- SKFP-26 Technical: Update the portal to use the latest ElasticSearch 7 instead of ElasticSearch 6
- SKFP-320 Fix (Profile/Members) Profile Status changes upon login
- SKFP-321 Fix (Explore Data, Facets): Fixed an issue where values in the source_text_tumor location and source_text_anatomic_site facets were combined by a semicolon
- Display KidsFirst Forum link in banner only if a link is provided
- SKFP-5 Feature (Authentication): Added NIH's Researcher Auth Service (RAS) login using Keyloak for user authentication and removed the Facebook login service
- SKFP-306 Feature ( Landing Page): Revamped the landing page to provide general information prior to logging in or registering
- SKFP-9 Feature (Authentication): Replaced Ego (OAuth) login and authentication application with the Keycloak authentication across the portal services
- SKFP-307 Feature : New dynamic messaging banner.
- SKFP-58 Feature : Redesigned and improved the Variant Search page by adding searchable categories, facets, and the query builder.
- SKFP-55 Refactor(Backend, ETL): Updated ETL task service to point towards the new Elastic Search 7 database
- SKFP-103 Refactor (Dashboard): Added Zeppelin Variant Workbench widget to the Dashboard and Removed Participant, Members, and Diagnosis chart widgets
- SKFP-127 Fix (Dashboard Widget, Cavatica): Fixed an issue where the "Create a Cavatica Project" hyperlink would not work and an error would appear when creating a project
- SKFP-208 Refactor (Navigation Header): Reduced the height of the navigation header
- SKFP-224 Fix (Study page, Console): Fixed a warning seen in the console of the Study page
- SKFP-225 Fix (Explore Data, Facets): Fixed an issue where the Apply button in a facet would remain grey and couldn't add more filter options
- SKFP-258 Fix (Dashboard) : Saved queries widget scrollbar
- SKFP-252 Feature (Dashboard) : New CARING for Children with COVID Resources widget
- SKFP-140 Fix (Login): Fix ORCID login. Always redirects to Login page
- SKFP-135 Fix (File repository, Filter options): Fix column selection error, pathology filter
- SKFP-130 Fix regression to access to Variant Workbench
- SKFP-100 Feature (Studies, QueryBuilder) : Update QueryBuilder of the Studies page. Combine Queries now available
- SKFP-8 Refactor (Frontend, React): Removed freactal
- SKFP-19 Refactor (Studies, Search bar): Adjustments regarding the background color of the selected study in the search bar
- SKFP-56 Refactor (Maintenance) : Disabled redux-dev-tools from the production environment
- SKFP-72 Fix (File repository, Cavatica) : Fixed two typos in the Cavatica description which is illustrated when creating a new cavatica project
- SKFP-75 Refactor (Portal, Login): Adjustment regarding the disconnect message upon logging out of the portal
- SKFP-119 Fix (File repository, Query bar): Fixed an issue where the query bar would display the wrong text after selecting for a filter
- SKFP-120 Fix (File repository, Filter options): Fixed an issue where an error would appear when we clicked on File manifest for a specific filter from the Browse all option
- SKFP-122 Fix (File repository, Columns): Fixed an issue where clicking on the dbGaP code would lead to an error on the dbGaP website
- Fix broken studies table (truncated)
- 3014 Feature (Portal, Studies): Added a search bar at the top of the Facets panel which supports searching by study codes and study names
- 3353 Feature (Portal, Studies): Removed the pagination from the Studies page as all studies are now displayed on one page.
- 3343 Refactor (Frontend, React): Removed react-grid-system
- 3239 Refactor (Backend, Tests): Fixed issues with warnings and errors
- 3257 Refactor (Backend, Build): Removed unused javascript file
- 3315 Refactor (Frontend, Modals): Removed set/unset modal in code related to Cavatica
- 3326 Refactor (Backend, Library): Updated md5 library
- 3320 Refactor (Frontend, Components): Removed unused code from the multicard component and its associated unused library
- 3321 Refactor (Frontend, Components): Replaced the unused react-spinkit library by the antd equivalent
- 3322 Refactor (Frontend, Components): Removed and cleaned all unused icons and social icons
- 3324 Refactor (Frontend, Components): Removed unused code from the wizard component and its associated unused library
- 3016 Fix (Portal, User Profile): Fixed an issue where users newly entered profile information would be reset after logging out and logging back in.
- 3226 Fix (Variants, Frequencies Tab): Fixed an issue where the Orphanet link in the Frequencies tab of the Variant Entity page was always redirecting to the same page.
