Add author and tools details in RO-Crate

[Marie59]

Here we go again !
I am launching this PR on a bit of work I did to ameliorate the RO-Crate plugin.

I updated the _add_worfklow function. I added the information on the author of the workflow:

• Name
• Orcid
  The update checks if the workflow attribute 'creator_metadata' exist. If it exists, it writes into the ro-crate the name of the creator (if there is no name it leaves a "") same for the idenifier (by default i put the ORCID maybe it's not a good Idea and if there is no Orcid it leaves a ""). If there is no 'creator_metadata' nothing is written on the creator.

I created a function _add_tools that checks the different info in workflow.steps to add some tools details:

• Id of the tool
• tool's name (label if there is one or id if there is no label)
• tools' version
• tool's description: the update checks if the tool has an annotations attribute if it exist it is written as the description if it does not the description remains "")
• url to the the toolshed (not sure this part is relevant as I did not yet solve how to have the exact url to the tool in the toolshed and I just let the global url to the toolshed)

I am not sure if I wrote that the correct way corresponding to the run crate profile (this is a bit obscure to me)

@pauldg What do you think of this ?
Thanks !!

[mvdbeek]

Very nice. Any chance you could also add or extend tests ? 3dbe289#diff-9f3ad661ca1701467f48508ea79951efe90aa29a6d02dec3f2998d831e755bb4 contains the existing examples.

[Marie59]

Thanks a lot for the review and help @mvdbeek !

[stain]

@OliverWoolland could you review this? I think this solves many of the issues you had about the Workflow Run Crate from Galaxy

[Marie59]

TO DO in a 2nd time (maybe in a later PR but I'm just putting that here to keep it in mind):

• Add xrefs of tools
• Add citations of tools
• Add edam ontologies of tools