Changes for 1.3.0

[maplesond]

• Adding control over more arguments in the comparison pipeline
• Separating control over threads (to use within processes) and cores (to parallelise snakemake tasks) in pipeline tools
• Setting default value for minimum number of reads in a block to 10 to avoid too many genes being unnecessarily discarded from samples.
• Upgrading docker image to use debian bookworm and python 3.11