fixed typos and updated 2nd part of plan

phys2bids/phys2bids.py

@@ -44,7 +44,7 @@
 
 def print_summary(filename, ntp_expected, ntp_found, samp_freq, time_offset, outfile):
     """
-    Prints a summary onscreen and in file with informations on the files.
+    Print a summary onscreen and in file with informations on the files.
 
     Parameters
     ----------

phys2bids/split2phys.py

@@ -97,23 +97,28 @@ def split2phys(filename, indir='.', outdir='.', ntp_list=[0], tr_list=[1], thr=N
 
     #
     for run_idx, run_tps in list_ntp:
+        # ascertain run length
         BlueprintInput.check_trigger_amount(ntp=run_tps, tr=list_tr[run_idx])
-        start_index = 0
-        # why are we playing with the object in time - wouldn't it be better to play in samples?
-        end_index = {index of spike 0} + {run_tps*list_tr[run_idx]}
-        run_Blueprint[run_idx] = BlueprintInput.timeseries[:end_index+padding, :]
-        padding =
+        # define idx of first trigger and padding length
+        start_index = BlueprintInput.timeseries[0]
+        padding = arb_val
+
+        # I'M A BIT CONFUSED here. not sure if i get this right
+        end_index = start_index + (run_tps * list_tr[run_idx])
+        run_Blueprint[run_idx] = BlueprintInput.timeseries[start_index - padding:
+                                                           end_index + padding, :]
 
         # if last value in the list "number of timepoints in run"
         if run_idx == list_ntp.size[0]:
-            end_index + padding <= number of indexes
+            end_index + padding  # <= number of indexes  hmmm... don't remember our plan
 
-        # not sure how to define padding
+        # not sure how and where to define padding
         else:
             padding = number of indexes - end_index
             BlueprintInput = BlueprintInput.timeseries[end_index + padding; , :]
 
     # make dict exportable
+    # delete at index
 
 
 def _main(argv=None):