Page Comparison

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cp /corral-repl/utexas/BioITeam/scriptsgva_course/GVA2021.bashrc .bashrc
cp /corral-repl/utexas/BioITeam/scriptsgva_course/GVA2021.profile .profile
chmod 700 .bashrc
chmod 700 .profile

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Note that this may not be an inclusive list as it requires the name of the program, or its description to contain the word "alignment". Looking through the results you may notice some of the programs you already know and use for aligning 2 sequences to each other such as blast and clustalw. Try broadening your results a little by searching for "align" rather than "alignment" to see how important word choice is. When you compare the two sets of results you will see that one of the new results is:

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bash Miniconda3-py39_4.9.2-Linux-x86_64.sh
logout
#log back in using the ssh command. 
conda config --set auto_activate_base false

For help with the ssh command please refer back to Windows10 or MacOS tutorials. If you log out and back in 1 more time, what do you notice is different?

The first time you logged back in, your promt should have looked like this:

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The second time you logged back in, your prompt should now look like this:

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Following the installation prompts you will need to:

1. hit enter to page through the license agreement
2. enter 'yes' to agree to said license agreement
3. enter to confirm the default installation location

4. enter 'yes'  to initialize Miniconda3 by running conda init?

logout
#log back in using the ssh command. 
conda config --set auto_activate_base false

For help with the ssh command please refer back to Windows10 or MacOS tutorials. If you log out and back in 1 more time, what do you notice is different?

The first time you logged back in, your prompt should have looked like this:

(base) tacc:~$

The second time you logged back in, your prompt should go back to looking like it did before you installed conda:

tacc:~$

If your prompt is different, please get the instructor's attention.

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conda create --name GVA2021
# enter 'y' to proceed
conda activate GVA2021

This will once again change your prompt. This time the expected prompt is:

Again if you see something different, you need to get the instructors attention. For the rest of the course, it is assumed that your prompt will start with (GVA2021) if not, remember that you need to use the conda activate GVA2021 command to enter the environment.

3. Using miniconda on TACC

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