Use built-in `params` object

[PubuduSaneth]

NextFlow scripts use the built-in params object that automatically maps the keys in YAML file to variables under the params scope.
Using this will avoid the need for the current implementation: JsonProcessor.processInputJson(params.genome_json)

Built-in params object:

// main.nf
workflow {
    log.info "Processing project: ${params.project_name}"
    log.info "Input file path: ${params.input_path}"
}

# params.yaml
project_name: "Minimal_Demo"
input_path: "/data/samples/test_file.fastq"

nextflow run main.nf -params-file params.yaml