BioUML user interface

BioUML web edition interface.

BioUML workbench interface.

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In either version the platform has a WIMP graphical user interface.

Both in the BioUML workbench and BioUML web edition the following areas can be found (see the figures):

A — the tabbed repository pane, where you find a collection of Databases, the uploaded Data files and the available Analyses methods (under the corresponding tabs), organized in a hierarchical tree structure. Here you can also see a list of Users involved with the current project.

B — the document pane (aka main pane or workspace), which is the part of the window where contents of projects and databases are viewed and handled. There can be as many tabs in the pane as there are diagrams, workflows, tables etc. opened in the workbench at the moment.

C — the information box containing tabs for the property inspector, which displays information about the data file or analysis method selected in the navigation pane above, and the text search engine.

D — the viewparts area, providing a number of options under the different tabs in a context-dependent manner.

E — the general control panel, the topmost bar showing a context-dependent set of icons for the available operations.

F — the repository pane toolbar containing a set of icons for the available operations depending on the item selected in the tree structure of the navigation pane.

List of icons

Repository pane

Tree actions (web edition)

Run workflow
Open external link
Open diagram
Open view
Open track
Open sequence
Open table
Open text document
Open optimization
Open analysis
Open script
Open document
Open image
Open plot
Open as table
Download file
Start chat
Group chat
Edit work
Expand/collapse
New element
New JS script
New R script
New workflow
New diagram
New work
New folder
New optimization
View
Import
Export
Save a copy
Copy folder
Remove
Remove project
Find project

Database types

Public database with read access
Protected database with read access enabled
Public database with read access, write access disabled
Public database with read access, write access enabled
Public database with read and write access
Local database
Remote protected read-only database (no access)
Remote protected read-and-write database (no access)

Element types

Information box

View the information in a new window / browser tab
Edit the element description displayed in the Info tab (only for users' own files; fields highlighted in pink are editable)
Launch search for the entered term in the selected database