c7b5b1950fe8be7b567005338703e633de5e8b1d kuhn Mon Jul 12 13:07:24 2021 -0700 changed some wording to avoid giving impression that using liftOver and blat was ok without permission in all circumstances diff --git src/hg/htdocs/license/index.html src/hg/htdocs/license/index.html index 25eefac..8e2874c 100755 --- src/hg/htdocs/license/index.html +++ src/hg/htdocs/license/index.html @@ -1,131 +1,131 @@ <!DOCTYPE html> <!--#set var="TITLE" value="Genome Browser Licensing" --> <!--#set var="ROOT" value=".." --> <!-- Relative paths to support mirror sites with non-standard GB docs install --> <!--#include virtual="$ROOT/inc/gbPageStart.html" --> <h1>Graphics: No permission is needed to reproduce a graphic produced by the Genome Browser</h1> <p>Permission is granted for reuse of all graphics produced by the UCSC Genome Browser website. There is no need to contact us to get permission. If your publisher, notably Elsevier, insists on getting approval, please direct them to this webpage. However, 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>Data: No license is needed for the data files and database tables used by the Genome Browser</h1> <p> As far as the UCSC Genome Browser group is concerned, the raw table data and binary files used to create the graphics by the browser is freely available for both public and commercial use. This applies to data that is downloaded as files via http, https, ftp or rsync, and equally when data is accessed through the public MySQL server or via the web API. </p> <p>Sometimes, the source databases or authors place restrictions on the data. In very rare 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 from the Genome Browser tool suite, including LiftOver and BLAT, or +<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. When you use the UCSC Genome Browser in your work, please cite one of our <a href="../goldenPath/pubs.html">publications</a>. </p> <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). </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> <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 browser software and data.</li> </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 following directories are available without a license for all uses, academic, non-profit, and commercial: </p> <ul> <li> kent/src/utils (includes big* tools and C libraries, for reading and writing bigBed, bigWig and similar files)</li> <li> kent/src/lib</li> <li> kent/src/inc</li> <li> kent/src/tagStorm - tools and libraries for reading and writing hierarchical meta data files</li> <li> kent/src/parasol - a very fast cluster job scheduler</li> <li> kent/src/htslib - a third party library that we only distribute for convenience</li> <li> kent/src/hg/autoSql</li> <li> kent/src/hg/autoXml</li> </ul> <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. </ul> <!--#include virtual="$ROOT/inc/gbPageEnd.html" -->