v1.10

New

• New launcher for Gustave Roussy's computing cluster: Flamingo
• New conda frontend used: mamba
• New general launcher: rna-count-salmon.py
• Conda environments now include environment variables
• New make shortcuts for local usage

Updates:

• Multiple environment updates
• Salmon update to new behaviours (0.9 -> 1.4), see official documentation for more information.
• Shipped profiles updated with mamba, cache and shortcuts in environements

v1.9

News

• Unique CLI launcher: rna-count-salmon.py
• Setup for pipy

Updates

• Conda env updates

v1.8

Flamingo

Reviewed and tested by flamingo user at IGR

v1.7

Updates:

• Snakemake, SnakemakeWrappers & Python
• Snakemake linter passed
• Black with py38 and line length of 80 passed

Fall back:

• No more notebook
• Graphs removed
• No more custom multiqc

v1.6

New features

• MultiQC customisation
• QC graph on null counts
• QC graph on count quartiles

Updates

• Logging behaviour improved
• Removed unnecessary rule links
• Removed unnecessary files in "all" rule
• New temp flags

Changes

• Multiple changes in Make options

v1.5.1

Minor changes in the report

v1.5

Updates

• Snakemake and its wrappers were updated
• New report content
• Global environment updated

Rulegraph

• Now included in the readme: use make workflow.png to get it
• DAG also available with: make example.png

v1.4

Moved from Bitbucket back to Github

Multiple updates:

• Salmon up to v0.14.1
• Snakemake up to v5.8
• Snakemake workflows up to 0.42
• Other minor package updates

Continuous Integration

• Moved from CircleCI to Github

Wiki

• Full wiki available
• FAQ available