v5.1.1

What's Changed

• minor fixes, left over from #1026 by @ocefpaf in #1028
• workaround latest urllib3 by @ocefpaf in #1031
• Pin isodate >= 0.6.1 in requirements.txt by @benjwadams in #1034
• Update micromamba GitHub Actions by @ocefpaf in #1033
• remove MemoizedDataset by @ocefpaf in #1029
• Update precommit and fix by @ocefpaf in #1037
• let's skip this one for now by @ocefpaf in #1042
• Fix pre commits by @ocefpaf in #1038
• fix typos by @ocefpaf in #1045
• v4 is beta and was probably mistakenly release as stable by @ocefpaf in #1046
• Remove pkg resources by @ocefpaf in #1039
• move to pyproject.toml by @ocefpaf in #1024
• Merge in develop changes for 5.1.1 release preparation by @benjwadams in #1061
• removed last of pkg_resources. by @ChrisBarker-NOAA in #1060
• Some pytest fixes by @jcermauwedu in #1056
• Score fix in cf 1.6 by @Karinon in #1053
• Final merge prior to 5.1.1 release by @benjwadams in #1062

New Contributors

• @ChrisBarker-NOAA made their first contribution in #1060
• @jcermauwedu made their first contribution in #1056
• @Karinon made their first contribution in #1053

Checker bug fixes

• Fixed a logic error in CF 1.6 checker with valid_range when valid_min or valid_max were present.

Full Changelog: v5.1.0...v5.1.1

v5.1.0

Overview

• Adds partial support for CF 1.9
• Extensive improvements to CF conformance
• Many CI/quality of life improvements for the codebase

What's Changed

• Fix GHA for PyPI uploads by @ocefpaf in #933
• mark ERDDAP test with vcr by @ocefpaf in #931
• Excludes _Encoding attribute from being checked by CF var naming conv… by @benjwadams in #939
• Fixes errors when running --Describe-checks / -D option by @benjwadams in #938
• Add additional implementation, unit tests for CF Conformance section … by @benjwadams in #937
• Remove extraneous attribute checks on coordinate variables by @benjwadams in #940
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #941
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #942
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #943
• Removes deprecated NumPy types by @benjwadams in #944
• Only allow fixed length string variables to be one or two-dimensional by @benjwadams in #961
• Leilabbb cf1 9 2 5 1check missing data valid and actual range of data by @leilabbb in #963
• Ocean sigma z coordinate appendix d by @leilabbb in #964
• Calendar fixes conformance by @benjwadams in #962
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #968
• 7.1 cell boundaries by @leilabbb in #967
• updated check_cell_measures by @leilabbb in #966
• Updated check_compression_gathering by @leilabbb in #965
• Fix handling of skip_checks option by @mhidas in #975
• Fix units check for status_flag variables by @mhidas in #978
• add dependabot to keep the GHA updated by @ocefpaf in #979
• Use micromamba v2 by @ocefpaf in #980
• Bump codecov/codecov-action from 2 to 3 by @dependabot in #981
• Bump pypa/gh-action-pypi-publish from 1.5.0 to 1.6.4 by @dependabot in #982
• Bump actions/checkout from 2 to 3 by @dependabot in #984
• Bump actions/setup-python from 2 to 4 by @dependabot in #983
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #974
• Revert "Only allow fixed length string variables to be one or two-dimensional" by @benjwadams in #988
• Make calendar check case insensitive by @benjwadams in #987
• Fix calendar crossing 1582 issue on some builds by @benjwadams in #990
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #991
• Bump pypa/gh-action-pypi-publish from 1.6.4 to 1.7.1 by @dependabot in #993
• Bump pypa/gh-action-pypi-publish from 1.7.1 to 1.8.0 by @dependabot in #994
• Bump pypa/gh-action-pypi-publish from 1.8.0 to 1.8.1 by @dependabot in #995
• Bump pypa/gh-action-pypi-publish from 1.8.1 to 1.8.3 by @dependabot in #998
• update standard names URL by @dnowacki-usgs in #997
• Update check_cell_measures() function in cf_1_6.y by @leilabbb in #992
• Merge in development branch for CF 1.9 by @benjwadams in #999
• Bump pypa/gh-action-pypi-publish from 1.8.3 to 1.8.4 by @dependabot in #1000
• Bump pypa/gh-action-pypi-publish from 1.8.4 to 1.8.5 by @dependabot in #1002
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #1001
• Exclude miscellaneous files from being checked by codespell by @benjwadams in #1004
• Fixes dead ERDDAP link in integration tests by @benjwadams in #1005
• Fix numpy deprecations that are errors in 1.24.2 by @ocefpaf in #1009
• Remove unused helper functions for axes by @benjwadams in #1016
• fix minor inconsistencies in GHA by @ocefpaf in #1013
• [CF 1.9] Ensure time coordinate variables have a calendar attribute s… by @benjwadams in #1003
• Implement majority of conformance for CF section 4.4 by @benjwadams in #1014
• Check strict monotonicity of coordinate variables by @benjwadams in #1017
• Bump pypa/gh-action-pypi-publish from 1.8.5 to 1.8.6 by @dependabot in #1018
• WIP check root group attr names, not running tests by @benjwadams in #921
• Refactor cell_measures, properly handling quantity squared/cubed by @benjwadams in #1019
• Formula terms revamp by @benjwadams in #1021
• Ruff take 2 by @ocefpaf in #1020
• Build api docs v2 by @ocefpaf in #1008
• Bump rossjrw/pr-preview-action from 1.3.1 to 1.4.2 by @dependabot in #1022
• Add unsigned int variables to valid CF 1.9 variable types. by @benjwadams in #1023
• Fix a broken link and drop a removed one. by @ocefpaf in #1027
• Enable bugbear... by @ocefpaf in #1026
• Merge in develop branch in preparation for Compliance Checker v5.1.0 by @benjwadams in #1025

