To add options to use txt/json for input parameters and workflows

shuzhao-li-lab / asari

asari, metabolomics data preprocessing

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To add options to use txt/json for input parameters and workflows #6

Closed shuzhao-li closed 2 years ago

amnahsiddiqa commented 2 years ago

including input of txt/? file of filenames (mzML) other than directory

shuzhao-li commented 2 years ago

added support of user supplied parameters.yaml.

To feed a specific list of files should be part of scripting using asari, but not as a subcommand. This is easy to do by replacing list_input_files = read_project_dir(args.input). Otherwise, a dedicated subcommand opens up many potential problems.