update a few files

inputs/namelist_local.bdy

@@ -40,7 +40,7 @@
 !------------------------------------------------------------------------------
 !  I/O 
 !------------------------------------------------------------------------------
-   sn_src_dir = '/Users/jdha/Projects/GitHub/PyNEMO/inputs/src_data.ncml' ! src_files/'
+   sn_src_dir = '/Users/jdha/Projects/GitHub/PyNEMO/inputs/src_data_local.ncml' ! src_files/'
    sn_dst_dir = './outputs'
    sn_fn      = 'NNA_R12'             ! prefix for output files
    nn_fv      = -1e20                 !  set fill value for output files

pynemo/profile.py

@@ -149,7 +149,6 @@ def process_bdy(setup_filepath=0, mask_gui=False):
         DstCoord.depths[grd]['bdy_H']  = np.nanmax(z.zpoints['w'+grd], axis=0)
         DstCoord.depths[grd]['bdy_dz'] = np.diff(z.zpoints['w'+grd], axis=0)
         DstCoord.depths[grd]['bdy_z']  = z.zpoints[grd]
-
     logger.info('Depths defined')
     
     # Gather vorizontal grid information

pynemo/pynemo_exe.py

@@ -7,6 +7,7 @@ Entry for the project
 import sys, getopt
 import profile
 import logging
+import cProfile
 
 # Logging set to info
 logging.basicConfig(level=logging.INFO)
@@ -41,7 +42,7 @@ def main():
     #Logger
     #logger = logging.getLogger(__name__)
     t0 = time.time()
-    profile.process_bdy(setup_file, mask_gui)
+    cProfile.runctx("f(x, y)",{'f': profile.process_bdy, 'x': setup_file, 'y': mask_gui}, {}, 'pynemo_stats')
     t1 = time.time()
     print "Execution Time: %s" % (t1-t0)