4677e4639ee53f9c3556c2c195db517f7e4e1618 clmfisch Fri Mar 6 16:08:14 2026 -0800 Update to store after code review, did not change verb tense yet. diff --git src/hg/htdocs/store.html src/hg/htdocs/store.html index 2ef6d56e5ea..d87b1d6e26b 100755 --- src/hg/htdocs/store.html +++ src/hg/htdocs/store.html @@ -1,150 +1,68 @@ <!DOCTYPE html> <!--#set var="TITLE" value="Genome Browser Store" --> <!--#set var="ROOT" value="." --> <!-- Relative paths to support mirror sites with non-standard GB docs install --> <!--#include virtual="$ROOT/inc/gbPageStart.html" --> <!--#include virtual="$ROOT/redmineWidget.html" --> <h1>UCSC Genome Browser Store</h1> <p> -<style="color: red;">All products offered are free for personal and non-profit academic research use.</span> Commercial use requires purchase of a license with setup fee and annual payment. A non-profit organization in service to a for-profit organization must purchase a commercial license, even if the latter already possesses a commercial product license. +<span style="color: red;">All products offered are free for personal and non-profit academic research use.</span> Commercial use requires purchase of a license with setup fee and annual payment. A non-profit organization in service to a for-profit organization must purchase a commercial license, even if the latter already possesses a commercial product license. </p> <p> During checkout, non-profit academic users will be given the option to declare that they are not using the products commercially and qualify for a free license. </p> <p> Please address all questions and comments about the UCSC Genome Browser Store to <strong>genome-browser-store-group@ucsc.edu</strong>. </p> +<p> +To make a purchase, or access download links as a personal or non-profit academic research use, please use our Google Form: -<!-- -<table class="table"> - <tr> - <td> - <h2>Genome Browser in a Box (GBiB)</h2> - </td> - </tr> - <tr> - <td> - - <div class="product-details">Genome Browser in a Box (GBiB) is a small, virtual machine version of the UCSC Genome Browser that can be run on your own laptop or desktop computer. Annotation data is loaded on demand through the Internet from UCSC or can be downloaded to your machine for faster access. Once GBiB is installed, you use a web browser to access the virtual server running on your own machine and add personal data files from your local hard disk. A more detailed description of this tool and how to use it is available at <a href="https://genome.ucsc.edu/goldenpath/help/gbib.html" target="_blank">https://genome.ucsc.edu/goldenpath/help/gbib.html</a>.</div> - - - - <div class="product-eula"> - - <a href="https://genome-store.ucsc.edu/media/eula/2019/10/14/UCSC_GB_EULA.pdf" target="_blank">Terms and conditions</a> - - </div> - - - - <div class="product-price"> - - <strong>One time setup fee:</strong> $1200<br> - - - - <strong>Cost per year:</strong> $1320<br> - - - <strong><span style="color:red">Cost for non-profit academic research use:</span></strong> Free<br> - </div> - - <div class="product-version"> - - <div class="product-size"> - <strong>Size:</strong> 10.8 GB - </div> - - <div class="product-requirements"> - <strong>System Requirements:</strong><br> - GBiB will run on most modern PCs and major operating systems that meet these basic requirements: -<ul> -<li>The computer must support virtualization (common for most PCs sold after 2010).</li> -<li>A compatible version of the <a href="https://www.virtualbox.org/" target="_blank">VirtualBox Software</a> must be installed. This software is free to use in many situations. See the VirtualBox wiki for <a href="https://www.virtualbox.org/wiki/Licensing_FAQ">licensing terms and conditions</a> and <a href="https://www.virtualbox.org/wiki/Downloads">installation</a> instructions. We have tested and confirmed that GBiB works using version 4.3.6 or above. Note that you must have administrator rights for your computer to install VirtualBox.</li> -<li>The computer disk must have at least 25 GB of free space (more if you plan to mirror many tracks).</li> -<li>Your network firewall must allow connections on the following ports: -<ul> -<li>Port 3306, used by MySQL. Without this, only mirrored tracks are shown.</li> -<li>TCP port 873, used by rsync. Without this, you cannot download track data.