beba46faf8f7d9125df01839fbc8fc9eed23ae35 max Thu Nov 18 05:52:08 2021 -0800 changes to a few licensing pages after questions from Dan, refs #27614 diff --git src/hg/htdocs/license/index.html src/hg/htdocs/license/index.html index feacb2b..7ffa5f0f 100755 --- src/hg/htdocs/license/index.html +++ src/hg/htdocs/license/index.html @@ -25,53 +25,95 @@ cases, the genomes come with citation requirements. The README.txt file in the download directory of each assembly shows the original restrictions pertaining to the genome sequence itself by the original authors; most assemblies do not have any restrictions. </p> <p> Certain genome annotation data, mostly on the human genome and in the domain of clinical genetics, have specific restrictions. Usually the data must be obtained from the source database directly in the original format or licensed, rather from UCSC. Examples are HGMD, LOVD, OMIM, Decipher, Genomenom, Genehancer and COSMIC, as well as any GISAID-derived data on viral genomes. Please see the respective track documentation pages on these assemblies for more details, by selecting the assembly and clicking the track title in the genome browser.</p> <br> -<h1>Software: Commercial use of the Genome Browser software and related tools available -from our website and source code repository</h1> -<p>When using applications on the Genome Browser website, including LiftOver and BLAT, or -data from the UCSC Genome Browser database in a research work that will be published in a journal -or on the Internet, there is no need to get permission from us. -Download of these utilities is subject to license terms. -When you use the UCSC Genome Browser in your work, -please cite one of our <a href="../goldenPath/pubs.html">publications</a>. +<h1 id="free">Software: Most command-line tools and directories are freely available for all uses</h1> +<p> +The majority of the Genome Browser source code is available under the +MIT license, see +<a href="https://github.com/ucscGenomeBrowser/kent/blob/master/LICENSE" target=_blank>the file LICENSE in our +source code repository</a>. As such, the Unix command line utilities needed to build tracks and track hub +files, or that can be part of computational pipelines except BLAT/liftOver, and our +hundreds of tools to filter , sort, rearrange, join and process genome +annotation files, can be used by anyone freely and they can be redistributed +via package managers and installation tools, even for commercial use. +Notable examples are bedToBigBed, wigToBigWig, overlapSelect, featureBits, +pslMap, pslFilter and pslCDnaFilter. </p> + +<p> +The exception are kent/src/blat, kent/src/jkOwnLib and the +the programs that produce the graphical images and the graphical user interface +for the UCSC Genome Browser, the following subdirectories under kent/src/hg: +</p> + +<p> +<pre>cgilib das encode hgApi hgCollection hgFileSearch hgFileUi hgGateway hgGene hgGenome hgIntegrator hgPal hgPcr hgPhyloPlace hgPublicSessions hgSession hgSuggest hgTables hgTrackUi hgTracks hgVai hgc hubApi near visiGene liftOver</pre> +</p> + +<p> +See the LICENSE file in the top level of our source code for a listing of licenses and directories that they apply to: +<a href="https://github.com/ucscGenomeBrowser/kent/blob/master/LICENSE">https://github.com/ucscGenomeBrowser/kent/blob/master/LICENSE</a>. +</p> + +<p>When you use the UCSC Genome Browser in your work, please cite one of +our <a href="../goldenPath/pubs.html">publications</a>.</p> + +<h1>Software: download and local installation of the graphical Genome Browser software +and access to the source code is free for non-commercial uses but not commercial usage</h1> +<p>Non-commercial usage for the Genome Browser graphical interface (primarily the "hgTracks" program), +including download and local installation, aka setting up a +<a href="../goldenPath/help/mirror.html">"mirror"</a>, is free. When you use the UCSC +Genome Browser in your work, please cite one of our <a + href="../goldenPath/pubs.html">publications</a>. </p> + +<p> +For commercial use, a license is required for download and local installation of +certain Genome Browser webserver CGI binaries and source code. +As specified above, this applies to the following subdirectories and programs under kent/src/hg, these are the +programs that produce the graphical images and the graphical user interface for the UCSC Genome Browser: +<br> + <p> -Aside from publications, the Genome Browser binaries and source code are freely -available for academic, nonprofit, and personal use. A license is required for -commercial download and installation of -most Genome Browser