v2.5.0

Add support for development runs

v2.4.0

This update incorporates the following changes:

• Addition of new text file output containing the start chrome commands. These commands can be run in Powershell as an alternative to using the duty csv download scripts, so that there is an easy backup option should these scripts not work. This text file is attached to the email message sent out by the script
• Addition of instructions to the html email message for using start chrome commands text file
• Removal of the results_zip_files downloads
• Add settings.json file for standardised formatting of the code in vscode
• Add dirty to version tag to describe if the working tree is dirty
• Remove support for swift/ LRPCR (LRPCR is covered by the Custom Panels configuration)
• Add support for OncoDEEP runs
• Improved error handling

v2.3.0

• Remove TSO sample zip downloads. This functionality is replaced by qiagen_upload
• Update output location of metrics files on trust network from Results to metrics folder

v2.2.0

• Add exome depth outputs to config file as files to be downloaded
• Modify TSO results output to enable download of per-sample zip files

v2.1.0

• Improved the conditional formatting for test vs prod mode for the email instructions in the email HTML
• Fixed StG path formatting for production (removal of additional %s in the download path strings causing the files to download to a nested folder when being processed with process_duty_csv)

v2.0.0

Major refactor/rewrite:

• Remove duplicate files
• Refactor and simplify script
• Repurpose for command line use
• Sort URL numbering and start index from 1
• Remove '002_' match specification
• Add Makefile and Dockerfile
• Add support for polyedge
• Update email formatting and add conditional blocks
• Add testing configuration
• Add logging
• Add further config-specified columns to the CSV file
• Add support for runtypes with no required DNAnexus downloads
• Use input pan numbers in file download location decision-making

v1.0.0: Merge pull request #2 from moka-guys/develop

Automating Duty script that runs on the GenApp Server.