075d7ed4100e881f951b1545728f27b7dc86067d max Tue Nov 23 02:04:33 2021 -0800 changes after code review, refs #28552, also adding the isPcr directory as per Jim to the new license files diff --git LICENSE LICENSE index 2f69d33..b7fe384 100644 --- LICENSE +++ LICENSE @@ -1,58 +1,58 @@ The default license of this repository is the MIT License (copied below), but LICENSE files in subdirectories override this default. As a result, the majority of the source code falls under the MIT license, however, some parts are under two non-commercial licenses (see below). The Genome Browser Web CGI programs are under a non-commercial license by UC, the BLAT program suite is -licensed by Kent Informatics. Two librarires are bundled for convenience and -are under their original open source licenses. +licensed by Kent Informatics. Two libraries are bundled for convenience, they +can be redistributed under their original open source licenses. As a result, if you are a non-commercial entity, you can use all the source code for free. However, if you are commercial, you may need to pay if you want to install a web-based Genome Browser locally or use BLAT locally (command line or web GUI). This means that all UCSC Genome Browser command-line tools and their required libraries are released under the MIT License. This includes our various file format converters, like bedToBigBed and wigToBigWig and any tools to create files needed for track hubs. They can be redistributed in any way necessary. In total, the code in this repository is covered by five different licenses: FREE Licenses: -1. the default MIT license (attached below) - - for example, all code to read and write the Genome Browser file formats, - such as bigBed and bigWig, and the command line tools for these, - bedToBigBed, wigToBigWig and the tagStorm tools and the parasol job +1. the default is the MIT license (attached below) + - this includes, for example, all code to read and write the Genome Browser + file formats, such as bigBed and bigWig, and the command line tools for + these, bedToBigBed, wigToBigWig and the tagStorm tools and the parasol job scheduler. - also, third-party code from open-source projects bundled for convenience, in src/htslib (MIT) 2. A modified BSD license for src/htslib/cram/, see src/htslib/LICENSE. Copyright (C) 2012-2014 Genome Research Ltd. 3. Public domain "with attribution" license, see src/optimalLeaf/LICENSE NON-COMMERCIAL licenses: 4. A non-commercial license from UC for the genome browser website code in the following subdirectories of src/hg/ (see the LICENSE files in these directories): - cgilib das encode hgApi hgCollection hgFileSearch hgFileUi hgGateway + cgilib hgApi hgCollection hgFileSearch hgFileUi hgGateway hgGene hgGenome hgIntegrator hgPal hgPcr hgPhyloPlace hgPublicSessions hgSession hgSuggest hgTables hgTrackUi hgTracks hgVai hgc hubApi near visiGene liftOver 5. A non-commercial license from Kent Informatics for the BLAT and isPCR code - in src/blat/ and src/jkOwnLib/, for more information see + in src/blat/, src/isPcr and src/jkOwnLib/, for more information see https://genome.ucsc.edu/license/ and http://www.kentinformatics.com/ See https://genome.ucsc.edu/license/ for more details and on how to obtain a license for commercial use for the licenses (4) and (5). Commercial users interested in BLAT should contact kent@soe.ucsc.edu for access to other modules including jkOwnLib and blat. The code in src/htslib is distributed under two licenses as noted in the LICENSE file in that directory. ---- MIT License Copyright (C) 2001 UC Regents