API Reference

This page lists all available functions and classes in OGGM. It is a hard work to keep everything up-to-date, so don’t hesitate to let us know (see Get in touch) if something’s missing, or help us (see Contributing to OGGM) to write a better documentation!

Workflow

Tools to set-up and run OGGM.

cfg.initialize Read the configuration file containing the run’s parameters.
cfg.set_logging_config Set the global logger parameters.
cfg.set_intersects_db Set the glacier intersection database for OGGM to use.
cfg.reset_working_dir Deletes the content of the working directory.
workflow.init_glacier_regions Initializes the list of Glacier Directories for this run.
workflow.execute_entity_task Execute a task on gdirs.
workflow.gis_prepro_tasks Shortcut function: run all flowline preprocessing tasks.
workflow.climate_tasks Shortcut function: run all climate related tasks.
workflow.inversion_tasks Shortcut function: run all ice thickness inversion tasks.
workflow.merge_glacier_tasks Shortcut function: run all tasks to merge tributaries to a main glacier
utils.compile_glacier_statistics Gather as much statistics as possible about a list of glaciers.
utils.compile_run_output Merge the output of the model runs of several gdirs into one file.
utils.compile_climate_input Merge the climate input files in the glacier directories into one file.
utils.compile_task_log Gathers the log output for the selected task(s)
utils.copy_to_basedir Copies the glacier directories and their content to a new location.
utils.gdir_to_tar Writes the content of a glacier directory to a tar file.
utils.base_dir_to_tar Merge the directories into 1000 bundles as tar files.

Troubleshooting

utils.show_versions Prints the OGGM version and other system information.

Input/Output

utils.get_demo_file Returns the path to the desired OGGM-sample-file.
utils.get_rgi_dir Path to the RGI directory.
utils.get_rgi_region_file Path to the RGI region file.
utils.get_rgi_glacier_entities Get a list of glacier outlines selected from their RGI IDs.
utils.get_rgi_intersects_dir Path to the RGI directory containing the intersect files.
utils.get_rgi_intersects_region_file Path to the RGI regional intersect file.
utils.get_rgi_intersects_entities Get a list of glacier intersects selected from their RGI IDs.
utils.get_cru_file Returns a path to the desired CRU baseline climate file.
utils.get_histalp_file Returns a path to the desired HISTALP baseline climate file.
utils.get_ref_mb_glaciers Get the list of glaciers we have valid mass balance measurements for.

Entity tasks

Entity tasks are tasks which are applied on single glaciers individually and do not require information from other glaciers (this encompasses the majority of OGGM’s tasks). They are parallelizable.

tasks.define_glacier_region Very first task: define the glacier’s local grid.
tasks.glacier_masks Makes a gridded mask of the glacier outlines that can be used by OGGM.
tasks.compute_centerlines Compute the centerlines following Kienholz et al., (2014).
tasks.initialize_flowlines Computes more physical Inversion Flowlines from geometrical Centerlines
tasks.compute_downstream_line Computes the Flowline along the unglaciated downstream topography
tasks.compute_downstream_bedshape The bedshape obtained by fitting a parabola to the line’s normals.
tasks.catchment_area Compute the catchment areas of each tributary line.
tasks.catchment_intersections Computes the intersections between the catchments.
tasks.catchment_width_geom Compute geometrical catchment widths for each point of the flowlines.
tasks.catchment_width_correction Corrects for NaNs and inconsistencies in the geometrical widths.
tasks.process_cru_data Processes and writes the CRU baseline climate data for this glacier.
tasks.process_histalp_data Processes and writes the HISTALP baseline climate data for this glacier.
tasks.process_custom_climate_data Processes and writes the climate data from a user-defined climate file.
tasks.process_gcm_data Applies the anomaly method to GCM climate data
tasks.process_cesm_data Processes and writes CESM climate data for this glacier.
tasks.process_cmip5_data Read, process and store the CMIP5 climate data data for this glacier.
tasks.local_t_star Compute the local t* and associated glacier-wide mu*.
tasks.mu_star_calibration Compute the flowlines’ mu* and the associated apparent mass-balance.
tasks.apparent_mb_from_linear_mb Compute apparent mb from a linear mass-balance assumption (for testing).
tasks.glacier_mu_candidates Computes the mu candidates, glacier wide.
tasks.prepare_for_inversion Prepares the data needed for the inversion.
tasks.mass_conservation_inversion Compute the glacier thickness along the flowlines
tasks.filter_inversion_output Filters the last few grid point whilst conserving total volume.
tasks.distribute_thickness_per_altitude Compute a thickness map by redistributing mass along altitudinal bands.
tasks.distribute_thickness_interp Compute a thickness map by interpolating between centerlines and border.
tasks.init_present_time_glacier Merges data from preprocessing tasks.
tasks.run_random_climate Runs the random mass-balance model for a given number of years.
tasks.run_constant_climate Runs the constant mass-balance model for a given number of years.
tasks.run_from_climate_data Runs a glacier with climate input from e.g.

