8_1_2014 StarCellBio Status Update

Items completed for Instructor Account

• Navigation for all of the screens in the builder (for Facs and Microscopy, the pages exist but are void except for a save and continue button, which just continues with the program and resaves the information in the assignment model so far).
• Side bar (all the links are working)*
• Experiment Setup sorter and all parts of Experiment Setup functioning.
• Western Blot section is fully functioning
• Adding a new course and new assignment works.
• Public and Private permissions are clearly defined in backend.
• All data for assignment is saved appropriately.
• Instructor MainFrame (InstructorFrame.js) is fully finished for its parser for all the screens after WesternBlot

Items completed for Notebook

• Everything is saved
• Can add text, images, and sections
• You see the menu of what you can add. Everything works correctly for adding, except for the two issues with Western Blot and Microscopy
• Fully functional with minor bugs, if any
• Tested thoroughly

Items left for Instructor Account

• Remove strain name in antibody intensity table to make it look cleaner
• Side bar links dynamically show up based on how much of builder you have completed
• Changing Public and Private on assignments
• Making view option
• The three actions in the dashboard
• The top navigation bar that shows progress
• There is a parameter in the model that is not updated with western blot. This is the order parameter in the assignment model, it determines the order for the items in the dialog (useful for randomize). This is not currently updated when the new antibodies are listed. It would be an addition to the WesternBlotPage2View.js file.
• There is a parameter in the model that is not updated with experiment setup. This is the order parameter in the assignment model, it determines the order for the items in the dialog (useful for randomize). This is not currently updated when the new strains are listed. File TBD.
• Currently the parser only parses strains and treatments (i.e. cell_lines and drugs). So western blot combinations are only determined by two variables, not by all the variables specified. The assignment model needs to be changed. WesternBlotPage4View.js logic needs to be changed to reflect this. Also, the logic for the WesternBlotModelFactory needs to change to reflect a more complex parser to account for these extra variables.
• Back button is not formed.
• Adding to an existing course or using an existing template assignment contains bugs and needs to be fixed.
• Accessing the StarCellBio exercises that are stock exercises are secure.
• 1. "Treatment" should be automatically selected, but treatment concentration is its own optional variable and 2) after selecting and defining my experiment setup variables, I think that all of the combinations were not calculated correctly. It seemed like some protocols were duplicated but others may have been missing.
• FACS and Microscopy sections need to be developed, but framework is there.
• Remove icons for some of the "ADD" sections for textbox lists are not there or are there for all items, including the first. Distinguishing the first row and also adding the remove icons in some places needs to be done.
• Right now, Sign In and Not a Member creates errors when creating an account. Try Create a Student Account or Create an Instructor Account.
• Allow instructor to add their own units to the concentration list
• Group By functionality for Experiment Setup Page 3 (question 4)
• Apply All functionality in Western Blot builder screens (lysate type, screens 3 and 4)

Items left for Notebook

• When adding Microscopy lens images to the notebook, the image does not show up in the lens
• When adding Western Blot, while the blots are added correctly to the page, when you first add a blot to the page, you are redirected to the western blot page in the experiment. If you navigate back to the notebook, you will see that it accurately add the blot. This also happens when you add any other element. It should be a quick fix. *Making UI look nicer

Other items to be finished

• STAR website design
• Fixing Accessibility issues when feedback arrives
• adding icons to the interface as needed

Additional Notes

• Since the collection times does not require a text edit field, it occurred to me that we don't need a drop down for units for the user for the duration and start time, since the time is not actually used in the logic (it is an arbitrary value associated with that protocol). So that could lighten up the top row for the experiment setup page that defines the treatment protocol values.