CHANGES

1.5.3

+ is not allowed in file names anymore, as CWL could not "glob" an output with a + in its name

1.5.2

Reject files in a manifest with characters that not compatible with CWL file name restrictions in their names.
- This is can be disabled by setting reject_cwl_incompatible_filename to false in config file.
- CWLtool uses this pattern to validate file names.

1.5.1

White spaces around any cell in a manifest is removed before converting and validating it.

1.5.0

IMPORT 1.0 changed to merge Seq Protocol and Data Type
Compitable with FastQs in CASAVA 1.8 format

1.4.2

added function to process bz2 compressed FastQ format.

1.4.1

validator now allows upper case in FastQ file name extensions

1.4.0

Correct base config for file types accepted. File_2 should only accept f(?:ast)q.gz (upper/lower)
Only allow compresed fastq.

1.3.0

Fixes valid_q value of seq-valid json report. Always returned false previously.
Correct command line help text for seq-valid input option.
Extends the seq-valid json report to include the ascii range detected and which types of phred score these align to.
Additional command line options for seq-valid
- -o | --output - Generates an interleaved gzip compressed fastq file when input is paired fastq
- -q | --qc - Specify the number of pairs to be used when assessing the phred quality range
  - Added for performance reasons

1.2.1

More informative exceptions for low-level issues

1.2.0

Changes to command line, using sub commands now
Changed test framework
Add travis and codeclimate checks

1.1.0

Fixed issue of json.loads() in py<3.5 being unable to decode resource string to utf-8 automatically.
Adds a UUID to the header of a processed manifest if incoming not set
Improve documentation

1.0.0

Early functional release