openalea.rsml namespace

.gitignore

@@ -87,6 +87,7 @@ target/
 
 # sphinx autogen file
 doc/_dvlpt/
+doc/_build/
 
 
 # #}

example/RSML_Readme_tutorial.py

@@ -0,0 +1,111 @@
+#!/usr/bin/env python
+# coding: utf-8
+
+# # RSML Tutorial in Python 
+
+# First, we activate matplotlib and qt in the Notebook
+
+# In[2]:
+
+
+# get_ipython().run_line_magic('matplotlib', 'inline')
+# get_ipython().run_line_magic('gui', 'qt')
+#
+#
+# # In[3]:
+#
+#
+# import sys; print('Python %s on %s' % (sys.version, sys.platform))
+# sys.path.extend(['../src'])
+
+
+# Then, we import main modules and function to work with RSML format in Python
+
+# In[4]:
+
+
+import os
+from pprint import pprint
+from openalea.core.path import path
+import openalea.rsml as rsml
+from openalea.rsml.plot import multiple_plot
+from openalea.rsml.data import data_dir
+
+
+# In[5]:
+
+
+arabido = data_dir/'AR570'
+_generator = arabido.glob('*.rsml')
+files = []
+for f in _generator:
+    files.append(os.path.normpath(f))
+pprint(files)
+
+
+# # In[6]:
+#
+#
+# multiple_plot(files, image=False)
+#
+#
+# # In[7]:
+#
+#
+# multiple_plot(files, image=True)
+#
+#
+# # In[8]:
+#
+#
+# get_ipython().run_line_magic('run', 'demo_plot_rsml.py')
+#
+#
+# # In[9]:
+#
+#
+g = rsml.rsml2mtg('data/lupin_aero.rsml')
+from hydroroot.hydro_io import import_rsml_to_discrete_mtg
+g=import_rsml_to_discrete_mtg(g)
+
+#
+#
+# # In[10]:
+#
+#
+# from openalea.rsml.plot import plot2d, plot3d
+# plot2d(g)  # requires matplotlib
+# plot3d(g)  # requires openalea.plantgl
+
+
+# In[11]:
+
+
+# export mesurements to tabular file
+from openalea.rsml.measurements import RSML_Measurements
+results = RSML_Measurements()
+results.add(g)
+RSML_Measurements.export_csv(g, 'results.csv')
+
+
+# In[12]:
+
+
+labels = g.property('label')
+print(labels)
+for rsml_file in files: 
+    g = rsml.rsml2mtg(rsml_file)
+    print(g)
+
+    for v in g.vertices(scale=2):
+        labels[v]='Axis'
+    g.properties()['label']=labels
+
+    g.display(display_id=True, display_scale=True)
+
+
+# In[ ]:
+
+
+
+

example/demo_plot_rsml.py

@@ -1,8 +1,8 @@
 
-import rsml
-from rsml import misc
-from rsml import measurements
-from rsml.data import data_dir as rsml_dir
+import openalea.rsml as rsml
+from openalea.rsml import misc
+from openalea.rsml import measurements
+from openalea.rsml.data import data_dir as rsml_dir
 
 import numpy as np
 from matplotlib import pyplot as plt

example/testing_rsml.py

@@ -7,7 +7,7 @@
 
 import numpy as np
 import rsml
-from rsml.continuous import *
+from openalea.rsml.continuous import *
 from openalea.mtg import MTG, traversal
 
 

src/openalea/rsml/plot.py

@@ -145,7 +145,7 @@ def multiple_plot(files, image=True):
     '''
     from openalea.core.path import path
     from matplotlib import pyplot as plt
-    import openalea.rsml
+    import openalea.rsml as rsml
     import os
 
     def get_file(f):