Avoid reccurent update of test reference entries

ceabiodb / biodb

An R package framework for accessing biological and chemical databases and developing or extending new connectors.

GNU Affero General Public License v3.0

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Avoid reccurent update of test reference entries #555

Open pkrog opened 3 years ago

pkrog commented 3 years ago

Some fields are often updated in database (like long vector field kegg.genes.id in KEGG Enzyme), leading to failure in fields testing, Find a way to test the parsing of fields while avoiding this frequent update that will lead to too much failures on Bioconductor build system for extension packages.

[ ] First idea is to avoid downloading by testing only the parsing on minimal (even fake) local input files.

pkrog commented 3 years ago

[ ] Only test downloading of entries, and that some fields are parsed, but we do not check the parsed values.
[ ] For a set of input content stored as files inside inst/testref, we run only the parsing using method BiodbFactory::createEntryFromContent() (to be rendered public): check if entry ID does not already exists in volatile or persistent cache, store the content in persistent cache (?).