Change log¶

Version 1.9.0.4 ¶

2022-07-18

Upgrade to allow cfdm to work with Python 3.10 (https://github.com/NCAS-CMS/cfdm/issues/187)
Fix bug that caused a hang when reading zero-length files (https://github.com/NCAS-CMS/cfdm/issues/190)
Fix bug to prevent error when writing vlen strings to a netCDF file when compression has been set (for netCDF4>=1.6.0) (https://github.com/NCAS-CMS/cfdm/issues/199)

Version 1.9.0.3 ¶

2022-03-10

Fixed bug that caused a failure from cfdm.write when writing identical (auxiliary) coordinates to different data variables in different groups (https://github.com/NCAS-CMS/cfdm/issues/177)
Fixed bug that caused cf.Domain.__str__ to fail when a dimension coordinate construct does not have data (https://github.com/NCAS-CMS/cfdm/issues/174)
New dependency: packaging>=20.0
Changed dependency: cftime>=1.6.0

Version 1.9.0.2 ¶

2022-01-31

Fixed bug that caused a cfdm.write failure when a vertical coordinate reference construct has no coordinates (https://github.com/NCAS-CMS/cfdm/issues/164)
Fixed bug that caused a failure when downstream identities methods return an itertools.chain object (https://github.com/NCAS-CMS/cfdm/issues/170)

Version 1.9.0.1 ¶

2021-10-12

Fixed bug that prevented some geometry coordinates being written to netCDF CLASSIC files (https://github.com/NCAS-CMS/cfdm/issues/140)
Fixed bug that a caused segmentation fault when appending a string data type to netCDF files (https://github.com/NCAS-CMS/cfdm/issues/155)
Fixed bug in cf.Field.get_domain when there are climatological time axes (https://github.com/NCAS-CMS/cfdm/issues/159)

Version 1.9.0.0 ¶

2021-09-21

Python 3.6 support removed (https://github.com/NCAS-CMS/cfdm/issues/139)
Conversion of cfdm.Domain to a non-abstract that may be read from and written to a netCDF dataset (https://github.com/NCAS-CMS/cfdm/issues/111)
New method: cfdm.Domain.creation_commands
New method: cfdm.Domain.climatological_time_axes
New method: cfdm.AuxiliaryCoordinate.del_climatology
New method: cfdm.AuxiliaryCoordinate.get_climatology
New method: cfdm.AuxiliaryCoordinate.is_climatology
New method: cfdm.AuxiliaryCoordinate.set_climatology
New method: cfdm.DimensionCoordinate.del_climatology
New method: cfdm.DimensionCoordinate.get_climatology
New method: cfdm.DimensionCoordinate.is_climatology
New method: cfdm.DimensionCoordinate.set_climatology
New function: cfdm.unique_constructs
New function: cfdm.example_fields
Construct access API changes from 1.8.9.0 applied to Field.convert
Improved error message for invalid inputs to Field.convert
Raise exception when attempting to write multiply defined coordinate reference parameters (https://github.com/NCAS-CMS/cfdm/issues/148)
Interpret format specifiers for size 1 cfdm.Data arrays (https://github.com/NCAS-CMS/cfdm/issues/152)
Fix file name expansions in cfdm.write (https://github.com/NCAS-CMS/cfdm/issues/157)

Version 1.8.9.0 ¶

2021-05-25

Construct access API changes (https://github.com/NCAS-CMS/cfdm/issues/124, https://github.com/NCAS-CMS/cfdm/issues/130, https://github.com/NCAS-CMS/cfdm/issues/132, https://github.com/NCAS-CMS/cfdm/issues/137)
Performance enhancements (https://github.com/NCAS-CMS/cfdm/issues/124, https://github.com/NCAS-CMS/cfdm/issues/130)
New write mode mode='a' for appending to, rather than over-writing, a netCDF file on disk (https://github.com/NCAS-CMS/cfdm/issues/143)
Better error message in the case of a numpy.ma.core.MaskError occurring upon reading of CDL files with only header or coordinate information (https://github.com/NCAS-CMS/cfdm/issues/128)
Fix for zero-sized unlimited dimensions when read from a grouped netCDF file (https://github.com/NCAS-CMS/cfdm/issues/113)
Fix bug causing occasional non-symmetric equals operations (https://github.com/NCAS-CMS/cfdm/issues/133)
Changed dependency: cftime>=1.5.0
Changed dependency: netCDF4>=1.5.4

