1.4.2

• Make mine logo and name prominent in header, moving Bluegenes logo to the credits section at the bottom of the home page
• Ensure template constraints are removed from template queries displayed on report pages
• Reduce p-value exponential decimal places to 2 on enrichment results displayed on results page
• Improve support for HTTP clients using POST portal.do
• Fix incorrect counts when saving a list from some templates or custom query results #797
  • This would also lead to additional items in the saved list, not present in the original result table
  • These additional items would also be passed onto visualisation tools

1.4.1

• Fix various crashes that occur when connected to a mine without any preferredbagtypes in model

1.4.0

• Improvements and bugfixes for query builder
  • Use displayName for classes in Data Browser
  • More clearly convey empty classes in Data Browser
  • Do not show empty classes in QB root class dropdown
  • Distinguish reverse references by showing them top of list with an arrow
  • Fix outer join not being removed when class with it is removed from view
  • Fix crash caused by adding or summarising descendent of class with type/subclass constraint
  • Rename Summary buttons to Add summary
• Open first extant tab in upload page save step when matches tab isn't present
• Make Back To Template button visible on results page after running template, return to templates page with the template still active
• Autofocus search input on search page
• Add clear button to region search page
• Re-introduce old portal.do linking in API for directly opening upload page with specified IDs resolved

1.3.0

• Support for creating templates from query builder page
• More features on templates page
  • Edit template button, sending you to the query builder with your template loaded
  • Reset button to set constraints back to default
  • Delete button with option to undo deletion from alert (REQUIRES INTERMINE 5.0.4+)
  • Web service URL when viewing a template
  • Improved fuzziness of template text filter and visual look of the filter panel
  • New filter for showing templates owned by the logged in user (REQUIRES INTERMINE 5.0.4+)
• Admin page has been split into 3 sections: report, home and templates (new)
  • Manage templates component (REQUIRES INTERMINE 5.0.4+) gives you an overview of the templates you own, with the option to
    • view a template on the templates page
    • export a template to XML
    • precompute a template
    • summarise a template
    • edit tags of a template
    • export multiple templates to XML (using checkboxes)
    • delete multiple templates (using checkboxes)
  • Import templates component allows you to paste in the XML of previously exported templates, and add them to your account
• Customise BG home page and footer using web.properties (see #765 or documentation) (REQUIRES INTERMINE 5.0.4+)
• Able to set custom non-root deploy path with :bluegenes-deploy-path in config
• Able to use a different service root for BG backend with :bluegenes-backend-service-root in config
• New 404 catch-all page replacing the Jetty error page
• Use only summary fields instead of union of summary fields and all attributes of class, for report page summary
• Much less verbose and more readable errors when BG is started with an invalid config/envvars
• Better error messages when something goes wrong when using Bluegenes tool store
• Limit length of report summary text with show more button
• Fix recently created column for list constraint not working properly
• Fix crash when receiving invalid bg-properties layout.report (for customised report layouts)
• Fix report page layout config unable to grow beyond a specific size (REQUIRES INTERMINE 5.0.4+)

1.2.1

• Fix authentication errors with 5XX response codes not being handled

1.2.0

• Cache busting for Tools' dist files (browser should immediately catch up when a tool is updated)
• Improved RDF support REQUIRES INTERMINE TBD
  • Option to export results in N-triples and RDF
  • Support RDF representation for permanent URLs
  • Static HTML header link to RDF representation in report pages
• Support downloading of enrichment results
• Vastly improved region search page
  • Fix features missing in results when fully encompassing search region
  • Graph showing location of features relative to min and max loci of search region
  • Show symbols for features
  • Buttons to export results of one or all search regions in various formats, including opening the features in an im-table
  • Dropdown to create list by feature type, for one or all search regions
  • Interbase coordinates
  • Strand-specific search
  • Specify strand explicitly using chormosome:start:end:strand notation
  • Sliders to extend search regions on one or both sides
  • Restrict organism dropdown to only those that have chromosome data
  • Use configured default organism for organism dropdown initial value
• Show mine release version on home page below mine name
• Restrict Other Mines section on gene report pages to only show homologues for main organisms of mine (uses organisms saved for mine on InterMine registry)
• Show strand in summary for sequence feature report pages (includes descendents, e.g. gene)
• Show mines incompatible with BlueGenes as external links, which means
  • registry mines below API version 27
  • registry mines using unsecured HTTP when BlueGenes is hosted on HTTPS
  • additional mines (specified in config.edn) with :external true
• Support specifying a description in the config.json for a Tool, shown in info popover in header of tool (can be overridden by setting a description in the report page layout editor)

1.1.0

• Add missing enrichment features to panel on results page
  • Specifying list as background population REQUIRES INTERMINE 5.0.2+
  • Filters specific to an enrichment widget
• Display chart and table widgets on results page REQUIRES INTERMINE 5.0.2+
• Make results page layout more space efficient by moving recent queries panel into a dropdown

1.0.1

• Fix BlueGenes version number in footer showing as "dev" for a build from the exact commit with annotated tag
• Support specifying a favicon, either from default mine or by adding one