def execute_bmds_figure(self, BMDS, model_class, temp_fn):
"""
Execute BMDS executable to generate BMD figure.
"""
image = None
f_002 = os.path.join(BMDS.temp_path, temp_fn) + '.002'
f_plt = os.path.join(BMDS.temp_path, temp_fn) + '.plt'
f_emf = os.path.join(BMDS.temp_path, temp_fn) + '.emf'
# Attempt to generate wgnuplot output images- an image processing
# failure will not result in an overall error in the BMD modeling
try:
# Create a .plt file from a .002 file
exe_plt = os.path.join(
BMDS.model_path, model_class.exe_plot + settings.BMD_EXTENSION)
run_process([exe_plt, f_002], 10).Run()
# Revise settings of .plt file to export as emf image instead
# of appear in the GUI
# todo: recompile BMDS source to do this automatically
plotfile = open(f_plt, 'r')
plot_text = plotfile.read()
plotfile.close()
plot_text = plot_text.replace(
"set terminal %s \n" % (settings.BMD_SHELL),
"set terminal emf \nset output '%s'\n" % (f_emf))
plot_text = plot_text.replace(
"set terminal %s\n" % (settings.BMD_SHELL),
"set terminal emf \nset output '%s'\n" % (f_emf))
plotfile = open(f_plt, 'w')
plotfile.write(plot_text)
plotfile.close()
# Call gnuplot to generate image
gnu_exe = os.path.join(BMDS.model_path,
settings.BMD_PLOT + settings.BMD_EXTENSION)
run_process([gnu_exe, f_plt], 10).Run()
# Load plot into memory
if os.path.exists(f_emf) and (os.path.getsize > 0):
image = File(open(f_emf, 'rb'))
logging.debug("gnuplot plot generation successful")
else:
logging.debug("gnuplot plot generation not successful")
except:
logging.debug("gnuplot plot generation not successful")
BMD_model_run.delete_files(([f_002, f_plt, f_emf]))
return image
def execute_bmds_figure(self, BMDS, model_class, temp_fn):
"""
Execute BMDS executable to generate BMD figure.
"""
image = None
f_002 = os.path.join(BMDS.temp_path, temp_fn) + '.002'
f_plt = os.path.join(BMDS.temp_path, temp_fn) + '.plt'
f_emf = os.path.join(BMDS.temp_path, temp_fn) + '.emf'
# Attempt to generate wgnuplot output images- an image processing
# failure will not result in an overall error in the BMD modeling
try:
# Create a .plt file from a .002 file
exe_plt = os.path.join(BMDS.model_path,
model_class.exe_plot + settings.BMD_EXTENSION)
run_process([exe_plt, f_002], 10).Run()
# Revise settings of .plt file to export as emf image instead
# of appear in the GUI
# todo: recompile BMDS source to do this automatically
plotfile = open(f_plt, 'r')
plot_text = plotfile.read()
plotfile.close()
plot_text = plot_text.replace("set terminal %s \n" % (settings.BMD_SHELL),
"set terminal emf \nset output '%s'\n" % (f_emf))
plot_text = plot_text.replace("set terminal %s\n" % (settings.BMD_SHELL),
"set terminal emf \nset output '%s'\n" % (f_emf))
plotfile = open(f_plt, 'w')
plotfile.write(plot_text)
plotfile.close()
# Call gnuplot to generate image
gnu_exe = os.path.join(BMDS.model_path,
settings.BMD_PLOT + settings.BMD_EXTENSION)
run_process([gnu_exe, f_plt], 10).Run()
# Load plot into memory
if os.path.exists(f_emf) and (os.path.getsize > 0):
image = File(open(f_emf, 'rb'))
logging.debug("gnuplot plot generation successful")
else:
logging.debug("gnuplot plot generation not successful")
except:
logging.debug("gnuplot plot generation not successful")
BMD_model_run.delete_files(([f_002, f_plt, f_emf]))
return image
def execute_bmds(self, BMDS, model_class, d_file, create_image=True):
"""
Run series of executables and return a dictionary of results
"""
outputs = {}
# get random filename
temp_fn = ''.join(
random.choice(string.ascii_lowercase) for x in range(16))
f_in = os.path.join(BMDS.temp_path, temp_fn) + '.(d)'
#exponential models
prefix = getattr(model_class, 'output_prefix', "")
temp_fn = prefix + temp_fn
f_out = os.path.join(BMDS.temp_path, temp_fn) + '.out'
with open(f_in, 'w') as f:
f.write(d_file)
# run BMDS
logging.debug('running BMDS model...')
exe = os.path.join(BMDS.model_path,
model_class.exe + settings.BMD_EXTENSION)
run_process([exe, f_in], 10).Run()
if create_image:
outputs['image'] = self.execute_bmds_figure(
BMDS, model_class, temp_fn)
# import outputs
logging.debug('importing BMDS results...')
output_text = ""
if os.path.exists(f_out):
with open(f_out, 'r') as f:
output_text = f.read()
if model_class.model_name == 'Exponential':
dtype = 'E'
else:
dtype = model_class.dtype
o = BMD_output_parser(output_text, dtype, self.model_name)
outputs['image_fn'] = temp_fn + '.emf'
outputs['output_text'] = output_text
outputs['outputs'] = o.output
BMD_model_run.delete_files(([f_in, f_out]))
return outputs
def execute_bmds(self, BMDS, model_class, d_file, create_image=True):
"""
Run series of executables and return a dictionary of results
"""
outputs = {}
# get random filename
temp_fn = ''.join(random.choice(string.ascii_lowercase) for x in range(16))
f_in = os.path.join(BMDS.temp_path, temp_fn) + '.(d)'
#exponential models
prefix = getattr(model_class, 'output_prefix', "")
temp_fn = prefix + temp_fn
f_out = os.path.join(BMDS.temp_path, temp_fn) + '.out'
with open(f_in, 'w') as f:
f.write(d_file)
# run BMDS
logging.debug('running BMDS model...')
exe = os.path.join(BMDS.model_path, model_class.exe + settings.BMD_EXTENSION)
run_process([exe, f_in], 10).Run()
if create_image:
outputs['image'] = self.execute_bmds_figure(BMDS, model_class, temp_fn)
# import outputs
logging.debug('importing BMDS results...')
output_text=""
if os.path.exists(f_out):
with open(f_out, 'r') as f:
output_text = f.read()
if model_class.model_name == 'Exponential':
dtype = 'E'
else:
dtype = model_class.dtype
o = BMD_output_parser(output_text, dtype, self.model_name)
outputs['image_fn'] = temp_fn + '.emf'
outputs['output_text'] = output_text
outputs['outputs'] = o.output
BMD_model_run.delete_files(([f_in, f_out]))
return outputs
