pass in pk schedule csv by folder, filename

Author: drbergman

addons/PhysiPKPD/src/PhysiPKPD_PK.cpp

@@ -360,8 +360,28 @@ void setup_pk_single_dosing_schedule(Pharmacokinetics_Model *pPK, double current
         {
             if (read_csv)
             {
-                std::string filename = "./config/" + pPK->substrate_name + "_dose_schedule.csv";
+                std::string filename;
+                if (!(schedule_node.child("folder")) || !(schedule_node.child("filename")))
+                {
+                    std::cout << "PhysiPKPD WARNING: Reading in a dosing schedule from a CSV file, but no folder or filename is given." << std::endl
+                              << "\tWill look for it in ./config/" << pPK->substrate_name + "_dose_schedule.csv" << std::endl
+                              << std::endl
+                              << "\tSpecify this in the config by updating the <schedule> element to:" << std::endl
+                              << "\t<schedule format=\"csv\">" << std::endl
+                              << "\t  <folder>path/to/folder</folder>" << std::endl
+                              << "\t  <filename>file.csv</filename>" << std::endl
+                              << "\t</schedule>" << std::endl;
+
+                    filename = "./config/" + pPK->substrate_name + "_dose_schedule.csv";
+                }
+                else
+                {
+                    std::string folder = schedule_node.child("folder").text().as_string();
+                    filename = folder + "/" + schedule_node.child("filename").text().as_string();
+                }
+
                 std::ifstream file(filename, std::ios::in);
+
                 if (!file)
                 {
                     std::cout << "PhysiPKPD ERROR: " << filename << " not found in ./config/. " << pPK->substrate_name + "_read_dose_schedule_from_csv" << " set to true in config file." << std::endl;

sample_projects_physipkpd/template_pkpd/config/pkpd_model.xml

@@ -67,7 +67,10 @@
             </Dirichlet_options>
             <PK enabled="true">
                 <model>2C</model>
-                <schedule format="csv" />
+                <schedule format="csv">
+                    <folder>./config</folder>
+                    <filename>PKPD_D1_dose_schedule.csv</filename>
+                </schedule>
                 <elimination_rate units="1/min">0.0027</elimination_rate>
                 <k12 units="1/min">0.0048</k12>
                 <k21 units="1/min">.0048</k21>