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CHANGELOG.md

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CHANGELOG

Version 5.4.5

Minor changes

  • Adapted the displayed message when the user interrupts a job
  • Improve the error message to be more informative and tweak the styling
  • Add some basic sanity checks on the API settings configuration

Version 5.4.4

Minor changes

  • Modify all calls to LuciusApi to use asynchronous calls
  • Add a utility function to provide the asynchronous HTTP calls to LuciusAPI with polling for results and functionality to interrupt the job if running
  • Add a factory constructor to wrap the asynchronous HTTP for each endpoint
  • Add a modal to warn the user when leaving the page that all job results will be lost
  • Add interrupting of running jobs when leaving the page and confirmed by the user
  • Add option to interrupt the running workflow by interrupting outstanding jobs

Deployment changes

  • deployments.json added fields under api: asyncUrlStart, asyncUrlStatus, asyncStatusInterval, longRunningTime and veryLongRunningTime

Version 5.4.3

Other

  • Set the contentSecurityPolicy option in helmet to improve cross-site scripting security

Deployment changes

  • serverConfiguration.js should contain valid information matching the deployment infrastructure

Version 5.4.2

Minor changes

  • On index/landing page, the server responsiveness is checked by retrieving the filters instead of the statistics. The filters API endpoint is fully cached while the statistics are only semi-cached. This also removes the spark jobserver call and calculations on the average job duration.

Version 5.4.1

Bug fixes

  • Fix an issue where data refresh causes the top table expansion functionality locking up caused by added listeners and streams getting interrupted
  • Fix issue when a sample selection filter is removed triggering an update on unavailable data
  • Hide outdated sample selection data when retrieving new data due a new selected perturbation

Minor changes

  • Update npm packages and create package-loc.json from scratch, solving many remaining open audit hits
  • Update Ramda to 0.28.0, fix merge being removed in favour of mergeRight and contains in favour of includes

Version 5.4.0

Functionality

  • Display a Sample Information Details section in top tables
  • Change filter and sample information details to be collapsable (collapsed by default)

Minor changes

  • Fix table sample info display of dose & time so the text is properly truncated if the value string is long
  • Hide table sample info fields if the API call returned either empty or "Feature not found"
  • Display single cell information in sample selection and table sample info
  • Solve the 3 invalid font warnings on the console
  • Display perturbation information details under the expanded table sample info by clicking the 'i' icon

Other

  • Updated required node version in Dockerfile
  • Updated some pinned package versions
  • Use the helmet package to set/tweak server html headers
  • Restructured the folder structure slightly to introduce a public folder This prevents exposing server configuration files
  • dist/bundle.js now compiles towards the public folder too

Deployment changes

  • deployments.json should now be placed in the public folder instead of the project root

Version 5.3.0

Functionality

  • Add filters to the sample selection component

Version 5.2.0

Functionality

  • Add exporting of report in Markdown format
  • Add browser access to restarting the API
  • Display tooltip for clipboard and download buttons in export menu

Other

  • Filter functionality made dynamic so that new filter groups can be added as needed
  • Improve sturdiness against invalid input
  • Filter a-link references on 'do-not-route' before sending to the router

Deployment changes

  • Requires extra translations for each filter type in deployments.json

Version 5.1.0

Functionality

  • URL Queries: ComPass accepts URL queries and runs the complete analysis automatically. For instance, the following URI:

    http://localhost:3000/disease?autorun&signature=HSPA1A+DNAJB1+DDIT4+-TSEN2&numTableHead=10

    will run the Disease workflow using the signature HSPA1A DNAJB1 DDIT4 and will show 10 entries for the top table.

  • Export: Add buttons to export data and plots to a file or copy it to the clipboard. A popup window is available with all the possible export features on the right bottom of the screen.

  • Correlation workflow has filters.

  • Sample tables can be sorted by clicking the columns header

Other

  • Ghost mode has been improved, it no longer requires explicit timings in the scenarios
  • Moved scss files from src/js to src/sass, so any alternative versions of e.g. _variables.scss or _main.custom.scss should now be placed in the new folder

Version 5.0.2

  • Fix mistake in sample selection column truncation code

Version 5.0.1

  • The head and tail tables use pictures to display the treatment type
  • Adapt the behaviour for the autocomplete when there is only one option to choose from and if the entered value matches the single autocomplete value

Version 5.0.0

Functionality

  • A new 'Genetic' workflow is created useful for searching for genetic perturbations.
  • Inverting the filter selection can be done using the ALT (Option on Mac) modifier key instead of the a key
  • Filter values are populated dynamically based on the data available through the API

Other

  • The dependency stack has been cleaned and (partly) updated
  • Cycle dependencies have been updated to the latest versions except for @cycle/state.