Overview
Before you start the alignment and analysis processes, it can be useful to perform some initial quality checks on your raw data. If you don't do this (or even if you do), you may notice later that something looks fishy in the the output: for example, many of your reads are not mapping or the ends of many of your reads do not align. Both can give you clues about whether you need to process the reads to improve the quality of data that you are putting into your analysis.
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idev -m 240 -r CCBB_5.22.17PM -A UT-2015-05-18 # This should return the following: # We found an ACTIVE reservation request for you, named CCBB_Bio_Summer_School_2017_Day15.22.17PM. # Do you want to use it for your interactive session? # Enter y/n [default y]: # If for any reason you don't see the above message let us know by raising your hand. # Your answer should be y, which should return the following: # Reservation : --reservation=CCBB_Bio_Summer_School_2017_Day15.22.17PM (ACTIVE) # Some of you may see a new prompt stating something like the following: # We need a project to charge for interactive use. # We will be using a dummy job submission to determine your project(s). # We will store your (selected) project $HOME/.idevrc file. # Please select the NUMBER of the project you want to charge.\n # 1 OTHER_PROJECTS # 2 UT-2015-05-18 # Please type the NUMBER(default=1) and hit return: # If you see this message, again let us know. # You will then see something similar to the following: # job status: PD # job status: R # --> Job is now running on masternode= nid00032...OK # --> Sleeping for 7 seconds...OK # --> Checking to make sure your job has initialized an env for you....OK # --> Creating interactive terminal session (login) on master node nid00032. # If this takes more than 1 minute get our attention. |
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From the OPTIONS: section of the idev help output: -m minutes sets time in minutes (default: 30) -r reservation_name requests use of a specific reservation -A account_name sets account name (default: -A none) So you requested an idev node for 240 minutes, using the reservation named CCBB_5.22.17PM, and asked that it be charged to the account named UT-2015-05-18. |
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