- 3247 Fix (Cohort Builder, Virtual Studies): Fixed an issue where it was impossible to delete a virtual study.
- 3248 Fix (Cohort Builder, Charts): Fixed an issue where selecting the “No data” filter from the facets would work but clicking on the “No data” portion of the charts would always return a query with 0 result.
- 3255 Fix (Cohort Builder, Charts): Removed an unwanted underline on field labels from Studies and Mondo graphs.
- 3275 Fix (Portal, User Profile): Fixed an issue where users were not able to enter values for the following fields: institution, institutional email and title
- 3165 Variant page : Add tooltip to participants column in KF Studies table.
- 3111 Display impact long names.
- 3124 Tables : fix border color for table rows.
- 3177 Fix Table column dropdown in File Repo.
- 3070 Use operator AND when adding a term to an active query from the sunburst.
- 3005 Cohort builder - Summary View - Studies bar chart: Replace study names by study codes in Y axis.
- 3200 Fix(variant search page): remove the "showing" message if table is empty.
- 3113 Add -- when there's no data (variant search page + variant entity).
- 3128 Variant entity page : update display for empty tables (change request).
- 2905 Feature (Variant Page, Spark Cluster): Users will now see a more detailed error message if starting the cluster fails. The on/off button will now also be updated when the cluster is turned off.
- 2934 Feature (Portal, Studies Page): There is now a new Studies page on the portal. Users can now search and filter KF studies by domain, program name, available data and experimental strategy.
- 2935 Feature (Portal, Studies Page): The results table columns are not filterable and showable/hideable.
- 2974 Feature (Portal, Variant Search Page): There is now an updated Variant page on the portal allowing users to search for variants present in the KF variant database directly from the Portal.
- 3001 Feature (Portal, Facets): Added new facets to the Cohort Builder and File repository to allow users to search with the same fields than the ones present in the Studies Page
- 3020 Feature (Portal, Variant Entity Page): There is now a new Variant Entity page on the portal allowing users to see the details of all the variant annotations stored in the variant database.
- 3032 Feature (Portal, Studies Page): Clicking on a Studies from the Studies page now redirects the user to the Cohort Builder with the study pre-selected in a new query.
- 3140 Feature (Variant Entity Page, Frequencies): For all studies having 10 or more participants of a specific variant, clicking on the number of participants now redirects to the query builder with those Participants ID selected in a new query
- 2818 Refactor (Studies page, Table): Adjusted the scrolling mechanism of the results table.
- 2865 Fix (Portal, ETL): Added a fix to the ETL preventing mapping family members if a participant has no family ID.
- 2895 Refactor (Portal, Arranger): Development of a new microservice containing the latest version of arranger (2.2.0) to be used on the Studies and Variant pages and secured with Ego.
- 2896 Refactor (Portal, ETL): Addition of the new Studies fields to the existing ETL (File Centric and participant Centric).
- 2897 Refactor (Portal, ETL): Addition of a new Studies index to the ETL.
- 2952 Refactor (Studies page, Librairies): Integration of the Apollo library.
- 3004 Refactor (Cohort Builder, Participant table): Replaced the “Study name” column by the “Study code” column.
- 3009 Refactor (Studies page, Filters): Modified the label used to identify the study domains by using the full word instead of only an acronym.
- 3023 Refactor (Studies page, Filters): Adjustments regarding the theme colors and the alignment of some tags.
- 3062 Fix (Cohort Builder, Saved Sets): Fixed an issue where the default naming when creating a new Saved Set was not working anymore.
- 3105 Refactor (Variant Entity page, Clinical Associations): Corrections were made in the data for the Gene - Phenotype table to remove unwanted brackets and also use the entire inheritance name instead of just the first letter
- 3108 Fix (Portal, ETL): Fixed different issues with the ETL regarding family data and also the display name for the Studies.
- 3123 Fix (Variant Page, Search results table): Fixed the colors and hover states for links.
- 3126 Fix (File Repository, Columns): Fixed an issue where the column title label wasn’t displayed correctly and also another issue that was displaying a column that was supposed to be hidden.
- 3137 Fix (File Repository, Columns): Fixed an issue with the Study Domain column in which values were never displayed.
- 3167 Fix (Variant Page, Search results table): Fixed an issue where the user was unable to select and copy the text from the Variant Column in the Variant Search page.
- 2929 Feature (Portal, Arranger): Integrated a new separate and up-to-date Arranger microservice for future development.
- 2952 Feature (Portal, Apollo): Integrated Apollo to the portal libraries for future development.
- 2965 Feature (Data Repository Integrations, RAS): The Data Repository Integration now uses RAS (Research Auth Service) instead of the Fences.
