Merge branch 'master' of https://github.com/YosefLab/Cassiopeia into …

…evolutionary_coupling
YosefLab · Nov 10, 2021 · da061cd · da061cd
2 parents 2709515 + d13d3e7
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diff --git a/README.md b/README.md
@@ -37,7 +37,7 @@ Installation
     * Run the command ``gurobi.sh`` from a terminal window
     * From the Gurobi installation directory (where there is a setup.py file), use ``python setup.py install --user``
 
-4. Install Cassiopeia by running `make install` from the directory where you have Cassiopeia downloaded.
+4. Install Cassiopeia by first making sure you have stable version of `Cython` and `pytest`. Then, you can install Cassiopeia by running `make install` from the directory where you have Cassiopeia downloaded.
 
 To verify that it installed correctly, try running our tests with `make test`.
 

diff --git a/data/itolconfig_example b/data/itolconfig_example
@@ -0,0 +1,3 @@
+[DEFAULT]
+api_key = <itol private api key>
+project_name = MyProjectonIToL
diff --git a/reconstruct_lineage_tutorial.pdf b/reconstruct_lineage_tutorial.pdf