Persephone tutorials

Author: annasheehy

analysis/persephone/Tut_0_Startup.m

@@ -0,0 +1,31 @@
+initCobraToolbox();
+
+% Can also be different versions
+changeCobraSolver('ibm_cplex');
+
+
+pe = pyenv;
+if pe.Version == ""
+    error("Python not installed, required for running MARS")
+end
+% Do we need a check for Pandas, JSON or Numpy? - required for MARS
+
+% Are all paths set up correctly
+
+microbiomeModels = '';
+readsFilePath = '';
+OTUFilePath = '';
+
+paths2Check = {microbiomeModels; dietFilePath; readsFilePath; OTUFilePath};
+
+for i = 1:size(paths2Check,1)
+    if i ==1 
+        if ~isfolder(paths2Check{i})
+            error(concat(microbiomeModels{i}, ' does not seems to exist on your system. Please check if your path is formulated correctly'))
+        end
+    else
+        if ~isfile(paths2Check{i}) && ~isempty(paths2Check{i})
+            error(concat(microbiomeModels{i}, ' does not seems to exist on your system. Please check if your path is formulated correctly'))
+        end
+    end
+end