sangerpathogens/manifest-validator repository overview

⁠Manifest Validator

A python3 tool to validate the taxonomy id and common names in a manifest spreadsheet

⁠Contents

• Introduction⁠
• Installation⁠
• Usage⁠
• License⁠

⁠Introduction

This software is for validating the manifests generated pre-sequencing to ensure they contain accurate and matching identification information for species being studied. This should be done before the manifest is passed to operations SSR for processing.

⁠Installation

The way to install manifest-validator is provided below.

git clone https://github.com/sanger-pathogens/manifest-validator.git
cd manifest-validator

Running the tests

python3 setup.py test

If the tests all pass then install

python3 setup.py install

⁠Usage

positional arguments:
  spreadsheet  Manifest spreadsheet to be checked for matching taxon and
               common name

optional arguments:
  -h, --help   show this help message and exit

  manifest-validator path/spreadsheet.xlsx

Enter the command as shown above, replacing 'path/spreadsheet.xlsx' with your own manifest.spreadsheet After this, follow the errors in the terminal output to clean the manifest before re-testing and submitting.

⁠License

Manifest-validator is free software, licensed under GPLv3⁠.