Sprint 5

Associated Release of ISB-CGC-Common: 2.4

Known issues in this sprint 5 as of 6/8/2016

• The user can add same gene twice if list has different names.
• The user can add same filter to existing cohorts.
• In the Create new Cohort page, the left filters (#) does not re-populate as you select filters to match the sample number in clinical feature panel.
• The bar chart renders overlapping text in the x-axis and y-axis for certain variables.
• A user cannot delete whom you share a cohort with from the existing cohorts table.
• On a worksheet with the Analysis Type : Seq peek, the formatting will display Elongated when the user selects a certain gene.
• CCLE data in GUI is currently not parallel the CCLE data in BigQuery.
• User currently cannot select a cohort in the color by feature section in a worksheet.
• The Gene list used for analysis currently uses genes similar as to original gene and well as the specific gene added to list, in the plot settings menu.
• The comments button for both workbooks/cohorts, if user clicks the comment button multiple times within one second will post duplicate comment.
• User currently cannot select gene HP or gene’s with only two letters in the Create Gene list favorite page.
• In Violin plot - the user has no ability to select a different gene once one is already selected.
• In the variable favorites table, the menu for a specific variable will be cut off once a certain set of variables list are exceeded.
• A 400 Error pop up window will appear as the user transitions from the File List page to IGV browser page.
• Public Data Availability section will be cut is user drags data type title to the left of the page away from the panel itself,in detail page of existing cohort.

Issues that are resolved in sprint 5 as of 6/8/2016

New Enhancements

• Upgraded system from using Django 1.8 to Django 1.9.
• A link to the google cloud platform has been added to the user details page.
• The TCGA filter is selected as the default project when creating a new cohort.
• When the user clicks on the browser back button, the user will remain on the same worksheet that they were previously on.
• When the user goes adds a new gene list, variable favorites list, and/or cohort from the worksheet data type panel, the button will display “Apply to Worksheet”.
• The feedback/help section has been moved to the top of the page to provide the user a more convenient way to send us feedback.

Bug Fixes

• User can no longer add a duplicate gene to same gene favorites list.
• To edit a gene name the user must now delete and re-type the desired gene name.
• The functionality of a duplicate worksheet drop down menu reflects the same functionality of the original worksheet.
• The Last Updated section reflects any changes made to the variable list, cohort list, and gene list in their corresponding tables.
• The File list page now allows the user to add a maximum of five files to use in the IGV browser between all the pages in the file list table.
• When a user hovers over clinical feature panel for Sample Type and Tumor Tissue Type the top row when hovered over the name is displayed clearly.
• Order by Ascending/Descending is working properly for Existing Cohorts table page.
• The user is now able to plot gene’s with a hyphen(-) in the gene name itself.
• The user is now able to download a maximum of 85,000 files at a time, in the File List page for a selected cohort.