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After some internal debate, I decided to generate what I'm considering to be a similar figure that highlights the things that I think are important (specifically the 3 things I feel the above doesn't convey), and label things with the terms I use to think about them. As mentioned several times, my background is biology, not computer science, and ultimately I think slightly inaccurate descriptive terms may help clear up some of the confusion.
Different Queues
The LS5 user guide has detailed information about the queues and what the limits are, but similar to the figures above, as a biologist the information in those tables isn't really what I tend to think about. Instead I think about the queues as follows:
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echo "My name is _____ and todays date is:" > GVA2020.output.txt date >> GVA2020.output.txt echo "I have just demonstrated that I know how to redirect output to a new file, and to append things to an already created file. Or at least thats what I think I did" >> GVA2020.output.txt echo "i'm going to test this by counting the number of lines in the file that I am writing to. So if the next line reads 4 I remember I'm on the right track" >> GVA2020.output.txt wc -l GVA2020.output.txt >> GVA2020.output.txt echo "I know that normally i would be typing commands on each line of this file, that would be executed on a compute node instead of the head node so that my programs run faster, in parallel, and do not slow down others or risk my tacc account being locked out" >> GVA2020.output.txt echo "i'm currently in my scratch directory on lonestar. there are 2 main ways of getting here: cds and cd $SCRATCH" >>GVA2020.output.txt pwd >> GVA2020.output.txt echo "over the last week I've conducted multiple different types of analysis on a variety of sample types and under different conditions. Each of the exercises was taken from the website https://wikis.utexas.edu/display/bioiteam/Genome+Variant+Analysis+Course+2020" >> GVA2020.output.txt echo "using the ls command i'm now going to try to remind you (my future self) of what tutorials I did" >> GVA2020.output.txt ls -1 >> GVA2020.output.txt echo "the contents of those directories (representing the data i downloaded and the work i did) are as follows: ">> GVA2020.output.txt find . >> GVA2020.output.txt echo "the commands that i have run on the headnode are: " >> GVA2020.output.txt history >> GVA2020.output.txt echo "the contents of this, my commands file, which i will use in the launcher_creator.py script are: ">>GVA2020.output.txt cat commands >> GVA2020.output.txt echo "finally, I will be generating a job.slurm file using the launcher_creator.py script using the following command:" >> GVA2020.output.txt echo 'launcher_creator.py -w 1 -N 1 -n "what_i_did_at_GVA2020" -t 00:15:00 -a "UT-2015-05-18" -j commands' >> GVA2020.output.txt echo "this will create a what_i_did_at_GVA2020.slurm file that will run for 15 minutes" >> GVA2020.output.txt echo "and i will send this job to the queue using the the command: sbatch what_i_did_at_GVA2020.slurm" >> GVA2020.output.txt |
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wc -l commands |
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