Add metashrimps tool suite

[TanguyGen]

No description provided.

[yvanlebras]

Hmm seems that now it is executed! Apparently an output is created but the diff is not ok. In the meantime there is this warning : "Datatype class not found for extension 'docx'".

Also these warnings:
[WARNING] Could not fetch resource map.png: replacing image with description
[WARNING] Could not fetch resource http://unconf17.ropensci.org/images/ropensci_small.png

....

method = "GET"
proxy = Nothing
rawBody = False
redirectCount = 10
responseTimeout = ResponseTimeoutDefault
requestVersion = HTTP/1.1
}
(InternalException (HandshakeFailed (Error_Protocol ("certificate has unknown CA",True,UnknownCa))))
Replacing image with description.
code for methods in class �Rcpp_SpatCategories� was not checked for suspicious field assignments (recommended package �codetools� not available?

[bgruening]

warning : "Datatype class not found for extension 'docx'".

The datatype is not known to Galaxy.

[WARNING] Could not fetch resource http://unconf17.ropensci.org/images/ropensci_small.png

Its a http not https maybe that is the problem

[yvanlebras]

Thank you Björn! To add docx datatype, I can make it here or directly on the galaxy core codes.

[bgruening]

Always upstream Galaxy.

And if you want to have it fast, also to the usegalaxy deployment fork of Galaxy.

[yvanlebras]

ok, docx datatype addition PR upstream galaxyproject/galaxy#16713

[yvanlebras]

Seems ok for the docx datatype addition on upstream Galaxy repo. Maybe this is not updated on the CI tests ? I will see for the dependency issue

[yvanlebras]

Maybe @PaulineSGN you can save me there ;) I think tools were not tested with planemo using the --biocontainer option. Can you try to arrange the dependencies issues?

[bgruening]

Don't remove version here.

What you can do is ... outside of Galaxy do:

conda create -n foo phantomjs pandoc gmp r-mapview .....

Then you get an ouput and you take the versions numbers from that output and add it here.