</li> -</ul></li> -<li> The GBiB product includes executable versions of <a href="http://www.linux.org/" target="_blank">LINUX</a>, <a href="http://httpd.apache.org" target="_blank">Apache</a>, and <a href="http://dev.mysql.com" target="_blank">MySQL</a>. Please follow the links to determine if you have the correct license for each of these open source programs</li> -<li>The Online Mendelian Inheritance in Man (<a href="http://www.omim.org/help/agreement" target="_blank">OMIM</a>) content in the GBiB is copyrighted and owned by Johns Hopkins University. Use of the copyrighted material solely within GBiB is permitted. Redistribution or repackaging of the copyrighted material requires a license from Johns Hopkins University.</li> -</ul> - </div> - - - <div class="product-includes"> - <strong>Product includes:</strong><br> - <ul> -<li>The Genome Browser in a Box setup program. This program:</li> -<ul> -<li>downloads the Genome Browser CGIs, HTML, and Javascript files</li> -<li>configures the machine to download supporting data files from UCSC</li> -<li>(optionally) downloads the UCSC command line tools to itself</li> -<li>automatically updates software (including non-gb software) and data</li> -</ul> -<li>Pre-downloaded version of the hg19 database (not the full set but a majority of tables).</li> -<li>Pre installed versions of Apache and MySQL.</li> -</ul> - </div> - - - <div class="product-not_includes"> - <strong>Product does not include:</strong><br> - <ul> -<li>The UCSC Genome Browser source code.</li> -<li>Virtual Machine software required to run GBiB.</li> -</ul> - </div> - +<div style="text-indent: 20px; margin: 10px; padding-bottom: 20px;"> +<a href="https://docs.google.com/forms/d/e/1FAIpQLScfrAUZiRQVCyUOymn5OITcKdcEkIOiFsLvXeCUX0hUrcsMDQ/viewform" target="_blank">https://docs.google.com/forms/d/e/1FAIpQLScfrAUZiRQVCyUOymn5OITcKdcEkIOiFsLvXeCUX0hUrcsMDQ/viewform</a> </div> - </td> - </tr> -</table> - ---> +</p> <table class="table"> <tr> <td> <h2>Genome Browser source code</h2> <div class="product-details">The Genome Browser source code consists of all of the software files necessary to build and compile a full mirror site of the Genome Browser on your own server. Additionally, it builds more than 200 bioinformatics command-line utilities. You must also obtain and install Apache, MySQL and other software packages (see ‘system requirements’).</div> <div class="product-eula"> <a href="https://genome.ucsc.edu/store/UCSC_GB_EULA.pdf" target="_blank">Terms and conditions</a> </div> <div class="product-price"> - <strong>One time setup fee:</strong> $7200<br> + <strong>One time setup fee:</strong> $7,200<br> - <strong>Cost per year per user:</strong> $1200 (5 users minimum)<br> + <strong>Cost per year per user:</strong> $1,200 (5 users minimum)<br> <strong><span style="color:red">Cost for non-profit academic research use:</span></strong> Free<br> </div> <div class="product-version"> <div class="product-size"> <strong>Size:</strong> 110 MB </div> <div class="product-requirements"> <strong>System Requirements:</strong><br> The following software packages are required for a full install of the Genome Browser. Please visit each link to determine if you are required to purchase or sign a license: <ul> <li>A multiple-CPU machine with a Linux/Ubuntu/CentOS/Unix/MacOSX operating system</li> @@ -197,31 +115,31 @@ <div class="product-eula"> <a href="https://genome.ucsc.edu/store/UCSC_GB_EULA.pdf" target="_blank">Terms and conditions</a> </div> <div class="product-price"> - <strong>Cost per year:</strong> $1200<br> + <strong>Cost per year:</strong> $1,200<br> <strong><span style="color:red">Cost for non-profit academic research use:</span></strong> Free<br> </div> <div class="product-version"> <h4>LiftOver command-line program (LINUX 64-bit)</h4> <div class="product-size"> <strong>Size:</strong> 23.4 MB </div> <div class="product-includes"> <strong>Product includes:</strong><br> <ul> @@ -281,35 +199,35 @@ You can use the GBiC program to install a Genome Browser mirror on any Linux based operating system, including your server, desktop/laptop, or cloud instance. The program overwrites the default Apache install location, and thus is intended to be run on machines/cloud instances that don’t already act as a web server. A more detailed description of this tool and how to use it is available from the <a href="https://genome.ucsc.edu/goldenpath/help/gbic.html" target="_blank">GBIC User Guide</a>. If you have questions about the script please send an email to the publicly archived Genome Browser Mirror mailing list: <a href="mailto:genome-mirror@soe.ucsc.edu" target="_blank">genome-mirror@soe.ucsc.edu</a>.