- 2926 Missing Biospecimen attributes from the Cohort Builder filtering
- 2437 Feature (Ontology browser): Add Any Of / All Of / Not in the modal
- 2913 Feature: Add banner to advertise KF Forum
- 2914 Fix (VariantDB): Update numbers.
- 2586 Fix (Ontology Browser): Better display when no phenotypes for returned participants.
- 2852 Refactor (Dashboard, Charts, Cohort Builder): Reduce size of pie and bar charts in the KF portal.
- 2860 Feature (File Repository, Search): Added a new Facet in the sidebar allowing users to search using the External Study ID.
- 2861 Feature (File Repository, Table columns): Added a new column called “dbGaP” that displays the dbGaP accession number when there is one.
- 2862 Feature (Participant Entity Page, dbGaP): Added a line in the table to display the dbGaP accession number when the study is a dbGaP study.
- 2863 Feature (File Entity Page, dbGaP): Added a line in the table to display the dbGaP accession number when the study is a dbGaP study.
- 2853 Fix (Cohort Builder, Survival Plot): Fixed an issue where refreshing the page would shrink the size of the plot in half until moving the mouse over it.
- 2857 Refactor (Dashboard, Charts): Adjusted the Studies Graph so that it also gets filtered when clicking on a study in the chart or when searching for a specific study.
- 2858 Refactor (Patient Entity Page, External ID): Renamed the “External ID” label to “Participant - External ID” so the field is easier to recognize for users coming from dbGaP.
- 2866 Fix (Portal, Logout): Fixed an issue where logging out of the portal was causing the Portal to crash for some users.
- 2883 Fix (Dashboard, Charts): Fixed an issue in the Most Frequent Diagnoses chart where the value “Missing” was considered the most frequent diagnoses.
- 2643 Feature (Cohort Builder, HPO Sunburst): The small HPO Tree beside the sunburst is now dynamic allowing the user to click on the terms to navigate in the Sunburst.
- 2829 Feature (Cohort Builder, Family ID): Made the Family ID in the Family ID column clickable to be able to add it to the active query to facilitate the process for a user to restrict his search to a specific family only.
- 2830 Feature (Cohort Builder, Age_at_diagnosis): Removed the age_at_diagnosis column and added the Pedcbio one that is now also a hyperlink.
- 2819 Refactor (Portal, Hotjar): Replaced the User Feedback add-on Hotjar for Usersnap.
- 2831 Fix (Cohort Builder, Table view): Fixed an issue where when a user visiting a Participants page would go back to the Cohort Builder using the browser back button, the view of the results would be reset to Summary view automatically.
- 2832 Refactor (Cohort Builder, HPO Sunburst): Adjusted the Sunburst to also be filtered when selecting a HPO term in the HPO Browser.
- 2838 Fix (Dashboard, Charts): Fixed an issue where the studies/participants figure on the dashboard was stripping colons from study names
- 2840 Refactor (Cohort Builder, HPO Sunburst): Adjusted indentation and vertical space of the information block beside the Sunburst.
- 2849 Fix (Cohort Builder, age_at_diagnosis): Fixed an issue where the Portal would cause an error and crash when selecting a large range for the age_at_diagnosis filter.
- 2850 Fix (File Repository, Filters): Fixed an issue where the results in the “All filters” modal were not filtered properly.
- 2851 Refactor (Cohort Builder, Saved Sets): Improved the default naming for the saved sets that are now based on the values included in the queries.
- 2639 Feature (Cohort Builder, HPO Sunburst): Update the presentation of the information present in the center of the Sunburst.
- 2640 Feature (Cohort Builder, HPO Sunburst): Added extra details regarding the selected HPO term beside the Sunburst.
- 2641 Feature (Cohort Builder, HPO Sunburst): Added a minimalistic version of the HPO tree beside the Sunburst showing the path of the selected term.
- 2642 Feature (Cohort Builder, HPO Sunburst): Added a link to the right of the Sunburst to add the selected HPO term to the active query.
- 2668 Feature (Cohort Builder, Participants Saved Sets): A new menu filter called “My sets” was added beside the “Search all filters” bar allowing users to use their Participants Saved Sets in their queries.
- 2726 Feature (Cohort Builder, Participants Saved sets): When using a Saved set in a query in the Cohort Builder, we now see a dropdown containing all saved sets when clicking on the Saved Set name.
- 2754 Refactor (Public-Stats-API): Removed duplicated code.
- 2767 Refactor (Dashboard, Grid system): Implemented updated grid system in dashboard allowing for 2 columns wide cards.
