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Update installation.rst
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links to CHASMplus data updated since they broke when the new Karchinlab website was launched.
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RachelKarchin authored Apr 16, 2024
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6 changes: 3 additions & 3 deletions rtd/installation.rst
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Expand Up @@ -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
Expand All @@ -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 <http://karchinlab.org/data/CHASMplus/SNVBox.tar.gz>`_, or use wget:
The next step is to download the code that fetches features from the SNVBox database. Please download the code from `here <http://karchinlab.org/datasets/CHASMplus/SNVBox.tar.gz>`_, 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.

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