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Access this Binder by clicking the blue badge above or at the following URL:

https://mybinder.org/v2/gh/ncbi/finding-data-demo-08-21/HEAD

This is a Binder-compatible repo to support the demo notebook for an NCBI Minute Webinar Delivered on August 18, 2021. The notebook will continue to work after the webinar.

If you want to use this notebook on your own machine, be sure to install the requirements found in the binder folder.

Here us an explanation of the files in the binder folder.

• environment.yml - conda installs for relevant python packages

• apt.txt - tools loaded usingapt on an ubuntu server (e.g. for samtools, typesudo apt install samtools -y

• postBuild - postbuild installation script - these programs can be loaded on your notebook server by running this as a bash script. To load these programs on a local machine, just change the script to replace/srv/conda/bin tousr/local/bin or another location in $PATH to use the commands as written in the notebook.

Theenvironment.yml file should list all Python libraries on which your notebooksdepend, specified as though they were created using the followingconda commands:

conda activate example-environmentconda env export --from-history -f environment.yml

Note that the only libraries available to you will be the ones specified intheenvironment.yml, so be sure to include everything that you need!

Also note that if you skip the--from-history, conda may include OS-specificpackages inenvironment.yml, which you would have to manually prune fromenvironment.yml. For example, confirmed macOS-specific packages that shouldbe removed are:

• libcxxabi=4.0.1
• appnope=0.1.0
• libgfortran=3.0.1
• libcxx=4.0.1