Global tasks

Global tasks are tasks which are run on a set of glaciers (most often: all glaciers in the current run). They are not parallelizable at the user level but might use multiprocessing internally.

tasks.compute_ref_t_stars Detects the best t* for the reference glaciers and writes them to disk
tasks.compile_glacier_statistics Gather as much statistics as possible about a list of glaciers.
tasks.compile_run_output Merge the output of the model runs of several gdirs into one file.
tasks.compile_climate_input Merge the climate input files in the glacier directories into one file.
tasks.compile_task_log Gathers the log output for the selected task(s)

Classes

Listed here are the classes which are relevant at the API level (i.e. classes which are used and re-used across modules and tasks).

GlacierDirectory Organizes read and write access to the glacier’s files.
Centerline A Centerline has geometrical and flow rooting properties.
Flowline Common logic for different types of flowlines used as input to the model

Glacier directories

Glacier directories (see also: GlacierDirectory) are folders on disk which store the input and output data for a single glacier during an OGGM run. The data are on disk to be persistent, i.e. they won’t be deleted unless you ask OGGM to. You can start a run from an existing directory, avoiding to re-do unnecessary computations.

Initialising a glacier directory

The easiest way to initialize a glacier directory is to start from a pre-processed state available on the OGGM servers:

In [1]: import os

In [2]: import oggm

In [3]: from oggm import cfg, workflow

In [4]: from oggm.utils import gettempdir

In [5]: cfg.initialize()  # always initialize before an OGGM task

# The working directory is where OGGM will store the run's data
In [6]: cfg.PATHS['working_dir'] = os.path.join(gettempdir(), 'Docs_GlacierDir')

In [7]: gdirs = workflow.init_glacier_regions('RGI60-11.00897', from_prepro_level=1,
   ...:                                       prepro_border=10)
   ...: 

In [8]: gdir = gdirs[0]  # init_glacier_regions always returns a list

We just downloaded the minimal input for a glacier directory. The GlacierDirectory object contains the glacier metadata:

In [9]: gdir
Out[9]: 
<oggm.GlacierDirectory>
  RGI id: RGI60-11.00897
  Region: 11: Central Europe
  Subregion: 11-01: Alps                            
  Name: Hintereisferner
  Glacier type: Glacier
  Terminus type: Land-terminating
  Area: 8.036 km2
  Lon, Lat: (10.7584, 46.8003)
  Grid (nx, ny): (139, 94)
  Grid (dx, dy): (50.0, -50.0)

In [10]: gdir.rgi_id
Out[10]: 'RGI60-11.00897'

It also points to a specific directory in disk, where the files are written to:

In [11]: gdir.dir
Out[11]: '/tmp/OGGM/Docs_GlacierDir/per_glacier/RGI60-11/RGI60-11.00/RGI60-11.00897'

In [12]: os.listdir(gdir.dir)
Out[12]: 
['dem.tif',
 'diagnostics.json',
 'dem_source.txt',
 'glacier_grid.json',
 'outlines.tar.gz',
 'intersects.tar.gz',
 'log.txt']

Users usually don’t have to care about where the data is located. GlacierDirectory objects help you to get this information:

In [13]: fdem = gdir.get_filepath('dem')

In [14]: fdem
Out[14]: '/tmp/OGGM/Docs_GlacierDir/per_glacier/RGI60-11/RGI60-11.00/RGI60-11.00897/dem.tif'

In [15]: import xarray as xr

In [16]: xr.open_rasterio(fdem).plot(cmap='terrain')
Out[16]: <matplotlib.collections.QuadMesh at 0x7f3653a6c240>
_images/plot_gdir_dem.png

This persistence on disk allows for example to continue a workflow that has been previously interrupted. Initialising a GlacierDirectory from a non-empty folder won’t erase its content:

In [17]: gdir = oggm.GlacierDirectory('RGI60-11.00897')