- 2768 Refactor (Dashboard, Grid system): Converted cards to new antd design.
- 2797 Refactor (File Repository, Freactal): Removed Freactal code from the Browse All facets modal.
- 2800 Refactor (Portal, Main navigation): Updated navigation buttons to better match new layout.
- 2803 Refactor (Cohort Builder, Query Operators): Fixed an issue where it was impossible to modify the query operator in Firefox only.
- 2804 Refactor (Cohort Builder, Query Operators): Fixed an issue where moving the cursor out of the box would disable the “Apply” button.
- 2805 Refactor (Portal, File Repository): Fixed an issue where checking the “show only fields with value" checkbox in the “Browse All” modal would redirect the user to an error page.
- 2816 Refactor (Cohort Builder, Participants Saved Sets): Fixed an issue where combining sets in a query using the “not” operator would give incorrect results.
- 2668 Feature (Cohort Builder, Participants Saved Sets): A new menu filter called “My sets” was added beside the “Search all filters” bar allowing users to use their Participants Saved Sets in their queries.
- 2726 Feature (Cohort Builder, Participants Saved sets): When using a Saved set in a query in the Cohort Builder, we now see a dropdown containing all saved sets when clicking on the Saved Set name.
- 2639 Feature (Summary View, Sunburst): Refactor information at middle of sunburst as per design mockup.
- 2640 Feature (Summary View, Sunburst): Add details regarding the selected HPO term on the right side of the Sunburst's card.
- 2767 Refactor (Dashboard, Grid system): Implement updated grid system in dashboard allowing for 2 columns wide cards.
- 2768 Refactor (Dashboard, Grid system): Convert cards to new antd design.
- 2797 Refactor (File Repository, Freactal): Removing Freactal code from the Browse All facets modal.
- 2800 Refactor (Portal, Main navigation): Update navigation buttons to better match new layout.
- 2784 Fix (FileRepo, File Manifest Modal): Fix participant counts when one navigates from the cohort builder to the file repository and opens up the file manifest modal. Refactor of the modal UI with Antd components.
- 2780 Refactor (Clear all queries modal): remove freactal dependency and migrate UI with Antd components.
- 2755 Feature (Cohort Builder, Participants Sets): The participants set feature is now visible to everyone. Adding a set to the Cohort Builder from the Dashboard page now replace any existing set instead of adding a new one.
- 2770 Fix (SqonBuilder): Make sure case range does not generate a type error (ex, age at diagnosis).
- 2693 Refactor (Portal, Login): Removal of duplicate code in LoginUtils.
- 2754 Refactor (Dashboard, Public-stats-api): Removal of duplicate code.
- 2775 Refactor (CohortBuilder, File repo): Share query modal.
- 2614 Feature (Cohort Builder, Participants Sets): From the card listing the saved sets on the dashboard, it is now possible to click on the number representing the number of participants in a set to be redirected to the cohort builder and view its content.
- 2715 Perf (Studies Chart): Make 1 call vs many ones in order to fetch the needed data for the Studies Chart.
- 2632 Refactor (Dashboard, Cards): Updated the title of the "My Saved Queries" card.
- 2719 Fix (Cohort Builder, Participants sets): Make sure sets card show correct data.
- 2722 Refactor (Variant Workbench, Fences): Return a 404 error instead of an error 500 when users try to launch a cluster with their fences disconnected.
- 2730 Fix (Cohort Builder, Summary/Table view toolbar): Fixed an issue where a loading spinner did not appear at the right place when trying to go from the Cohort Builder to the File Repository.
- 2735 Refactor (Portal, Styling): Modifications to unify the styling across the project.
- 2742 Fix (Dashboard, Cards): Fixed an issue where some cards in the Dashboard were not scrollable anymore.
- 2750 Fix: Avoid showing a vertical bar in the dashboard page.
- 2687 Fix (Variant page): Update text on the Variant DB home page
- 2706 Fix (Cohort Builder, Sets): Make sure userId is not visible on the network (sets)
- 2558 Fix (File Repo, Download Manifest): Make modal readable (layout was broken)
- 2719 Fix (Cohort Builder, Sets ): Make sure sets are always up-to-date
- 2534 Feature (Cohort Builder, Ontology Browser): Add a link to open the browser from the queries.
- 2573 Feature (Cohort Builder, Participants Saved sets): When saving a set of Participants, the textbox is now already populated with a default name to speed up the saving process.
- 2579 Feature (Cohort Builder, Participants Saved sets): The “Saved Participants set” button now offers more options than just saving a new set. The button now opens a dropdown menu showing all possible options for the user.
