Replace ATOF tdc/tot/tdc-start time variables with ATOF time (#425)

Co-authored-by: zhiwanxu <zhiwanxu@outlook.com>

Author: Sangbaek

src/main/java/org/jlab/clas/timeline/analysis/alert/alert_atof_tdc_minus_start_time.groovy

@@ -5,18 +5,18 @@ import org.jlab.groot.data.TDirectory
 import org.jlab.groot.data.GraphErrors
 import org.jlab.clas.timeline.fitter.ALERTFitter
 
-class alert_atof_tdc {
+class alert_atof_time {
 
 def data = new ConcurrentHashMap()
 def has_data = new AtomicBoolean(false)
 int sector;
 int min_index;
 int max_index;
 
-  alert_atof_tdc(int atof_sector){ // atof_sector runs from 0 to 14.
+  alert_atof_time(int atof_sector){ // atof_sector runs from 0 to 14.
     this.sector    = atof_sector;
-    this.min_index = 48*(atof_sector); 
-    this.max_index = 48*(atof_sector+1); 
+    this.min_index = 44*(atof_sector); 
+    this.max_index = 44*(atof_sector+1); 
   }
 
   def getName() {
@@ -30,22 +30,20 @@ int max_index;
     def reference_trigger_bit = 0
     // data[run].put('bits',  trigger)
     (min_index..<max_index).collect{index->
-      int atof_sector = index / (12 * 4);
+      int atof_sector = index / (11 * 4);
       assert sector == atof_sector // sanity-check. this should be the same.
-      int layer     = (index % (12 * 4)) / 12;
-      int component = index % 12;
-      def file_index = '';
-      if (component <= 10) file_index = String.format('sector%d_layer%d_component%d_order0', sector, layer, component)
-      else file_index = String.format('sector%d_layer%d_component%d_order1', sector, layer, component-1)
-      def h1 = dir.getObject(String.format('/ALERT/TDC_%s', file_index))
+      int layer     = (index % (11 * 4)) / 11;
+      int component = index % 11;
+      def file_index = String.format('sector%d_layer%d_component%d', sector, layer, component)
+      def h1 = dir.getObject(String.format('/ALERT/ATOF_Time_%s', file_index))
       if(h1!=null) {
-        if (h1.getBinContent(h1.getMaximumBin()) > 30 && h1.getEntries()>300 && h1.getRMS()<28){
-          data[run].put(String.format('atof_tdc_%s', file_index),  h1)
-          def f1 = ALERTFitter.tdcfitter(h1)
-          data[run].put(String.format('fit_atof_tdc_%s', file_index),  f1)
-          data[run].put(String.format('peak_location_atof_tdc_%s', file_index),  f1.getParameter(1).abs())
-          data[run].put(String.format('sigma_atof_tdc_%s', file_index),  f1.getParameter(2).abs())
-          data[run].put(String.format('integral_normalized_to_trigger_atof_tdc_%s', file_index),  Math.sqrt(2*3.141597f) * f1.getParameter(0).abs() * f1.getParameter(2).abs()/trigger.getBinContent(reference_trigger_bit) )
+        if (h1.getBinContent(h1.getMaximumBin()) > 30 && h1.getEntries()>300){
+          data[run].put(String.format('atof_time_%s', file_index),  h1)
+          def f1 = ALERTFitter.atof_time_fitter(h1,component)
+          data[run].put(String.format('fit_atof_time_%s', file_index),  f1)
+          data[run].put(String.format('peak_location_atof_time_%s', file_index),  f1.getParameter(1).abs())
+          data[run].put(String.format('sigma_atof_time_%s', file_index),  f1.getParameter(2).abs())
+          data[run].put(String.format('integral_normalized_to_trigger_atof_time_%s', file_index),  Math.sqrt(2*3.141597f) * f1.getParameter(0).abs() * f1.getParameter(2).abs()/trigger.getBinContent(reference_trigger_bit) )
           has_data.set(true)
         }
       }
@@ -66,16 +64,15 @@ int max_index;
         def names = []
         TDirectory out = new TDirectory()
         out.mkdir('/timelines')
-        (0..<12).collect{component->
+        (0..<11).collect{component->
           def file_index = ''
-          if (component <= 10) file_index = String.format('sector%d_layer%d_component%d_order0', sector, layer, component)
-          else file_index = String.format('sector%d_layer%d_component%d_order1', sector, layer, component-1)
-          names << String.format('atof_tdc_%s', file_index)
+           file_index = String.format('sector%d_layer%d_component%d', sector, layer, component)
+          names << String.format('atof_time_%s', file_index)
         }
         names.each{ name ->
           def gr = new GraphErrors(name)
-          gr.setTitle(  String.format("ATOF TDC %s sector %d layer %d", variable.replace('_', ' '), sector, layer))
-          gr.setTitleY( String.format("ATOF TDC %s sector %d layer %d (ns)", variable.replace('_', ' '), sector, layer))
+          gr.setTitle(  String.format("ATOF Time %s sector %d layer %d", variable.replace('_', ' '), sector, layer))
+          gr.setTitleY( String.format("ATOF Time %s sector %d layer %d (ns)", variable.replace('_', ' '), sector, layer))
           gr.setTitleX("run number")
           data.sort{it.key}.each{run,it->
             out.mkdir('/'+it.run)
@@ -90,7 +87,7 @@ int max_index;
           out.cd('/timelines')
           out.addDataSet(gr)
         }
-        out.writeFile(String.format('alert_atof_tdc_%s_sector%d_layer%d.hipo', variable, sector, layer))
+        out.writeFile(String.format('alert_atof_time_%s_sector%d_layer%d.hipo', variable, sector, layer))
       }
     }
   }