Readme and license (#7)
* Initial cleanups on top sections of readme
Everything starting with the Building header still needs to be cleaned
up.
* Cleaning up the quickstart and updating sample data configs.
* Restructure README and add evaluation of sample data
* Adding license information and seeking help
* updating paths for build output
* Updating gradle install command
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Apply suggestions from code review
Co-Authored-By: Michael Macias <michael.macias@stjude.org>
* Update README.md
* Update DNAnexus app to use the input file name prefix.
* Update view_awk_picard.sh to call awk directly to get around limitations on using the shebang with env to find awk and run with arguments.