- 2582 Feature (Dashboard, Participants Saved sets): The list of sets is now visible in its own card on the Dashboard
- 2583 Feature (Dashboard, Participants Saved sets): It is now possible to edit the name of a set directly from the Dashboard.
- 2603 Feature (Dashboard, Participants Saved sets): It is now possible to delete a set directly from the Dashboard.
- 2615 Feature (Dashboard, Participants Saved sets): It is now possible to add the results of the active query to an already existing set.
- 2666 Feature (Dashboard, Participants Saved sets): It is now possible to remove the results of the active query from an already existing set.
- 2541 Refactor (UI Theme, scss): Modifications to the structure of some .scss files.
- 2621 Refactor (Login, Terms and Conditions): The user now has to accept the terms and conditions on every login.
- 2633 Refactor (Cohort Builder, Summary/Table view): Refactor of the Summary view, and the Table view tabs UI.
- 2634 Refactor (Antd, version): Update the Antd library version.
- 2652 Refactor (Portal, Freactal): Remove ‘provideToast’.
- 2653 Refactor (Portal, Freactal): Remove ‘provideLocalSqon’.
- 2669 Refactor (Portal, Freactal): Remove ‘provideState’ in the Settings section.
- 2676 Fix (Portal, Graphs): Remove extra spacing above and below the graphics on the dashboard and Cohort Builder pages.
- 2683 Refactor (Portal, Freactal): Remove fractal modal from the uploadIds modal in the File Repository.
- 2581 Feature (Cohort Builder, Saved Sets): Unique name for participant save set
- 2617 Fix (Cavatica): Change dataset payload sent to Cavatica.
- 2508 Feature (Participant, Clinical data): In the Participant entity page, the Observed and Not observed phenotypes are now split in two different tables.
- 2516 Feature (Observed Phenotype Browser): When returning into the browser, the branches to which the selected options belong to are now checked for a better user experience.
- 2529 Feature (Observed Phenotype Browser): A second column was added to separate the count of Participants with the exact term only from the count of Participants with the exact term as well as their descendants.
- 2556 Feature (Observed Phenotype Browser): Terms can now only be selected once, preventing redundant display for terms with multiple paths.
- 2202 Fix (Cohort Builder, Reporting): The system now prevents a user to request the download of another report until the first download is completed.
- 2332 Refactor (File Repository, Search): Improved the behaviour for the 'Search files by Participant ID' filter.
- 2333 Fix (File Repository, Cavatica): Addresses an issue where the transfer to Cavatica occasionally returned a success message even if the transfer failed.
- 2366 Refactor (File Repository): Modified the format of the Clinical and Biospecimen reports from .tsv to Excel.
- 2367 Fix (Cohort Builder, Menu): Fixes an issue where the Category Type menu was broken on Firefox.
- 2539 Refactor (ETL): Mapping modification for Mondo diagnosis.
- 2550 Test (Reporting Service): Implement automated testing.
- 2552 Fix (Cohort Builder, Observed Phenotype Browser): Fixes an issue where the Observed Phenotype Browser was giving an error message when using 3 queries at a time in the Cohort Builder.
- 2566 Fix (Dashboard, Virtual Studies): Fixes an issue where deleting a virtual study from the dashboard wouldn't prompt any validation popup before the deletion.
- 2568 Refactor (Cohort Builder): Improved the styling of the link to the file repository to make it more intuitive.
- 2570 Fix (Cohort Builder, Biospecimen Report): Fixes an issue with the Tissue Type (NCIT) column that was showing twice in the report.
- 2574 Refactor (Public stats API, Authentication): Remove all logic related to authenticating with vault.
- 2593 Refactor (Cohort Builder, Reporting): Improvement of the values of the diagnostic category in the downloaded Participant report.
- 2609 Refactor (Cohort Builder, Cards): Cards are now slightly bigger to give the content a little more breathing room.
- 2618 Refactor (Portal, Support): Updated the links to the support site to point to the new documentation on Notion.
- 2506 Fix (CohortBuilder, Horizontal Bar Charts): show whole text in tooltip on left axis labels
- 2506 Fix (Variant Db): Improve visual of variant DB page
- 2511 Fix(sunburst): Fill all space for child phenotype
- 2383 Fix(sunburst): auto update on sqon changes
- 2495 Fix (Cohort builder): Visual glitch with the Download menu
- 2465 Feature(cohortBuilder): add saveSet Button
- 2468 Feature (Variant DB) : Add new Variant Page
- 2383 Feature (CohortBuilder, Dashboard): sunburst for phenotypes ontology
- 2342 Feature(Ontology Browser): HPO browser to explore data conveniently.
