Checklist updates refactor

[Woolly-at-EBI]

Various changes around the readthedocs for work done many months ago, but I (Peter) misunderstood how SPHINX/readthedocs worked, have added the relevant files to indices or created new indices. Also converted 3 files markdown to rst format(that was painful)!.

Files to be added to readthedocs, and converted from md to rst (so the md’s being removed):
submit/samples/sample_checklist_introduction.md - removed
submit/samples/sample_checklist_introduction.rst -removed
submit/samples/sample_checklist/updates/2024-02-29_Incorporating_MIxS_V6.2.md - added
submit/samples/sample_checklist/updates/2024-02-29_Incorporating_MIxS_V6.2.rt -added

Also need to update the references in the index.rst’s to make the above visible, so that they get compiled by SPHINX

cd /Users/woollard/projects/read_docs/submit
i) Add “samples/sample_checklist” to ./samples.rst - done
ii) create submit/samples/sample_checklist.rst
reformatted submit/samples/sample_checklist.md to the rst equivalent - done
Added sample_checklist_introduction.rst to sample_checklist.rst
iii) Create: samples/sample_checklist/updates.rst and refer to updates/2024-02-29_Incorporating_MIxS_V6.2.rst - done

[Woolly-at-EBI]

Ah, the missing values.rst table is in that branch too... was not expecting that. If it looks okay, please accept, it is a big improvement over what we did have.
Sorry about that, trying to reduce the git clutter and backlog of changes.

(I am working in improving that further thanks to feedback from Stephane; can't do all he wants though as some of it would need INSDC decisions and would go further than he wants.