cronology v0.2.0

cronology is an automated workflow for Cronobacter whole genome sequence assembly, subtyping and traceback based on NCBI Pathogen Detection Project for Cronobacter.

New in v0.2.0:

---

Features:

• The pipeline now automatically uploads the mashtree generated output along with metadata to microreact.org. Please refer to the instructions on how to take advantage of this feature.

Bug fixes:

• Fixed a bug with the QUAST module which had incorrect container URL and incorrect software version generator.
• Fixed a bug wherein rMLST fails gracefully if the contigs file size is greater than 10 MB.
• Fixed a bug where in DOWNLOAD_REF_GENOME module was failing with docker container.
• Other QoL fixes.