New Contributors

• @pre-commit-ci made their first contribution in #941
• @leilabbb made their first contribution in #963
• @dependabot made their first contribution in #981

Full Changelog: v5.0.2...v5.1.0

v5.0.2

• Numerous fixes to CF 1.6 conformance
• Fixes handling of standard name modifiers
• Fixes to calendar handling
• Fixes to flag related attributes when only one flag is specified
• Adds possible corrections when an invalid CF standard name is provided
• Code cleanup, pre-commit and CI fixes, narrower exception handling

PRs list

• Taxa names by @benjwadams in #889
• fix typo by @ocefpaf in #895
• test on py310 by @ocefpaf in #894
• Re enable flake8 by @ocefpaf in #901
• Add code coverage to GitHub Actions by @benjwadams in #900
• Fix undefined variables/tests, linter fixes by @benjwadams in #903
• use pathlib by @ocefpaf in #908
• Standard name units and modifiers by @benjwadams in #909
• Fix none cases and bail out in failure cases for units checks by @benjwadams in #910
• Fix protocol tests that had broken URLs by @benjwadams in #912
• Handle scalar flag attributes by @benjwadams in #915
• Adds checks for .nc filename extensions by @benjwadams in #916
• Fix integration tests rebase by @benjwadams in #913
• Improve conformance by @benjwadams in #917
• Handle nonstandard calendar and leap time in time variables by @benjwadams in #918
• Add checks/tests for external variables by @benjwadams in #920
• Test for CF 1.6 conformance section 3 by @benjwadams in #923
• Flag fixes by @benjwadams in #924
• Standard name recommendations by @benjwadams in #925
• Fixes spelling issues reported by codespell by @benjwadams in #926
• Pre commit fixup/code cleanup by @benjwadams in #927
• add pre-commit-ci-config by @ocefpaf in #928
• Merge in CI changes from develop branch by @benjwadams in #929
• Precommit additional fixes by @benjwadams in #930

Full Changelog: 5.0.1...v5.0.2

scale_factor/add_offset fixes

Fixes a number of long-standing issues with scale_factor and odd_offset type comparison when comparing non-equivalent types.

CF 1.8 Support

• Adds support for CF 1.8
• Support to only run a subset of checks with -i/--include-checks option
• Code coverage support added in GitHub Actions continuous integration
• Fixed various issues in code base including unused variables and dead code paths

Bugfixes to geospatial representation, CI updates

• Numerous updates to featureType representation to better fit the CF Conventions specifications

• Updates for building via GitHub Actions, including pushing to PyPI.

• Fixes handling of scale_factor and add_offset attributes.

IOOS Compliance Checker 4.3.3

Release for the IOOS Metadata Profile Version 1.2 Checker.

General

• Enables fetching from remote, non-OPeNDAP NetCDF files which use a Content-Type header of application/x-netcdf
• Enables fetching of datasets from ERDDAP TableDAP endpoints
• Skips iterating Python setup requirements twice
• Escape variable output in HTML format
• Allow in-memory loading of remote NetCDF datasets

CI/Build

• Adds pre-commit hooks in GitHub

IOOS Checker

• Update GTS ingest logic
• Correct platform detection
• Add z variable logic
• Various fixes/improvements to error messages

Release Candidate 4.3.3rc2

Release candidate 2 for the IOOS Metadata Profile Version 1.2 Checker

• change standard_name_uri to standard_name_url
• add syntax checks for platform_id
• add checks for flag_meanings and flag_values on QARTOD variables
• streamline messaging for ioos_ingest, gts_ingest checks
• ensure proper syntax for wmo_platform_code
• separate checks for global gts_ingest flag and checking if the variables passed the GTS ingest requirements
• improve messaging for qartod_variables:references check
• add documentation for using ERDDAP datasets with the checker

Compliance Checker 4.3.3 Release Candidate 1

Release Candidate version 1 for IOOS Compliance Checker 4.3.3.

General

• Adds a ValidationObject class in base.py for generic validation of global attributes. Current uses include email and URL validation, among others.
• Updates attr_check function to accept variables for generic variable checks, e.g. aforementioned validators, set membership from known set of strings.

IOOS 1.2

• Adds a checker for IOOS Metadata Profile Version 1.2.

Compliance Checker 4.3.2

General:

• Adds a new --option/-O command line flag which can be used to alter desired checker behavior. This option can be specified multiple times for several options, although as of this release, there is only one supported option (see notes in CF section below).

Changes to CF checkers (all versions):

• Corrects "coordinate data variable" finding routines to correspond with CF Section 1.3 "Overview". Coordinate data variables now find both NUG "coordinate variables", which are variables with one dimension where the dimension has the same name as the variable, and variables referred to by the contents of the coordinates attribute in other variables.
• Improves readability of error message for attributes which are improperly placed according to CF Appendix A's "Use" column.
• Disables checking of Appendix A by default and only checks Appendix A if cf:enable_appendix_a_checks is specified in aforementioned -O/--option flags via the CLI.