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peterjc / thapbi-pict

Tree Health and Plant Biosecurity Initiative - Phytophthora ITS1 Classifier Tool
https://thapbi-pict.readthedocs.io/
MIT License
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BIOM output from classifier #551

Closed peterjc closed 1 year ago

peterjc commented 1 year ago

Could also do this from sample-tally step (perhaps via -b / --biom addition to the command line API), and the sample reports (already in TSV and Excel format) which would just be adding the user-supplied metadata compared to what this offers.

peterjc commented 1 year ago

Tests failing on Windows AppVeyor:

WARNING: No BIOM format output as missing optional Python libraries

peterjc commented 1 year ago

New tests also failing on Linux, file: command not found

peterjc commented 1 year ago

Will use biom validate-table -i XXX.biom instead.