In [18]: os.listdir(gdir.dir)  # the directory still contains the data
Out[18]: 
['dem.tif',
 'diagnostics.json',
 'dem_source.txt',
 'glacier_grid.json',
 'outlines.tar.gz',
 'intersects.tar.gz',
 'log.txt']

cfg.BASENAMES

This is a list of the files that can be found in the glacier directory or its divides. These data files and their names are standardized and listed in the oggm.cfg module. If you want to implement your own task you’ll have to add an entry to this file too.

calving_loop.csv
A csv file containing the output of each iteration of the find_inversion_calving_loop task loop.
calving_output.pkl
Calving output (deprecated).
catchments_intersects.shp
The intersections between cathments (shapefile) in the local map projection (Transverse Mercator).
centerlines.pkl
A list of oggm.Centerline instances, sorted by flow order.
climate_info.json
Some information (dictionary) about the climate data and the mass balance parameters for this glacier.
climate_monthly.nc
The monthly climate timeseries stored in a netCDF file.
dem.tif
A geotiff file containing the DEM (reprojected into the local grid).This DEM is not smoothed or gap filles, and is the closest to the original DEM source.
dem_source.txt
A text file with the source of the topo file (GIMP, SRTM, …).
diagnostics.json
A dictionary containing runtime diagnostics useful for debugging.
downstream_line.pkl
A dictionary containing the downsteam line geometry as well as the bed shape computed from a parabolic fit.
flowline_catchments.shp
Each flowline has a catchment area computed from flow routing algorithms: this shapefile stores the catchment outlines (in the local map projection (Transverse Mercator).
gcm_data.nc
The monthly GCM climate timeseries stored in a netCDF file.
geometries.pkl
A dictionary containing the shapely.Polygons of a glacier. The “polygon_hr” entry contains the geometry transformed to the local grid in (i, j) coordinates, while the “polygon_pix” entry contains the geometries transformed into the coarse grid (the i, j elements are integers). The “polygon_area” entry contains the area of the polygon as computed by Shapely. The “catchment_indices” entrycontains a list of len n_centerlines, each element containing a numpy array of the indices in the glacier grid which represent the centerlines catchment area.
glacier_grid.json
A salem.Grid handling the georeferencing of the local grid.
glacier_mask.tif
A glacier mask geotiff file with the same extend and projection as the dem.tif. This geotiff has value 1 at glaciated grid points and value 0 at unglaciated points.
gridded_data.nc
A netcdf file containing several gridded data variables such as topography, the glacier masks, the interpolated 2D glacier bed, and more.
hypsometry.csv
A hypsometry file computed by OGGM and provided in the same format as the RGI (useful for diagnostics).
intersects.shp
The glacier intersects in the local map projection (Transverse Mercator).
inversion_flowlines.pkl
A “better” version of the Centerlines, now on a regular spacing i.e., not on the gridded (i, j) indices. The tails of the tributaries are cut out to make more realistic junctions. They are now “1.5D” i.e., with a width.
inversion_input.pkl
List of dicts containing the data needed for the inversion.
inversion_output.pkl
List of dicts containing the output data from the inversion.
inversion_params.pkl
Dict of fs and fd as computed by the inversion optimisation.
linear_mb_params.pkl
When using a linear mass-balance for the inversion, this dict stores the optimal ela_h and grad.
local_mustar.json
A dict containing the glacier’s t*, bias, and the flowlines’ mu*
model_diagnostics.nc
A netcdf file containing the model diagnostics (volume, mass-balance, length…).
model_flowlines.pkl
List of flowlines ready to be run by the model.
model_run.nc
A netcdf file containing enough information to reconstruct the entire flowline glacier along the run (can be data expensive).
outlines.shp
The glacier outlines in the local map projection (Transverse Mercator).
vascaling_mustar.json
A dict containing the glacier’s t*, bias, mu*. Analogous to ‘local_mustar.json’, but for the volume/area scaling model.

Mass-balance

Mass-balance models found in the core.massbalance module.

They follow the MassBalanceModel interface. Here is a quick summary of the units and conventions used by all models:

Units

The computed mass-balance is in units of [m ice s-1] (“meters of ice per second”), unless otherwise specified (e.g. for the utility function get_specific_mb). The conversion from the climatic mass-balance ([kg m-2 s-1] ) therefore assumes an ice density given by cfg.PARAMS['ice_density'] (currently: 900 kg m-3).

