5297524cd0b7507aa3cce8a0bfddc8baa0e8fc8e max Tue Apr 19 02:52:34 2022 -0700 trying to make the LICENSE file easier to read, after email discussion with IATC diff --git LICENSE LICENSE index 87b11a2..23a87e6 100644 --- LICENSE +++ LICENSE @@ -1,69 +1,74 @@ 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 libraries are bundled for convenience, they -can be redistributed under their original open source licenses. +are under two different non-commercial licenses: These parts are +a) the Genome Browser Web CGI programs, are under a non-commercial license by UC +b) the BLAT program suite, licensed by Kent Informatics and under a different +non-commercial license. Their directories are listed below. 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, either -as the blat/gfServer/gfClient command line programs or the webBlat GUI +code for free. However, if you are commercial, you may need to buy a license if +you want to install a web-based Genome Browser locally or use BLAT locally, +either as the blat/gfServer/gfClient command line programs or the webBlat GUI running locally on your servers. -This means that all UCSC Genome Browser command-line tools and their required +All other UCSC Genome Browser command-line tools and their required libraries are released under the MIT License. This includes our various file format converters, such as 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: +The following sections list all licenses and which directories are covered by +which one. FREE Licenses: -1. the default is the MIT license (attached below) +1. As described above, 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, + - also, third-party code for reading BAM files 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 +3. A public domain "with attribution" license for sorting bigWig files, + see src/optimalLeaf/LICENSE NON-COMMERCIAL licenses: -4. A non-commercial license from UC for the genome browser website code in +4. A non-commercial license from UC for the genome browser interactive web code in the following subdirectories of src/hg/ (see the LICENSE files in these directories): 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/, 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. +for commercial use for the case (4) and (5): Commercial users interested in the +interactive Genome Browser web software listed under (4) should contact +genomebrowser@ucsc.edu. Those interested in BLAT, so any code listed under (5), +should contact kent@soe.ucsc.edu. -The code in src/htslib is distributed under two licenses as noted in the LICENSE +The code in src/htslib is distributed under a dual license as noted in the LICENSE file in that directory. +Mandatory acknowledgements for third party open source libraries that are used but not +distributed as part of this source tree are provided at https://genome.ucsc.edu/license/ ---- MIT License Copyright (C) 2001 UC Regents Permission is hereby granted, free of charge, to any person or non-commercial entity obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.