- 2448 Feature(Antd): update library to the latest version.
- 2391 Feature(Profile, Edit form): improve some form fields.
- 2432 Fix (CohortBuilder, Study Chart): make sure when we click a study the correct filter is added.
- 2387 Fix (Profile, About Me, Edit): fix visual regression.
- 2454 Refactor: remove some deprecated warnings.
- 2404 Performance: remove the need for antd-icon legacy library.
- 2399 Performance (Search filter): start searching only after a minimum of characters are typed.
- #2338 Performance/Bug fix(Cohort Builder): show summary results using cardinality.
- #2371 Performance (File Repo): show statistics results using cardinality.
- #2283 Feature (Member Page, Admin): add a button to "inactivate" a member".
- #2241 Build (App): remove unused code.
- #2353 Build (App): update arranger-components to fix some security warnings.
- #2379 Performance (App): use module-import style when using lodash for potential benefits.
- #2283 Admins can inactivate accounts
- #2393 Enable an Admin user to see all members (private or public)
- #2284 Add 'Report Member' button (under a non-dynamic feature toggle)
- #2277 Add 'Relationship' tab in clinical data xls report - #2285 Improve design of result header in cohort builder
- #2334 Fix File Repository page truncated
- #2298 Fix scrolling in 'Authorized Studies' Card in Dashboard
- #1546 Change message when no access to any study
- #2278 Do not show login page when already logged in
This feature is a hotfix for this issue :
- #2323 Change pedcbioportal link
This feature is a hotfix for this issue :
- #2314 DCF : can not connect to the DCF fence
This feature is a hotfix for this issue :
- #2296 Participant page : cPortalBio link is broken for PNOC study
This feature is a hotfix for this issue :
- #2275 Can't scroll in dashboard
This feature includes :
- #2187 Add Histological Diagnoses filters in the file repository
- #2261 Fix broken link in the resource menu
- #2262 Change order of some fields in the contact information form
- #2265 Set recommended colour for the disconnect button in the profile settings
- #2270 Use more concise wording for public/private tooltip in the profile page
- #2271 Make sure correct access is shown when viewing file details
This feature includes :
- #2245 improve interests suggestion in member page
- #2252 Change maxlength of bio and story
- #2253 Edit Profile : Display max number characters in error message
This feature includes :
This feature includes :
- #14 Add
Method of Sample Procurementto biospecimen report download
This release is a hot fix. We were not able to push files to Cavatica anymore, due to react-emotion removal.
We also fixed this issue:
- #2232 Cavatica modal : Link to cavatica token page is broken
This release includes a new Members page and alterations to the profile page, allowing to search for other members that made their user profile public.
It also fix the data release number in the footer and the bump on the login.
- #727 Incorrect cursor on disabled button hover
- #839 Release # in footer not working
- #1042 Fix bump on login when user already has a token
- #1734 Can't search by biospecimen ID
- #1881 Member page: List member pages
- #1887 Member page: Search members
- #1954 Member page: Invite members to make their profile public
- #2037 Cohort Builder: Participant table empty where filter "Available Data Type" = "No data" is applied
- #2124 Make sure other members profile can be viewed but not edited
- #2130 Redesign User Profile using Ant Design
- #2158 Member page: Filter member search by interests or role
- #2185 Cohort Builder : Need to click twice on a menu element to open it
- #2167 Add a loader while downloading a clinical data report
- #9 Add and reorder columns to Diagnoses / Histological Diagnoses tabs
- #2017 Security : upgrade axios
- #2018 Security : upgrade eslint
- #2063 Reduce kf front-end bundle size
- #2126 Add custom theme for the antd library
- #2133 Update babel to modernize the build system
Hot fix on user creation issue due to regression when working on:
- #1042 Fix bump on login when user already has a token The code had been reverted, therefore issue #1042 is unresolved.
This release includes revamped clinical data reports, available under the Download Data button of the Cohort Builder table.
It also include improvements and bug fixes including Cavatica error management.
