PhenoTips » News » PhenoTips 1.4 Milestone 2 Released

PhenoTips 1.4 Milestone 2 Released

Oct 17 2017

The PhenoTips development team is happy to announce the availability of the PhenoTips 1.4 Milestone 2 release. The highlights of the release are:

Patient data

  • Patient records can be filtered by the study they belong to
  • Improved look and functionality of patient and family directories
  • New and improved cancers UI in pedigree editor
  • Pedigree editor is now using standardized vocabulary for cancers
  • By default negative phenotypes are removed from Gene panel section
  • Free-text diagnoses in patient form and in pedigree editor are now supported
  • Implemented family permissions

REST API

  • Allowed method PATCH on patient resources
  • Allowed explicit updates, overwrites and merges when updating patient records
  • Added REST API for family permissions

Vocabularies

  • Administrators can permanently redefine the location of vocabulary sources
  • Improved vocabulary reindex process

Text mining

  • Administrators can configure the text-mining service either locally (CTAKES) or remotely through services.phenotips.org (CTAKES and NCR)

Bug fixes

  • Families shared with me are missing some families with shared patients
  • Drop-down autocomplete doesn't follow the search bar in pedigree editor
  • Layout issue in the first tab of the pedigree editor node menu
  • Gene panels should display HGNC gene symbol rather that its alias
  • Under high load, no HPO terms are extracted from clinical notes
  • Loading spinner doesn't display properly in export modal
  • Pedigree editor breaks when using non-default date input format
  • In some cases, using a decade for DOB in a pedigree breaks the editor
  • When using dd-mm-yyyy for pedigree date format (both input and display), using decades in the pedigree breaks the editor
  • Genes should be stored internally as Ensembl IDs, not HGNC IDs
  • Problems with guest users:
    - missing "owner" access on guest-owned patient records
    - wrong failure reported when deleting records

See the full list of changes in JIRA.