Releases: nextflow-io/nf-validation
Version 1.1.3 - Asahikawa
Version 1.1.2 - Wakayama
Bug fixes
- Fixed an issue with inputs using
file-path-pattern
where only one file was found (Path
casting toArrayList
error) (#132)
Version 1.1.1 - Shoyu
Version 1.1.0 - Miso
Features
- Add support for samplesheets with no header (#115)
Bug fixes
- Floats and doubles should now be created when using the
number
type in the schema (#113) - When
0
is used as a default value in the schema, a0
will now be used as the value in the.fromSamplesheet()
channel instead ofnull
(#114)
New features
- Added
file-path-pattern
format to check every file fetched using a glob pattern. Using a glob is now also possible in the samplesheet and will create a list of all files found using that glob pattern. (#118)
Version 1.0.0 - Tonkotsu
The nf-validation plugin is now in production use across many pipelines and has (we hope) now reached a point of relative stability. The bump to major version v1.0.0 signifies that it is suitable for use in production pipelines.
This version also introduces a small breaking change of syntax when providing optional arguments to the functions. You can now provide optional arguments such as the nextflow parameters schema path as:
validateParameters(parameters_schema: 'my_file.json')
(previous syntax used positional arguments instead).
Bug fixes
- The path to a custom parameters schema must be provided through a map '
parameters_schema: 'my_file.json'
' invalidateParameters()
andparamsSummaryMap()
(#108)
Version 0.3.4
This version introduced a bug which made all pipeline runs using the function validateParameters()
without providing any arguments fail.
This bug causes Nextflow to exit with an error on launch for most pipelines. It should not be used. It was removed from the Nextflow Plugin registry to avoid breaking people's runs.
Bug fixes
Version 0.3.3
Bug fixes
- Do not check if S3 URL paths exists to avoid AWS errors, and add a new parameter
validationS3PathCheck
(#104)
Version 0.3.2
Bug fixes
- Add parameters defined on the top level of the schema and within the definitions section as expected params (#79)
- Fix error when a parameter is not present in the schema and evaluates to false (#89)
- Changed the
schema_filename
option offromSamplesheet
toparameters_schema
to make this option more clear to the user (#91)
Version 0.3.1
Merge pull request #77 from mirpedrol/bump-0.3.1 bump to version 0.3.1
Version 0.3.0
New features
- Check that a sample sheet doesn't have duplicated entries by default. Can be disabled with --validationSkipDuplicateCheck (#72)
Bug fixes
- Only validate a path if it is not null (#50)
- Only validate a file with a schema if the file path is provided (#51)
- Handle errors when sample sheet not provided or doesn't have a schema (#56)
- Silently ignore samplesheet fields that are not defined in samplesheet schema (#59)
- Correctly handle double-quoted fields containing commas in csv files by .fromSamplesheet() (#63)
- Print param name when path does not exist (#65)
- Fix file or directory does not exist error not printed when it was the only error in a samplesheet (#65)
- Do not return parameter in summary if it has no default in the schema and is set to 'false' (#66)
- Skip the validation of a file if the path is an empty string and improve error message when the path is invalid (#69)
Deprecated
- The meta map of input channels is not an ImmutableMap anymore (#68). Reason: https://github.com/nextflow-io/nf-validation/issues/52