- #2031 Download Clinical Data/Biospecimen Data
- #2044 Manage errors during calls to Cavatica API
- #1822 An error should show an Internal error, not a "we are down for maintenance" page
- #1042 Fix bump on login when user already has a token
- #2143 Page routing is broken once a user is logged out
- #2021 Netlify OSS licence for kf-qa : display Netlify logo on the login page
- #2063 Reduce front-end JavaScript bundle size in production
This release fixes major issues :
- #2113 Widget Authorized studies show open access files on study that not contain open access files
- #2105 Duplicate studies in widget Authorized Studies
This release fixes minor issues :
- #2102 Participant page : Rename family table in the clinical tab
- #2105 Dashboard : Widgets Authorized studies broken
This release fixes major issues, most of these concern the public access files :
- #2088 File Repository : Analyze in Cavatica after opening entity page directly does not work
- #2090 Cavatica: can't push open access files
- #2093 Filter on value * for ACL is not working
- #2091 Participant page: Do not repeat diagnoses and phenotypes that are not shared with other family members in the family table
This release fixes performance issues in the File Repository along with some bug fixes.
- #2027 File Repository: Remove some fields from "Browse all" to fix performance issues
- #1564 File Repository: Browse all filters: Return only the values that match the query
- #2080 Cohort Builder: Remove the "Beta" banner 🎉
- #2060 Cohort Builder: Participants are displayed as "Kf Id" instead of "Participants Ids" in the Cohort Builder
- #2004 File Repository: Remove weird column names in columns selection dropdown
- #2072 Download Clinical Data: HPOs related columns are always empty
This release introduces Histological Diagnoses, a revamping of the member page, some backend features for members search (front end coming later), along with some bug fixes.
- #2028 Histological Diagnoses: Add filters to Cohort Builder
- #2019 Histological Diagnoses: Modify Diagnoses Table in Participant Entity Page to include Specimen ID and an icon
- #2068 Histological Diagnoses: add diagnostic icon to biospecimen chip
- #1247 Member page: Make my profile non-searchable (private profile)
- #1287 Member page: View someone's member's page
- #2023 Search by entity IDs: frontend
- #109 Search by entity IDs: added an endpoint to query for ids
- #34 ETL: Create field for Histological Diagnoses
- #52 Histological Diagnoses: Add diagnoses into biospecimens
- #25 Member page: Store user preference for private profile
- #46 Member Page: Index members in Elastic Search so we can search for them
- #2041 File Repo: File without participants returns an error
- #2048 User setting page: Replace the Gen3 Logo
- #2072 Download Clinical Data : HPOs related columns are always empty
- #2004 Weird column names in File Repository
- #2041 File Repo: File without participants returns an error
This release makes ORCID feature available for everybody, and improves error messages in case of errors during login with ORCID.
- #2016 OrcId Login : Make available to greater public
This release introduces bug fixes.
- #2020 Cohort Builder: MONDO link doesn't appear in the table view on the cohort builder
- #1961 Open access files should be accessible for everyone
- #2005 Participant entity page: Don't display the sequencing data table if empty
This release includes a way to deploy the OrcId login button in production, but hidden. This is only done for testing purposes.
- #2014 Orcid Login : hidden deploy to test in production
This release concentrates on bug fixes following the release 2.7.0 and contains no new features.
- #2001 Broken link in the maintenance page
- #2007 Participant clinical tab returns a Maintenance page !!
- #2008 Participant Entity page: Empty lines in the Family members table
Data fix, introduced 2019-08-08
- #2003 Rename study "Consortium: Pediatric Brain Tumors - CBTTC" to "Pediatric Brain Tumor Atlas: CBTTC"
This release concentrates on renaming the studies and adding the participant entity page, including family and phenotype data. The format of family and phenotype data has been corrected in the ETL as part of that effort.
It also introduces improvements and bug fixes.
- #1851 Database script to rename studies
- #1953 Participant pages: Add Phenotypes table
- #1956 ETL: Change the
participant.phenotypefield to a nested type - #1240 Filters: Show selected items first
- #1962 Dashboard: Saved queries widget: Template file query "Female probands with cleft palate..." is invalid
- Note: fixes the query for new users only
- kf-portal-etl#90 The phenotypes for each participant are missing
This release introduces new features and bug fixes.
- #1123 Participant Page
- #1829 Participant Page: Links to these pages from elsewhere in the portal
- #1880 Participant Page: Add family ID
- #1950 Participant Page: add PedcBioPortal link
- Null dates are rendered as an invalid date #1960
This release introduces a bug fix.
- #1943 Put back "Beta release" banner
This release introduces new features and bug fixes.
