v0.3.4

Distiller update that resolves minor issues since 2019.

• Update distiller dependencies
• Update Dockerfile for the most recent pairtools
• Introduce options for dedup
• Add fastp to the dependencies
• Resolve an issue with ncbi account home path

Checks:

• tested usage: fastp; sra download (@agalitsyna), general convergence of output with old distiller (@sergpolly)
• dockerhub open2c/distiller_env latest and 0.3.4 updated

v0.3.3

Try again

v0.3.2

• bugfixes in cooler

v0.3.1

• bugfixes in cooler, fastqc task and apt.list

v0.3.0

A major update of the pipeline and the config syntax.

• Simplify and speed up the pipeline by merging several groups of processes.
• Greatly reduce the storage requirements down to ~2x of the fastq.gz size.
• Introduce custom pair filtering during binning.
• Make .mcools with custom resolutions.
• Speed up the .sra->.fastq.gz conversion.
• Rename multiple config options.
• Switch from pbgzip to native bgzip multithreading.
• Allow users to change the location of the temp files.
• Post the list of the packages inside the docker on github.

v0.2.0

• report mapq in .pairs

v0.1.1

• remove .sra files when downloading data from SRA.
• use process selectors in configs.

v0.1.0

• Distiller-env: switch to pairtools v0.2.0 and cooler v0.7.10.