From b442a60e6508bb2f5f9c765343df36fbbfce945f Mon Sep 17 00:00:00 2001 From: Rachel Karchin Date: Tue, 16 Apr 2024 19:28:15 -0400 Subject: [PATCH] Update installation.rst links to CHASMplus data updated since they broke when the new Karchinlab website was launched. --- rtd/installation.rst | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/rtd/installation.rst b/rtd/installation.rst index a621220..24c523d 100644 --- a/rtd/installation.rst +++ b/rtd/installation.rst @@ -54,7 +54,7 @@ Features for mutations CHASMplus are obtained can also be prepared by directly .. code-block:: bash - $ wget http://karchinlab.org/data/CHASMplus/SNVBox_chasmplus.sql.gz + $ wget http://karchinlab.org/datasets/CHASMplus/SNVBox_chasmplus.sql.gz $ gunzip SNVBox_chasmplus.sql.gz $ mysql [options] < SNVBox_chasm2.sql @@ -63,11 +63,11 @@ This will create a database named mupit_modbase, where [options] is the necessar SNVBox code +++++++++++ -The next step is to download the code that fetches features from the SNVBox database. Please download the code from `here `_, or use wget: +The next step is to download the code that fetches features from the SNVBox database. Please download the code from `here `_, or use wget: .. code-block:: bash - $ wget http://karchinlab.org/data/CHASMplus/SNVBox.tar.gz + $ wget http://karchinlab.org/datasets/CHASMplus/SNVBox.tar.gz The next step is to set the configuration file (snv_box.conf) to point towards the established database in the previous section. Specifically, change the db.user, db.password, and db.host to point towards your own mysql user name, mysql password, and mysql host.