Fix segfauly

Author: emilydolson

source/ConfigSetup.h

@@ -98,6 +98,7 @@ EMP_BUILD_CONFIG(SymConfigBase,
     VALUE(HOST_STARTING_TAGS_ONE_PROB, double, 0, "What probability should initializing bits in tags have of being 1s? Hosted symbionts will be assigned their host's tag. (0 for basic, all-0 only tags)"),
 
     GROUP(ANTIBIOTIC_RESISTANCE, "Settings for antibiotic resistance"),
-    VALUE(R0_WINDOW, double, 100, "How many updates should be used to calculate R0?")
+    VALUE(R0_WINDOW, double, 100, "How many updates should be used to calculate R0?"),
+    VALUE(TRACK_R0, bool, 0, "Should the world track R0? (0 for no, 1 for yes)")
 )
 #endif

source/default_mode/DataNodes.h

@@ -21,7 +21,13 @@ void SymWorld::CreateDataFiles() {
   SetupTransmissionFile(my_config->FILE_PATH()+"TransmissionRates"+my_config->FILE_NAME()+file_ending).SetTimingRepeat(TIMING_REPEAT);
   SetupSymDiversityFile(my_config->FILE_PATH()+"SymDiversity"+my_config->FILE_NAME()+file_ending).SetTimingRepeat(TIMING_REPEAT);
   SetupReproHistFile(my_config->FILE_PATH() + "ReproHist" + my_config->FILE_NAME() + file_ending).SetTimingRepeat(TIMING_REPEAT);
-  SetupAntibioticResistanceFile(my_config->FILE_PATH() + "AntibioticResistance" + my_config->FILE_NAME() + file_ending).SetTimingRepeat(TIMING_REPEAT);  
+  if (my_config->TRACK_R0() == 1) {
+    emp_assert(my_config->PHYLOGENY() == 1, "Cannot track R0 without tracking phylogeny.");
+    emp_assert(my_config->PHYLOGENY_TAXON_TYPE() == "horizontal-clade", "Need horizontal clade tracking to track R0.");
+    emp_assert(my_config->STORE_EXTINCT() == 1, "R0 will be biased if we don't store extinct");    
+    SetupAntibioticResistanceFile(my_config->FILE_PATH() + "AntibioticResistance" + my_config->FILE_NAME() + file_ending).SetTimingRepeat(TIMING_REPEAT);  
+  }
+
   if (my_config->FREE_LIVING_SYMS() == 1) {
     SetupFreeLivingSymFile(my_config->FILE_PATH()+"FreeLivingSyms_"+my_config->FILE_NAME()+file_ending).SetTimingRepeat(TIMING_REPEAT);
   }