2016 04 11 CyVerse Training Day - EMBL-ABR
Organizers: | V. Schneider, J. Williams |
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Local Point of Contact: | |
Trainers: | Jason Williams |
Date: | April 11, 2016 |
Location: | Lab-14 Seminar Space, VLSCI – The University of Melbourne 700 Swanston St (cnr Grattan St), Carlton, VIC 3053, Australia |
Required Workshop Prep
1. CyVerse Account
Get your free account at http://user.iplantcollaborative.org/ . Please register with an institutional email account as only this will give you access to the CyVerse cloud service Atmosphere (see next bullet).
2. Atmosphere Access
Once you have your account, go to http://user.iplantcollaborative.org/ and log in. Under "Apps and Services," scroll down to "Available Services" and request access to Atmosphere. Indicate that you are attending a workshop when you are asked for justification. (This will only be granted if you registered for CyVerse using an institutional account; see above.)
3. Laptop
Please bring your own WiFi enabled laptop to the workshop. Make sure your laptop has the following:
Internet Browser: Please have an up-to-date web browser - We strongly recommend Firefox or Safari
Data Store: Download and install iCommands (iCommands for your OS)
VNC Viewer: Download the DMG (for MAC) or exe (for PC) (http://www.realvnc.com/download/viewer/)
Windows Users only: Download and install PuTTY (http://www.chiark.greenend.org.uk/~sgtatham/putty/download.html)
Download Cyberduck: Using Cyberduck for Uploading and Downloading to the Data Store - Installing and Configuring Cyberduck
4. Pre-Workshop Guide and Homework
Download and complete the exercises in the PRE-WORKSHOP PACKET to get the most out of the workshop.
Complete this Pre-Workshop Survey
Note (4/9): The wiki instructions for iCommands are not rendering properly. If you are setting up iCommands, you will need the following info when prompted.
Prompt | Entry |
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irodsHost | |
port | 1247 |
zone | iplant |
irodsUserName | your cyverse username |
Current iRODS password | your cyverse password |
Instructional Materials
You can download a copy of the workshop packet (CyVerse Toolkit) to follow along:
Workshop Program (DAY 1)
Time | Description | Toolkit | Slides | Tutorial | Links |
09:00 AM | Arrive / Sign-in / Setup Troubleshooting |
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09:15 AM | Welcome - Presenter/Participant Self-Introductions |
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09:30 AM | Overview of the CyVerse |
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09:45 AM | Managing "Big Data" using the CyVerse Data Store |
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10:30 AM | Coffee Break |
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10:45 AM | Navigate the CyVerse Discovery Environment (DE)
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11:15 AM | Workflows and HT-Jobs in the DE. |
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12:00 PM | Lunch Provided |
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01:00 PM | DNA Subway (Workflows for Bioinformatics Education) |
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01:15 PM | Using the DE for RNA-Seq |
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01:45 | Stretch Break |
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02:15 PM | Atmosphere Cloud Computing |
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03:00 PM | Advanced CyVerse Applications |
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