This is a heads-up that we are actively working on reorganizing the documentation to make it more accessible, as a prelude to building new documentation on topics not currently covered. As part of this reorganization, many small articles will be renamed and moved to different sections, and the large monolithic articles such as "FireCloud Basics" in the Help Topics section will be broken down into more digestible topical documents. A "Quickstart" guide will also be added in the near future to provide a path of minimal effort for new users to get started with FireCloud.
In addition, I want to highlight that we are moving the documentation that covers cancer analysis-specific materials, such as the list of Best Practice workflows and TCGA reference files, to a dedicated section called Cancer Genome Analysis. We believe this will make it easier to find relevant materials depending on whether you're trying to figure out how to use FireCloud features in general versus looking for cancer analysis-specific guidance. We expect to add additional such analysis categories as FireCloud's userbase grows to encompass analysis use cases beyond cancer.
We will do our best to minimize disruption during this period, but there will inevitably be some breaking changes, which will ultimately be for the better. If you have trouble finding content that you previously used or bookmarked, just post a comment in this thread and we'll point you to the new form or location of the content you're looking for.
Thanks for your patience! We welcome your feedback and questions in the comments below.
This week is the big Boston-based biotech conference and trade show, Bio-IT World, and we're excited to demo FireCloud to the assembled hordes of biotech and biomedical professionals. Specifically, our good friends at Google Cloud will be hosting us at their booth in the Exhibit Hall (booth 261), Boston Seaport, at the following times:
Tuesday, May 23
Wednesday, May 24
Thursday, May 25
So if you were already planning to attend the conference, make sure to swing by during one of those times! We can walk you through performing basic operations in FireCloud if you're new to the platform, and in general we'll do our best to answer your most burning questions on any FireCloud topic. Also we promise to keep the cringe-worthy puns to a minimum.
And keep in mind, if you're local and biotech-curious but hesitant to shell out the cash for a full ticket, you can get a free pass to the Exhibit Hall that allows you to come see us for the low, low price of no money at all.
See you there!
This week's release is entirely UI (User Interface) changes. These changes are designed to make your experience using FireCloud much more straight forward.
Sharing...link previously found in the main body of the Summary page of a Workspace is now a
Share...button in the left panel of buttons.
Clone...) Buttons that just spawn 'are you sure?' style confirmations do not.
Monitortab. (screenshot right)
Clone...button. Cloning brings up the usual Create Method dialog, but with synopsis, description, and wdl pre-populated from the old method, and "_copy" added to the name.
"This has tabs"would parse as 3 separate columns. This has now been fixed so you see a single column containing all the text in your quotation marks.
BLAHgs://), Firecloud would try to trim the display to remove the plain text. We no longer do that.