Time

The time system used by OGGM is a simple “fraction of year” system, where the floating year can be used for conversion to months and years:

In [19]: from oggm.utils import floatyear_to_date, date_to_floatyear

In [20]: date_to_floatyear(1982, 12)
Out[20]: 1982.9166666666667

In [21]: floatyear_to_date(1.2)
Out[21]: (1, 3)

Interface

MassBalanceModel Common logic for the mass balance models.
MassBalanceModel.get_monthly_mb Monthly mass-balance at given altitude(s) for a moment in time.
MassBalanceModel.get_annual_mb Like self.get_monthly_mb(), but for annual MB.
MassBalanceModel.get_specific_mb Specific mb for this year and a specific glacier geometry.
MassBalanceModel.get_ela Compute the equilibrium line altitude for this year

Models

LinearMassBalance Constant mass-balance as a linear function of altitude.
PastMassBalance Mass balance during the climate data period.
ConstantMassBalance Constant mass-balance during a chosen period.
RandomMassBalance Random shuffle of all MB years within a given time period.
UncertainMassBalance Adding uncertainty to a mass balance model.
MultipleFlowlineMassBalance Handle mass-balance at the glacier level instead of flowline level.

Model Flowlines

Flowlines are what represent a glacier in OGGM. During the preprocessing stage of a glacier simulation these lines evolve from simple topography following lines to more abstract objects within the model.

This chapter provides an overview on the different line types, how to access the model flowlines and their attributes.

Hierarchy

First a short summary of the evolution or the hierarchy of these different flowline stages:

geometrical centerlines
These lines are calculated following the algorithm of Kienholz et al., (2014). They determine where the subsequent flowlines are situated and how many of them are needed for one glacier. The main task for this calculation is compute_centerlines(). These lines are not stored within a specific OGGM class but are stored within the GlacierDirectory as shapely objects.
inversion flowlines
To use the geometrical lines within the model they are transformed to Centerline objects. This is done within initialize_flowlines() where the lines are projected onto a xy-grid with regular spaced line-points. This step also takes care of tributary junctions. These lines are then in a later step also used for the bed inversion, hence their name.
downstream line
This line extends the glacier’s centerline along the unglaciated glacier bed which is necessary for advancing glaciers. This line is calculated along the valley floor to the end of the domain boundary within compute_downstream_line().
model flowlines
The dynamical OGGM model finally uses lines of the class Flowline for all simulations. These flowlines are created by init_present_time_glacier(), which combines information from several preprocessing steps, the downstream line and the bed inversion. From a user prespective, especially if preprocessed directories are used, these model flowlines are the most importent ones and further informations on the class interface and attributes are given below.

Access

The easiest and most common way to access the model flowlines of a glacier is with its GlacierDirectory. For this we initialize a minimal working example including the model flowlines. This is achieved by choosing preprocessing level 4.

In [22]: import os

In [23]: import oggm

In [24]: from oggm import cfg, workflow

In [25]: from oggm.utils import gettempdir

In [26]: cfg.initialize()  # always initialize before an OGGM task

# The working directory is where OGGM will store the run's data
In [27]: cfg.PATHS['working_dir'] = os.path.join(gettempdir(), 'Docs_GlacierDir2')

In [28]: gdirs = workflow.init_glacier_regions('RGI60-11.00897', from_prepro_level=4,
   ....:                                       prepro_border=10)
   ....: 

In [29]: gdir = gdirs[0]  # init_glacier_regions always returns a list

In [30]: fls = gdir.read_pickle('model_flowlines')

In [31]: fls
Out[31]: 
[<oggm.core.flowline.MixedBedFlowline at 0x7f3653cc1828>,
 <oggm.core.flowline.MixedBedFlowline at 0x7f3653481940>,
 <oggm.core.flowline.MixedBedFlowline at 0x7f3653481160>]

In [32]: [fl.order for fl in fls]
Out[32]: [0, 0, 1]

This glacier has three flowlines of type MixedBedFlowline provided as a list. And the flowlines are orderd by ascending Strahler numbers, where the last entry in the list is always the longest and very often most relevant flowline of that glacier.

Type of model flowlines

Flowline Common logic for different types of flowlines used as input to the model
MixedBedFlowline A Flowline which can take a combination of different shapes (default)
ParabolicBedFlowline A parabolic shaped Flowline with one degree of freedom
RectangularBedFlowline Simple shaped Flowline, glacier width does not change with ice thickness
TrapezoidalBedFlowline A Flowline with trapezoidal shape and two degrees of freedom

Important flowline functions

centerlines.initialize_flowlines Computes more physical Inversion Flowlines from geometrical Centerlines
centerlines.compute_centerlines Compute the centerlines following Kienholz et al., (2014).
centerlines.compute_downstream_line Computes the Flowline along the unglaciated downstream topography
flowline.init_present_time_glacier Merges data from preprocessing tasks.