the figure to a file.
Figure.show([dpi, width, method])	Display a preview of the figure.
Figure.psconvert(*[, crop, gs_option, dpi, …])	Convert [E]PS file(s) to other formats.

Configuring the display settings:

set_display([method])

Set the display method.

Data Processing

Operations on tabular data:

blockmean([table, outfile, x, y, z, …])	Block average (x,y,z) data tables by mean estimation.
blockmedian([table, outfile, x, y, z, …])	Block average (x,y,z) data tables by median estimation.
surface([x, y, z, data, spacing, region, …])	Grids table data using adjustable tension continuous curvature splines.

Operations on grids:

grdclip(grid, *[, outgrid, region, above, …])	Sets values in a grid that meet certain criteria to a new value.
grdcut(grid, *[, outgrid, region, …])	Extract subregion from a grid.
grdfill(grid, *[, mode, outgrid, region, …])	Fill blank areas from a grid file.
grdfilter(grid, *[, distance, filter, …])	Filter a grid in the space (or time) domain.
grdlandmask(*[, outgrid, spacing, region, …])	Create a grid file with set values for land and water.
grdgradient(grid, *[, azimuth, direction, …])	Compute the directional derivative of the vector gradient of the data.
grdtrack(points, grid[, newcolname, …])	Sample grids at specified (x,y) locations.

Crossover analysis with x2sys:

x2sys_init(tag, *[, fmtfile, suffix, force, …])	Initialize a new x2sys track database.
x2sys_cross([tracks, outfile, combitable, …])	Calculate crossovers between track data files.

GMT Defaults

Operations on GMT defaults:

config(**kwargs)

Set GMT defaults globally or locally.

Metadata

Getting metadata from tabular or grid data:

GMTDataArrayAccessor(xarray_obj)	This is the GMT extension for xarray.DataArray.
info(table, *[, per_column, spacing, …])	Get information about data tables.
grdinfo(grid, *[, per_column, tiles, …])	Get information about a grid.

Miscellaneous

which(fname, *[, download, verbose])	Find the full path to specified files.
test([doctest, verbose, coverage, figures])	Run the test suite.
print_clib_info()	Print information about the GMT shared library that we can find.
show_versions()	Prints various dependency versions useful when submitting bug reports.

Datasets

PyGMT provides access to GMT’s datasets through the pygmt.datasets package. These functions will download the datasets automatically the first time they are used and store them in the GMT cache folder.

datasets.load_earth_relief([resolution, …])	Load Earth relief grids (topography and bathymetry) in various resolutions.
datasets.load_japan_quakes()	Load a table of earthquakes around Japan as a pandas.DataFrame.
datasets.load_ocean_ridge_points()	Load a table of ocean ridge points for the entire world as a pandas.DataFrame.
datasets.load_sample_bathymetry()	Load a table of ship observations of bathymetry off Baja California as a pandas.DataFrame.
datasets.load_usgs_quakes()	Load a table of global earthquakes form the USGS as a pandas.DataFrame.
datasets.load_fractures_compilation()	Load a table of fracture lengths and azimuths as hypothetically digitized from geological maps as a pandas.DataFrame.

Exceptions

All custom exceptions are derived from pygmt.exceptions.GMTError.

exceptions.GMTError	Base class for all GMT related errors.
exceptions.GMTInvalidInput	Raised when the input of a function/method is invalid.
exceptions.GMTVersionError	Raised when an incompatible version of GMT is being used.
exceptions.GMTOSError	Unsupported operating system.
exceptions.GMTCLibError	Error encountered when running a function from the GMT shared library.
exceptions.GMTCLibNoSessionError	Tried to access GMT API without a currently open GMT session.
exceptions.GMTCLibNotFoundError	Could not find the GMT shared library.

GMT C API

The pygmt.clib package is a wrapper for the GMT C API built using ctypes. Most calls to the C API happen through the pygmt.clib.Session class.

clib.Session()

A GMT API session where most operations involving the C API happen.

GMT modules are executed through the call_module method:

clib.Session.call_module(module, args)

Call a GMT module with the given arguments.

Passing memory blocks between Python data objects (e.g. numpy.ndarray, pandas.Series, xarray.DataArray, etc) and GMT happens through virtual files. These methods are context managers that automate the conversion of Python variables to GMT virtual files:

clib.Session.virtualfile_from_data([…])	Store any data inside a virtual file.
clib.Session.virtualfile_from_matrix(matrix)	Store a 2d array as a table inside a virtual file.
clib.Session.virtualfile_from_vectors(*vectors)	Store 1d arrays as columns of a table inside a virtual file.
clib.Session.virtualfile_from_grid(grid)	Store a grid in a virtual file.

Low level access (these are mostly used by the pygmt.clib package):

clib.Session.create(name)	Create a new GMT C API session.
clib.Session.destroy()	Destroy the currently open GMT API session.
clib.Session.__getitem__(name)	Get the value of a GMT constant (C enum) from gmt_resources.h.
clib.Session.__enter__()	Create a GMT API session and check the libgmt version.
clib.Session.__exit__(exc_type, exc_value, …)	Destroy the currently open GMT API session.
clib.Session.get_default(name)	Get the value of a GMT default parameter (library version, paths, etc).
clib.Session.create_data(family, geometry, …)	Create an empty GMT data container.
clib.Session.put_matrix(dataset, matrix[, pad])	Attach a numpy 2D array to a GMT dataset.
clib.Session.put_strings(dataset, family, …)	Attach a numpy 1D array of dtype str as a column on a GMT dataset.
clib.Session.put_vector(dataset, column, vector)	Attach a numpy 1D array as a column on a GMT dataset.
clib.Session.write_data(family, geometry, …)	Write a GMT data container to a file.
clib.Session.open_virtual_file(family, …)	Open a GMT Virtual File to pass data to and from a module.
clib.Session.extract_region()	Extract the WESN bounding box of the currently active figure.
clib.Session.get_libgmt_func(name[, …])	Get a ctypes function from the libgmt shared library.