</div> <div class="product-eula"> <a href="https://genome.ucsc.edu/store/UCSC_GB_EULA.pdf" target="_blank">Terms and conditions</a> </div> <div class="product-price"> - <strong>One time setup fee:</strong> $2400<br> + <strong>One time setup fee:</strong> $2,400<br> - <strong>Cost per year:</strong> $1200<br> + <strong>Cost per year:</strong> $1,200<br> <strong><span style="color:red">Cost for non-profit academic research use:</span></strong> Free<br> </div> <div class="product-version"> <div class="product-size"> <strong>Size:</strong> 68.4 KB </div> <div class="product-requirements"> <strong>System Requirements:</strong><br> The GBiC program will run on most Debian or RedHat based Linux operating systems, however there are a few additional considerations: <ul> @@ -343,107 +261,88 @@ <div class="product-not_includes"> <strong>Product does not include:</strong><br> <ul> <li>The UCSC Genome Browser source code.</li> </ul> </div> </div> </td> </tr> </table> -<!-- Add CRISPOR and CrisprWare here next --> <table class="table"> <tr> <td> <h2>CRISPOR</h2> <div class="product-details"> - -<p> The CRISPOR software is an on-target and off-target predictor for picking CRISPR target sites. It can show the results on the UCSC Genome Browser and provides various helpers for designing primers, cloning sites and prepares files for the -Crispresso CRISPR validation software. The software runs in a Docker container. -</p> +CRISPResso CRISPR validation software. The software runs in a Docker container. +</div> <p>See <a href="https://crispor.gi.ucsc.edu/" target="_blank">https://crispor.gi.ucsc.edu/</a> for more information.</p> +<br /> <div class="product-price"> - <strong>Cost per year:</strong> $1200<br> - + <strong>Cost per year:</strong> $1,200<br> - </div> - <!-- - <div class="product-version"> - <div class="product-size"> - <strong>Size:</strong> 108 MB </div> - - <div class="product-requirements"> - <strong>System Requirements:</strong><br> - Unix-like operating system with either Docker or conda for package installation. Developed and tested on Ubuntu 20 and 22. Minimally tested on MacOS. - - </div> - - - <div class="product-includes"> - <strong>To purchase CRISPRware</strong><br> - Please contact Eric Malekos at <strong>ericmalekos@gmail.com</strong>. - </div> - </div> - - --> +<br /> </td> </tr> </table> <table class="table"> <tr> <td> <h2>CRISPRware</h2> <div class="product-details"> - -<p>CRISPRware can be used to design gRNAs for CRISPR experiments at the genomic or individual gene level. It can incorporate NGS data processed with common tools (e.g. Salmon or Kallisto) to design gRNAs that are particular to the cell line and conditions of interest. -</p> +CRISPRware can be used to design gRNAs for CRISPR experiments at the genomic or individual gene level. It can incorporate NGS data processed with common tools (e.g. Salmon or Kallisto) to design gRNAs that are particular to the cell line and conditions of interest. +</div> <p>See <a href="https://github.com/ericmalekos/crisprware" target="_blank">https://github.com/ericmalekos/crisprware</a> for more information.</p> <div class="product-price"> - <strong>Cost per year:</strong> $1200<br> + <strong>Cost per year:</strong> $1,200<br> </div> <div class="product-version"> <div class="product-size"> <strong>Size:</strong> 108 MB </div> <div class="product-requirements"> <strong>System Requirements:</strong><br> Unix-like operating system with either Docker or conda for package installation. Developed and tested on Ubuntu 20 and 22. Minimally tested on MacOS. </div> <div class="product-includes"> <strong>To purchase CRISPRware</strong><br> - Please contact Eric Malekos at <strong>ericmalekos@gmail.com</strong>. + Please contact Eric Malekos at <strong><A HREF="mailto:ericmalekos@gmail. +com"> +ericmalekos@gmail. +com</A></strong>. </div> </div> +<br /> </td> </tr> </table> <!--#include virtual="$ROOT/inc/gbPageEnd.html" -->