binaries and source code, with the exception of the items -in the section <a href="#free">"Software: Tools and directories freely -available for all uses"</a> below. BLAT and isPCR, if needed, are covered by a -separate license (see below). +<pre>cgilib das encode hgApi hgCollection hgFileSearch hgFileUi hgGateway hgGene hgGenome hgIntegrator hgPal hgPcr hgPhyloPlace hgPublicSessions hgSession hgSuggest hgTables hgTrackUi hgTracks hgVai hgc hubApi near visiGene liftOver</pre> +</p> + +<p> +Also, BLAT and isPCR, if needed, are covered by a separate license (see below). This concerns the source code directories +src/blat and src/jkOwnLib. </p> <p> To purchase a commercial license for Genome Browser source code, LiftOver, GBiB, or GBiC, please visit the <a href="https://genome-store.ucsc.edu">Genome Browser store</a>. </p> +We also have an <a href="../FAQ/FAQlicense.html">FAQ on licensing questions</a> +which may help to clarify questions on how to license the code. We also have documentation +on how to choose the best way to install a local installation of the Genome Browser, also called a +<a target=_blank href="../goldenPath/help/mirror.html">"mirror"</a>. + <p> If you would like to purchase more than 20 copies of the Genome Browser source code, please follow these instructions: <ol> <li> Read and sign the <A HREF="gbLicense2020.pdf" target=_blank>licensing agreement</a>.</li> <li> Email a signed copy of the license agreement to the UCSC Office for IP Management (<A HREF="mailto:genomebrowser@ucsc.edu" >genomebrowser@ucsc.edu</A>). <!-- above address is genomebrowser at ucsc.edu --> <li> Follow the instructions in the license agreement for submitting the signed original copy and payment.</li> <li> After your license application has been processed, you will receive instructions for downloading the @@ -79,45 +121,24 @@ </ol></p> <p> Genome Browser licensing questions should be directed to <a href="mailto:genome-www@soe.ucsc.edu">genome-www@soe.ucsc.edu</a>. <!-- above address is genome-www at soe.ucsc.edu --> For information about commercial licensing of the Blat and In-Silico PCR tools, see the <a href="http://www.kentinformatics.com" target=_blank>Kent Informatics</a> website or contact <a href="mailto:kent@soe.ucsc.edu">kent@soe.ucsc.edu</a>.</p> <!-- above address is kent at soe.ucsc.edu --> <p> See the LICENSE file in the top level of our source code for a listing of licenses and directories that they apply to: <a href="https://github.com/ucscGenomeBrowser/kent/blob/master/LICENSE">https://github.com/ucscGenomeBrowser/kent/blob/master/LICENSE</a>. <p> <br> -<h1 id="free">Software: Tools and directories freely available for all uses</h1> -<p> -The Genome Browser source code is available for free under the MIT license -(see <a href="https://github.com/ucscGenomeBrowser/kent/blob/master/LICENSE" target=_blank>LICENSE on Github</a>), -except for the following subdirectories under kent/src/hg: -<br> - -<p> -<tt>cgilib das encode hgApi hgCollection hgFileSearch hgFileUi hgGateway hgGene hgGenome hgIntegrator hgPal hgPcr hgPhyloPlace hgPublicSessions hgSession hgSuggest hgTables hgTrackUi hgTracks hgVai hgc hubApi near visiGene</tt> -</p> - -<p> -See the LICENSE file in the top level of our source code for a listing of licenses and directories that they apply to: -<a href="https://github.com/ucscGenomeBrowser/kent/blob/master/LICENSE">https://github.com/ucscGenomeBrowser/kent/blob/master/LICENSE</a>. -</p> - -<p>When you use the UCSC Genome Browser in your work, please cite one of -our <a href="../goldenPath/pubs.html">publications</a>.</p> - -<br> <h1>Acknowledgements</h1> <p> This software includes software made by open-source projects: <ul> <li> htslib, see <a href="https://doi.org/10.1093/gigascience/giab007" target=_blank>Bonfield et al, 2021</a>: Copyright (C) 2012-2020 Genome Research Ltd., see kent/src/htslib <li> optimalLeaf, see <a href="https://www.ncbi.nlm.nih.gov/pubmed/12801867" target=_blank>Bar-Joseph et al. 2003</a>: released into the public domain by Ziv Bar-Joseph, see kent/src/optimalLeaf. <li> Portions of this software are copyright 2020 The FreeType Project (www.freetype.org). All rights reserved. - <li> This software uses the (URW)++ fonts, Copyright 1999 by (URW)++ Design & Development. The files are not in git but can be obtained via rsync or ftp from hgdownload.soe.ucsc.edu/htdocs. -</ul> + <li> This software uses the (URW)++ fonts, Copyright 1999 by (URW)++ Design & Development. The files are not in git but can be obtained via rsync or ftp from hgdownload.soe.ucsc.edu/htdocs. </ul> <!--#include virtual="$ROOT/inc/gbPageEnd.html" -->