Big PR with multiple validations - [DO NOT MERGE YET]

[ypriverol]

• [x] Change the logic of validation, by default everything is validated, and three variables are now introduced to skip some of the validations:
  • [x] --skip_ms_validation
  • [x] --skip_factor_validation
  • [x] --skip_experimental_design_validation

Factor values columns validation:

• [x] If factor values are not provided raise an error.
• [x] If the factor values are absent in the characteristics or comments raise an error.
• [x] If the values in the factor value column and their corresponding counterpart are different raise an error.

Experimental design validation:

• [x] If the data file and assay name combination are not unique raise an error.
• [x] If source name has the same comment[technical replicate], comment[biological replicate], comment[label], comment[fraction identifier]

[github-actions[bot]]

Python linting (black) is failing

To keep the code consistent with lots of contributors, we run automated code consistency checks. To fix this CI test, please run:

• Install black: pip install black
• Fix formatting errors in your pipeline: black . Once you push these changes the test should pass, and you can hide this comment :+1: We highly recommend setting up Black in your code editor so that this formatting is done automatically on save. Ask about it on Slack for help! Thanks again for your contribution!

[ypriverol]

Related to issue: https://github.com/bigbio/quantms/issues/384