Tool S4 Class — Tool-class • ShennongTools

Represents a bioinformatics tool with its configuration and metadata. Based on YAML configuration files that define tools with their environments, commands, and parameters. Now supports multiple versions within a single Tool object.

Slots

tool_name: Character. Tool name from YAML (e.g., "samtools", "hisat2").
versions: Character. All available versions (e.g., c("1.19.2", "1.22", "dev")).
default_version: Character. Default version to use if not specified.
description: Character. Tool description.
citation: Character. Citation information for the tool.
environment: List. Environment specification including channels and dependencies.
commands: List. Available commands/subcommands for this tool.
install_dates: List. Installation dates for each version (named list).