rsomics-common

rsomics-common is the narrow Layer-A contract shared by current rsomics products:

typed error categories and contextual propagation;
stable process exit codes;
versioned JSON success and error envelopes;
static product identity;
a runner that maps a product result to plain or JSON output.

The public CLI surface contains only --json, the one output control exercised by rsomics-seq, rsomics-fastq-preprocess, and rsomics-bed.

Thread pools, RNG policy, logging verbosity, format I/O, transactional product output, and fixture discovery are deliberately not part of this crate. rsomics-fastq-preprocess currently owns its thread control because it is the only verified product that uses it. A capability moves here only after a second product establishes the same contract.

use clap::Parser;
use rsomics_common::{OutputArgs, Result, ToolMeta, run};

#[derive(Parser)]
struct Cli {
    #[command(flatten)]
    output: OutputArgs,
}

fn execute() -> Result<()> {
    Ok(())
}

fn main() -> std::process::ExitCode {
    let cli = rsomics_help::parse::<Cli>();
    run(
        &cli.output,
        ToolMeta {
            name: env!("CARGO_PKG_NAME"),
            version: env!("CARGO_PKG_VERSION"),
        },
        execute,
    )
}

License: MIT OR Apache-2.0.

rsomics-common 0.7.0

rsomics-common