Extend expression_pipelist with CATMAID papers

[dosumis]

Looks like we could use

get_catmaid_papers.gen_cat_paper_report

Some refactoring needed - as import will run main, but still:

gen_cat_paper_report("https://l1em.catmaid.virtualflybrain.org", 1, "papers",
...: "L1EM")

=>

id	name
21218996	Andrade et al. 2019
19711421	Berck, Khandelwal et al. 2016
19862922	Burgos et al 2018
20522905	Carreira-Rosario, Arzan Zarin, Clark et al. 2018

etc

[dosumis]

Hi @Clare72 - IIRC we have some additional scripts that find FBrfs in KB for papers from CATMAID (if present). Did these ever get completed? It would be good to have a report of all CATMAID papers with mappings from DB wherever possible & a mechanism for adding mappings for new papers as the come through.

[dosumis]

In latest schema - this can be used to map paper/dataset accession in CATMAID to FlyBase FBrf (if in KB)

MATCH (p:pub)-[]-(ds:DataSet)-[r]->(api:API) 
RETURN p.short_form, ds.short_form, r.accession, api.short_form

=>

p.short_form	ds.short_form	r.accession	api.short_form
"FBrf0232785"	"Berck2016"	19711421	"l1em_catmaid_api"
"FBrf0228257"	"Ohyama2015"	19712046	"l1em_catmaid_api"
"FBrf0233076"	"Zwart2016"	19496665	"l1em_catmaid_api"
"FBrf0238464"	"Burgos2018"	19862922	"l1em_catmaid_api"
...

[dosumis]

Fix: Extend query here to pull pub.short_form:

https://github.com/VirtualFlyBrain/VFB_reporting/blob/master/src/comparison.py#L42

Integrate this as VFB pub ID into comparison tsv reports (e.g. https://github.com/VirtualFlyBrain/VFB_reporting_results/blob/master/L1EM_comparison.tsv)