Significant differences were revealed between FreeSurfer version v5.0.0 and the two earlier versions. We investigated the effects of data processing variables such as FreeSurfer version (v4.3.1, v4.5.0, and v5.0.0), workstation (Macintosh and Hewlett-Packard), and Macintosh operating system version (OSX 10.5 and OSX 10.6). The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements We see that even if research is rerunnable the results can be different! Our computers can’t talk to each other easily!
We call this aspect of reproducibility computational reproducibility, and it’s in my opinion the biggest blocker of reproducibility in research. In this penultimate class, we’ll take a look at how we can achieve reproducibility fully, with the computational environment.
So far in the course, we’ve addressed the top three layers of reproducibility. Original content is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.Īt the end of a project, it’s a good idea to take all your great data and project management skills and make what’s called a research compendium or a reproducible package of all your work! This is a package that contains all of the things necessary to reproduce your work, taking even the computational environment into account. 3.4.3 Pushing to a git hosting platform!.3.3.2 Knit the document and get your final file!.3.3.1 Creating a reproducible document in RMarkdown.3.3 Literate Programming with RMarkdown.1.6.2 Sync a fork with the original repo!.1.6 Syncing local changes to your hosting platform!.1.4.2 Getting started in the repository.Click on the down arrow to the right of Keyboard. Clicking on the bottom right corner of the shelf (same place that you see battery and clock info).Ģ. The keyboard settings are likely set to International mode. Lab tasks requiring quotation marks won't pass because the marks show as two small dots Simply hold the ‘Alt’ key and press the Backspace button, this will function as the Delete key. You can use the Alt + Backspace keys to work as Delete. This disables the shortcut functionality of your Chromebook’s shortcut keys and enables their function as F-keys. Check the Treat Top-Row Keys as Function Keys checkbox.This loads the Keyboard Settings overlay. Scroll down to the Device section and click Keyboard Settings.This loads your Chromebook settings into a Chrome browser window. In the resulting Settings menu, choose Settings.Click the Settings panel in the bottom right corner of your Chromebook screen.Other common issues and their work-arounds for Chromebook users: Students that experience freezing during exams can contact us and/or follow the advice in this article (especially point 8): Troubleshooting-Slowness-Unresponsiveness-or-Freezing-during-TestOut-Lab-Simulations-Expanded-Edition.This may also be the only way to bypass unexpected programming conflicts that might be encountered when working in ChromeOS. This is especially recommended for exams with multiple lab simulations in them. See this article: What-are-the-system-requirements-for-the-TestOut-software. If possible, do the labs on a different computer that meets our recommended specifications.When running only on battery power, many laptops and notebooks limit how hard the CPU can work, further slowing the labs down. While using Labsim, keep the Chromebook plugged in, and not just on battery power.Disable any and all unneeded browser extensions while using LabSim.Restart the computer, and make sure to have as few programs and browser tabs running as possible, to reserve all possible CPU power and memory for the TestOut labs.If users run into problems with slowness or unresponsiveness using a Chromebook, try the following:
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