Release v2.0.2

What's Changed

• turning off regex mode for seqkit grep's role in the the initial STAT classification step, plus a patch bump release (403cf7c)
• giving stat many more cores in hopes of accelerating especially the first invocation of STAT to extract human viruses (7babc54)
• gitignore updates (b104805)
• removing legacy subdirectory that was initially intended to aid the refactor (988e912)
• adding periodic filter operators to prevent empty blast results (no-hit situations, e.g. with no-template controls) from causing crashes (b64e363)
• Bug fix: gottcha2 tsv output statistics match old nvd1 version (e000342)
• properly handling the human read scrub parameter when it is null (8c2a492)
• feature improvement: gottcha2 fasta upload removed duplicate entries (e8698b8)

Contributors

Thanks to: Nicholas Minor,wkgardner

Version Information

• Version: 2.0.2
• Tag: v2.0.2
• Commit: 403cf7c

Installation

Using this release with Nextflow:

nextflow run dhoconno/nvd -r v2.0.2 \
    --tools all \
    --samplesheet your_samples.csv \
    --experiment_id your_experiment_id \
    [other parameters...]

Development setup:

git clone --branch v2.0.2 https://github.com/dhoconno/nvd.git
cd nvd
pixi install --frozen
pixi shell

Documentation

• Example Commands
• Contributor Guide
• Main README