Version 1.8.8.0 ¶

2020-12-18

The setting of global constants can now be controlled by a context manager (https://github.com/NCAS-CMS/cfdm/issues/100)
Fixed bug that caused a failure when writing a dataset that contains a scalar domain ancillary construct (https://github.com/NCAS-CMS/cfdm/issues/98)
Changed dependency: cftime>=1.3.0

Version 1.8.7.0 ¶

2020-10-09

Python 3.5 support deprecated (3.5 was retired on 2020-09-13)
New method: cfdm.Field.creation_commands
New method: cfdm.Data.creation_commands
New method: cfdm.Field._docstring_special_substitutions
New method: cfdm.Field._docstring_substitutions
New method: cfdm.Field._docstring_package_depth
New method: cfdm.Field._docstring_method_exclusions
New method: cfdm.Data.filled
New keyword parameter to cfdm.Field.set_data: inplace
New keyword parameter to cfdm.write: coordinates (https://github.com/NCAS-CMS/cfdm/issues/81)
New class: cfdm.core.DocstringRewriteMeta
Comprehensive documentation coverage of class methods.
Improved documentation following JOSS review.
Enabled “creation commands” methods (https://github.com/NCAS-CMS/cfdm/issues/53)
Fixed bug that caused failures when reading or writing a dataset that contains multiple geometry containers (https://github.com/NCAS-CMS/cfdm/issues/65)
Fixed bug that prevented the writing of multiple fields to netCDF when at least one dimension was shared between some of the fields.

Version 1.8.6.0 ¶

2020-07-24

Removed Python 2.7 support (https://github.com/NCAS-CMS/cfdm/issues/55)
Implemented the reading and writing of netCDF4 group hierarchies for CF-1.8 (https://github.com/NCAS-CMS/cfdm/issues/13)
Renamed to lower-case (but otherwise identical) names all functions which get and set global constants: cfdm.atol, cfdm.rtol, cfdm.log_level. The old names e.g. cfdm.ATOL remain functional as aliases.
New function: cfdm.configuration
New method: cfdm.Field.nc_variable_groups
New method: cfdm.Field.nc_set_variable_groups
New method: cfdm.Field.nc_clear_variable_groups
New method: cfdm.Field.nc_group_attributes
New method: cfdm.Field.nc_set_group_attribute
New method: cfdm.Field.nc_set_group_attributes
New method: cfdm.Field.nc_clear_group_attributes
New method: cfdm.Field.nc_geometry_variable_groups
New method: cfdm.Field.nc_set_geometry_variable_groups
New method: cfdm.Field.nc_clear_geometry_variable_groups
New method: cfdm.DomainAxis.nc_dimension_groups
New method: cfdm.DomainAxis.nc_set_dimension_groups
New method: cfdm.DomainAxis.nc_clear_dimension_groups
New method: cfdm.AuxiliaryCoordinate.del_interior_ring
New keyword parameter to cfdm.write: group
Keyword parameter verbose to multiple methods now accepts named strings, not just the equivalent integer levels, to set verbosity.
Added test to check that cell bounds have more dimensions than the data.
Added test to check that dimension coordinate construct data is 1-dimensional.
Fixed bug in cfdm.CompressedArray.to_memory.
Fixed bug that caused an error when a coordinate bounds variable is missing from a dataset (https://github.com/NCAS-CMS/cfdm/issues/63)
New dependency: netcdf_flattener>=1.2.0
Changed dependency: cftime>=1.2.1
Removed dependency: future

Version 1.8.5 ¶

2020-06-10

Fixed bug that prevented the reading of certain netCDF files, such as those with at least one external variable.

Version 1.8.4 ¶

2020-06-08

Added new example field 7 to cfdm.example_field.
Enabled configuration of the extent and nature of informational and warning messages output by cfdm using a logging framework (see points below) (https://github.com/NCAS-CMS/cfdm/issues/31)
New function cfdm.LOG_LEVEL to set the minimum log level for which messages are displayed globally, i.e. to change the project-wide verbosity (https://github.com/NCAS-CMS/cfdm/issues/35).
Changed behaviour and default of verbose keyword argument when available to a function/method so it interfaces with the new logging functionality (https://github.com/NCAS-CMS/cfdm/issues/35).
Changed dependency: cftime>=1.1.3
Fixed bug the wouldn’t allow the reading of a netCDF file which specifies Conventions other than CF (https://github.com/NCAS-CMS/cfdm/issues/36).