- #1115 Cohort Builder: Saved queries widget with Virtual Studies
- #1685 Change the link of studies and participants clickable diagrams in the dashboard to point to the cohort buider
- #1721 Saved queries: list virtual studies
- #1722 Saved queries: show the description of each virtual study
- #1723 Saved queries card: delete virtual studies
- #1728 Remove "Beta release" banner
- #1807 Change the link of Frequent diagnoses clickable diagrams in the dashboard to point to the cohort buider
- #1833 Remove "Virtual Study" in the title
- #1849 Cohort builder: Add the "Consent Type" field in the filters
- #1853 Saved queries: list virtual studies
- #1866 Cohort builder: Show "You have unsaved changes" when relevant
- #1867 Cohort builder: Make the description of the virtual study bigger
- #1883 The title of the page should always be the same
- #1895 Styling simplification for the reset zoom button
- #1903 Age at diagnosis chart: use a comma for ranges
- #1906 Rename edit name dialog and tooltip
- #1417 The Virtual Study dropdown is not populated when you navigate back to Explore Data
- #1471 Firefox is reverse sorting the Cohort Builder diagnosis card
- #1506 Open #files link in new tab redirects to dashboard
- #1520 Resources Menu is underneath columns selector on File Repository
- #1597 External links need an non-breaking space
- #1674 Cannot see the title of someone else's virtual study
- #1675 A line at the top of the participant table is not at the right location
- #1681 Bar charts: Number of participant should not be a fraction (have decimals)
- #1697 Available Data bar chart: minimum column height
- #1737 Dynamically update the data version
- #1830 Cohort builder: The "New" button should be enabled, when a virtual study is open
- #1835 "Age at diagnosis" chart: range should not overlap
- #1865 Some widgets overlap on top of the menu
- #1869 Active tab in Cohort Builder is lost
- #1872 Long query parameters overlaps the count of participants
- #1875 Available Data card: the titles at the bottom are cropped on Firefox
- #1876 Available Data card: the title on the left of the chart overlaps on Firefox
- #1877 Save dialog: pressing enter should not close the dialog anymore
- #1885 Saved queries widget: persistence of which tab is selected
- #1886 Available Data chart: sort the columns from most to least
- #1891 Issues with "Save" and "Load"
- #1897 Dashboard clickable charts: create a new query in a new virtual study
- #1921 Cohort builder: The line height of the description of the virtual study is too high
- #1930 Update data version API in prod
This release introduces new features and bug fixes.
- #1387 Virtual Study: Add a description
- #1467 Survival chart: reset zoom
- #1685 Change the link of studies and participants clickable diagrams in the dashboard to point to the cohort buider
- #1688 Query area: show number of participants for a query
- #1724 Persistence of which tab is active in the cohort builder
- #1795 Save dialog: pressing enter should close this dialog
- #1810 File page: Put "--" for missing values for "Sequencing read properties"
- #1820 Corrupted Virtual Studies in saved Riff or in the local storage cause the application to break on load
- #1836 Virtual studies: The vertical space for the comment section is too big
- #1832 Shared virtual study: the edit button should not be visible
This release introduces a few features and bug fixes after a larger release.
- #1741 Clickable charts: Most Frequent Diagnoses
- #1802 Change title of "Most Frequent Diagnoses" chart in the cohort builder
- #1803 Update field names in exported Participant data TSV file
- #1695 Remove field phenotype.ancestral_hpo_ids
- #1801 Clicking on a chart crashes the application when the virtual study contains a reference
As part of this release, we have forked the Overture projects to the Fids First team: Ego, Persona, Rollcall and Riff. We also improved significantly the documentation for the deployment of all services. We standardized the deployment process for Riff. We also did the investigation and implementation of the backend for login in with ORCID with Ego. Notably, many charts in the cohort builder are now clickable, and we've implemented the save/save as buttons. We've also updated the UI for the new ontological field format. See the list below for the issue numbers on GitHub.
- #1636 Update UI for the new ontological field format
- #1776 Use Diagnosis (Mondo) in the participants table
- #1533 Save a virtual study: both save and save as
- #1782 Virtual studies: Add an "Edit" button
- #1699 Limit the length of virtual study names in the dialog
- #1644 Save a virtual study: Check the permissions in Riff and Persona
- #1465 Cohort Builder: Make pie charts clickable in order to add a query term to the active query
- #1739 Clickable chart: Available Data
- #1639 "Search all filters": cannot find the "Age" filter
- #1705 Queries are lost when you navigate back to Explore Data
- #1707 Number of families is counted when it's none
- #1714 "is not" filter shows "is not" only when more than one item is checked
- #1779 When we disconnect and reconnect, no virtual study should be opened
- #1633 "Is Not" queries are badly displayed in the query section of the cohort builder
- #1753 ETL: Tissue type : anatomical site has their ID but no text value
- #1536 Improve error handling: add error boundaries for widgets
- #1537 Improve performances: implement a central state manager and its debugging tools