Expand the Settings Form to pull CV terms from different Controlled Vocabularies

UofS-Pulse-Binfo / genotypes_loader

A Drush-based loader for VCF files that follows the genotype storage rules outlined by ND genotypes.

GNU General Public License v2.0

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Expand the Settings Form to pull CV terms from different Controlled Vocabularies #15

Open carolyncaron opened 6 years ago

carolyncaron commented 6 years ago

Currently, the settings forms assumes the user will want to pull terms from a particular controlled vocabulary, or save a new term to that vocabulary. This is a huge assumption and because Tripal 3 encourages use of public ontologies, we need to handle the ability to specify vocabularies through this module. Perhaps we can borrow some functionality from the configuration form for analyzed phenotypes?

@laceysanderson please expand on this issue if necessary! (Or tell me in person and I'll make the change)

laceysanderson commented 6 years ago

This causing problems with loading genotypes for the exome capture. ND Genotypes on KnowPulse is now configured to use additionalType as the marker type (featureprop.type_id). However, I can't configure the genotype_loader to load it that way :-(

Currently I'm having to update the type_id from marker_type => additionalType after the fact in order to see the marker type in the nd_genotypes mviews. UPDATE chado.featureprop SET type_id=4321 WHERE type_id=3966;