Version 1.8.3 ¶

2020-04-30

cfdm.Field.apply_masking now masks metadata constructs.
New method: cfdm.Field.get_filenames
New method: cfdm.Data.get_filenames
New function: cfdm.abspath
New keyword parameter to cfdm.read: warn_valid (https://github.com/NCAS-CMS/cfdm/issues/30)
New keyword parameter to cfdm.write: warn_valid (https://github.com/NCAS-CMS/cfdm/issues/30)

Version 1.8.2 ¶

2020-04-24

Added time coordinate bounds to the polygon geometry example field 6 returned by cfdm.example_field.
New method: cfdm.Field.apply_masking
New method: cfdm.Data.apply_masking
New keyword parameter to cfdm.read: mask
New keyword parameter to cfdm.Field.nc_global_attributes: values
Fixed bug in cfdm.write that caused (what are effectively) string-valued scalar auxiliary coordinates to not be written to disk as such, or even an exception to be raised.

Version 1.8.1 ¶

2020-04-16

Improved source code highlighting in links from the documentation (https://github.com/NCAS-CMS/cfdm/issues/21).
Fixed bug that erroneously required netCDF geometry container variables to have a geometry_dimension netCDF attribute.

Version 1.8.0 ¶

2020-03-23

First release for CF-1.8 (does not include netCDF hierarchical groups functionality).
Implementation of simple geometries for CF-1.8 (https://github.com/NCAS-CMS/cfdm/issues/11).
Implementing of string data-types for CF-1.8 (https://github.com/NCAS-CMS/cfdm/issues/12).
New function: cfdm.example_field (https://github.com/NCAS-CMS/cfdm/issues/18)
New attributes: cfdm.Field.dtype, cfdm.Field.ndim, cfdm.Field.shape, cfdm.Field.size
New method: cfdm.Data.any
New paths keyword parameter to cfdm.environment
Changed dependency: netCDF4>=1.5.3
Changed dependency: cftime>=1.1.1
Fixed bug that prevented the writing of 'NETCDF3_64BIT_OFFSET' and 'NETCDF3_64BIT_DATA' format files (https://github.com/NCAS-CMS/cfdm/issues/9).
Fixed bug that caused a failure when a “_FillValue” or “missing_value” property is set and data type conversions are specified with the datatype keyword to cfdm.write (https://github.com/NCAS-CMS/cfdm/issues/16).
Fixed bug whereby cfdm.Field.has_construct would try to delete the construct rather than check whether it existed.

Version 1.7.11 ¶

2019-11-27

New methods: cfdm.Field.compress, cfdm.Field.uncompress
New methods: cfdm.Data.flatten, cfdm.Data.uncompress
New dtype and mask keyword parameters to cfdm.Data
Changed the default value of the ignore_compression parameter to True.

Version 1.7.10 ¶

2019-11-14

New method: cfdm.Field.nc_set_global_attributes.
Fixed bug relating to the reading of some CDL files (https://github.com/NCAS-CMS/cfdm/issues/5).
Fixed bug relating numpy warning when printing a field with masked reference time values (https://github.com/NCAS-CMS/cfdm/issues/8).

Version 1.7.9 ¶

2019-11-07

Fixed bug relating to setting of parameters on datum and coordinate conversion objects of coordinate conversion constructs (https://github.com/NCAS-CMS/cfdm/issues/6).

Version 1.7.8 ¶

2019-10-04

During writing to netCDF files, ensured that _FillValue and missing_value have the same data type as the data.
Fixed bug during construct equality testing that didn’t recognise equal cell method constructs in transposed, but otherwise equal field constructs.
Bounds netCDF dimension name is now saved, and can be set. The saved/set value is written out to disk.
Now reads CDL files (https://github.com/NCAS-CMS/cfdm/issues/5)

Version 1.7.7 ¶

2019-06-13

Don’t set the fill mode for a netCDF4.Dataset open for writing to off, to prevent incorrect reading of some netCDF4 files (https://github.com/NCAS-CMS/cfdm/issues/4).
Updated documentation

Version 1.7.6 ¶

2019-06-05

Added attributes _ATOL and _RTOL to facilitate subclassing.
Fixed bug in cfdm.Field.convert.
Fixed bug in cfdm.core.constructs.new_identifier.

