bbabbd5d2566d47d923d51dbe350634783455999 mspeir Sun Oct 26 12:14:52 2025 -0700 change soe to gi, refs #35031 diff --git src/hg/htdocs/goldenPath/help/gbic.html src/hg/htdocs/goldenPath/help/gbic.html index fad765636ca..4c3a7079a19 100755 --- src/hg/htdocs/goldenPath/help/gbic.html +++ src/hg/htdocs/goldenPath/help/gbic.html @@ -106,62 +106,62 @@ option is specified). </p> <p> In particular, MySQL (MariaDB) and Apache are installed and set up with the right package manager (yum or apt-get). A default random password is set for the MySQL (MariaDB) root user and added to the <code>~/.my.cnf</code> file of the Unix root account. If you have already set up MySQL (MariaDB), you must create the <code>~/.my.cnf</code> file. The program will detect this and create a template file for you. The program also performs some minor tasks such as placing symlinks, detecting MariaDB, deactivating SELinux, finding the correct path for your Apache install and adapting the MySQL (MariaDB) socket config. </p> <p> This will result in a Genome Browser accessible on localhost that loads its data through -genome-mysql.soe.ucsc.edu:3306 and hgdownload.soe.ucsc.edu:80. If your geographic location is not on +genome-mysql.gi.ucsc.edu:3306 and hgdownload.gi.ucsc.edu:80. If your geographic location is not on the US West Coast, the performance will be too slow for normal use, though sufficient to test that the setup is functional. A special MySQL (MariaDB) server is set up in Germany for users in Europe. -You can change the <code>/usr/local/apache/cgi-bin/hg.conf</code> genome-mysql.soe.ucsc.edu lines to +You can change the <code>/usr/local/apache/cgi-bin/hg.conf</code> genome-mysql.gi.ucsc.edu lines to genome-euro-mysql.soe.ucsc.edu in order to get better performance. You can then use the program to download assemblies of interest to your local Genome Browser, which will result in performance at least as fast as the UCSC site. </p> <h3 id="network-requirements">Network requirements</h3> <p> Your network firewall must allow outgoing connections to the following servers and ports: </p> <ul> <li>MySQL (MariaDB) connections, used to load tracks not local to your computer: <ul> -<li>US server: Port 3306 on genome-mysql.soe.ucsc.edu (128.114.119.174)</li> +<li>US server: Port 3306 on genome-mysql.gi.ucsc.edu (128.114.119.174)</li> <li>European server: Port 3306 on genome-euro-mysql.soe.ucsc.edu (129.70.40.120)</li> </ul></li> <li>Rsync, used to download track data: <ul> -<li>US server: TCP port 873 on hgdownload.soe.ucsc.edu (128.114.119.163)</li> +<li>US server: TCP port 873 on hgdownload.gi.ucsc.edu (128.114.119.163)</li> <li>European server: TCP port 873 on hgdownload-euro.soe.ucsc.edu (129.70.40.99)</li> </ul></li> <li>Download HTML descriptions on the fly: <ul> -<li>US server: TCP port 80 on hgdownload.soe.ucsc.edu (128.114.119.163)</li> +<li>US server: TCP port 80 on hgdownload.gi.ucsc.edu (128.114.119.163)</li> <li>European server: TCP port 80 on hgdownload-euro.soe.ucsc.edu (129.70.40.99)</li> </ul></li> </ul> <h3 id="root-file-system-too-small-for-all-data">Root file system too small for all data</h3> <p> If you need to move data to another partition because the root file system is too small for all of the assembly's data, the following steps will help complete the installation. First, do a minimal installation with the browserSetup.sh script as described below, using just the “install” argument. Then make symlinks to the directory that will contain the data, e.g. if your biggest filesystem is called “/big”: </p> <pre><code>sudo mv /var/lib/mysql /big/