CHANGELOG.md



To find the state of this project's repository at the time of any of these versions, check out the tags.


v0.1.0 (in development)
User Facing

Add option to pull references from datahub
Add option to send email on workflow error, with pipeline error message
Add versions and paper references of software used to report
Upload input bag
Upload execution run
Upload mRNA QC
Create and upload output bag
Add optional to not upload

Background

Remove (comment out) option to pull references from S3
Make pull references from BioHPC default (including in biohpc.config)
Start using new gudmaprbk dockerhub (images autobuilt)
Moved consistency checks to be fully python
Changed order of steps so that fastqc is done after the trim step

Known Bugs

Datahub reference pull uses dev.gudmap.org as source until referencencs are placed on production
outputBag does not contain fetch for processed data
Does not include automatic data upload
Override params (inputBag, fastq, species) aren't checked for integrity


v0.0.3
User Facing