Version 1.7.5 ¶

2019-05-15

New methods: Datum.nc_has_variable, Datum.nc_get_variable, Datum.nc_has_variable, Datum.nc_set_variable (https://github.com/NCAS-CMS/cfdm/issues/3).

Version 1.7.4 ¶

2019-05-14

Changed behaviour of cfdm.Constructs.filter_by_axis.
New methods: cfdm.Data.has_units, cfdm.Data.has_calendar, cfdm.Data.has_fill_value.
New constructs keyword parameter to Field.transpose.
Keyword parameter axes to cfdm.Field.set_data is now optional.
Added the ‘has_bounds’ method to constructs that have data but can’t have bounds.
New methods: cfdm.DomainAxis.nc_is_unlimited, cfdm.DomainAxis.nc_set_unlimited.
Made Data a virtual subclass of Array.
Deprecated methods: cfdm.Field.nc_unlimited, cfdm.Field.nc_clear_unlimited, cfdm.Field.nc_clear_unlimited.
Fixed bug when writing new horizontal coordinate reference for the vertical datum.
Fixed bug in del_data methods.
Fixed bug with in-place operations.
Fixed bug with position in some insert_dimension methods.
Fixed bug that sometimes made duplicate netCDF dimensions when writing to a file.
Added _shape keyword to cfdm.Field.set_data_axes to allow the data shape to be checked prior to insertion.
Added the ‘_custom’ attribute to facilitate subclassing.
New class cfdm.mixin.NetCDFUnlimitedDimension replaces cfdm.mixin.NetCDFUnlimitedDimensions, which is deprecated.
New method cfdm.CFDMImplementation.nc_is_unlimited_axis replaces cfdm.CFDMImplementation.nc_get_unlimited_axes, which is deprecated.
New method cfdm.CFDMImplementation.nc_set_unlimited_axis replaces cfdm.CFDMImplementation.nc_set_unlimited_dimensions, which is deprecated.

Version 1.7.3 ¶

2019-04-24

New method: cfdm.Constructs.filter_by_size.
New method: cfdm.Data.uncompress.
Changed the default behaviours of the cfdm.Construct.filter_by_axis, cfdm.Construct.filter_by_size, cfdm.Construct.filter_by_naxes, cfdm.Construct.filter_by_property, cfdm.Construct.filter_by_ncvar, cfdm.Construct.filter_by_ncdim, cfdm.Construct.filter_by_method, cfdm.Construct.filter_by_measure methods in the case when no arguments are provided: Now returns all possible constructs that could have the feature, with any values.
Renamed the “underlying_array” methods to “source”
Added _field_data_axes attribute to Constructs instances.
Added _units and _fill_value arguments to get_data method.
Moved contents of cfdm/read_write/constants.py to NetCDFRead and NetCDFWrite.
Fixed bug in cfdm.CoordinateReference.clear_coordinates.
Fixed bug in cfdm.Field.convert (which omitted domain ancillaries in the result).
Added kwargs parameter to cfdm.CFDMImplementation.initialise_Data, to facilitate subclassing.
Added NetCDFRead._customize_read_vars to facilitate subclassing.
Added NetCDFWrite._transform_strings to facilitate subclassing.

Version 1.7.2 ¶

2019-04-05

New mode parameter options to cfdm.Constructs.filter_by_axis: 'exact', 'subset', 'superset'.
Enabled setting of HDF5 chunksizes.
Fixed bug that caused coordinate bounds to be not sliced during subspacing (https://github.com/NCAS-CMS/cfdm/issues/1).

Version 1.7.1 ¶

2019-04-02

New methods cfdm.Constructs.clear_filters_applied, cfdm.Constructs.filter_by_naxes.
Changed behaviour of cfdm.Constructs.unfilter and cfdm.Constructs.inverse_filters: added depth keyword and changed default.

Version 1.7.0 ¶