I was working on this notebook tutorial.
I tried this step
'm = Chem.MolFromSmiles('COc1ccc2c(c1)[nH]c(n2)S@@Cc1ncc(c(c1C)OC)C')'
'm'
Exception Traceback (most recent call last)
/usr/local/lib/python2.7/dist-packages/IPython/core/formatters.pyc in call(self, obj)
309 method = get_real_method(obj, self.print_method)
310 if method is not None:
--> 311 return method()
312 return None
313 else:
/usr/lib/python2.7/dist-packages/rdkit/Chem/Draw/IPythonConsole.pyc in _toPNG(mol)
92 try:
93 img = Draw.MolToImage(mc,size=molSize,kekulize=kekulizeStructures,
---> 94 highlightAtoms=highlightAtoms)
95 except ValueError: # <- can happen on a kekulization failure
96 mc = copy.deepcopy(mol)
/usr/lib/python2.7/dist-packages/rdkit/Chem/Draw/init.pyc in MolToImage(mol, size, kekulize, wedgeBonds, fitImage, options, canvas, **kwargs)
92 raise ValueError('Null molecule provided')
93 if canvas is None:
---> 94 img,canvas=_createCanvas(size)
95 else:
96 img=None
/usr/lib/python2.7/dist-packages/rdkit/Chem/Draw/init.pyc in _createCanvas(size)
48 from PIL import Image
49 img = Image.new("RGBA",size,(0,0,0,0))
---> 50 canvas = Canvas(img)
51 else:
52 from rdkit.Chem.Draw.spingCanvas import Canvas
/usr/lib/python2.7/dist-packages/rdkit/Chem/Draw/cairoCanvas.pyc in init(self, image, size, ctx, imageType, fileName)
65 if image is not None:
66 try:
---> 67 imgd = image.tostring("raw","BGRA")
68 except SystemError:
69 r,g,b,a = image.split()
/usr/lib/python2.7/dist-packages/PIL/Image.pyc in tostring(self, *args, **kw)
693 def tostring(self, *args, **kw):
694 raise Exception("tostring() has been removed. " +
--> 695 "Please call tobytes() instead.")
696
697 def tobitmap(self, name="image"):
Exception: tostring() has been removed. Please call tobytes() instead.
As per this message. It seems I have to switch to older version of Pillow. I did that "pip install Pillow==2.1.0". Is that right?.
It does solve the issue. Just reporting it may help someone.
I was working on this notebook tutorial.
I tried this step
'm = Chem.MolFromSmiles('COc1ccc2c(c1)[nH]c(n2)S@@Cc1ncc(c(c1C)OC)C')'
'm'
Exception Traceback (most recent call last)
/usr/local/lib/python2.7/dist-packages/IPython/core/formatters.pyc in call(self, obj)
309 method = get_real_method(obj, self.print_method)
310 if method is not None:
--> 311 return method()
312 return None
313 else:
/usr/lib/python2.7/dist-packages/rdkit/Chem/Draw/IPythonConsole.pyc in _toPNG(mol)
92 try:
93 img = Draw.MolToImage(mc,size=molSize,kekulize=kekulizeStructures,
---> 94 highlightAtoms=highlightAtoms)
95 except ValueError: # <- can happen on a kekulization failure
96 mc = copy.deepcopy(mol)
/usr/lib/python2.7/dist-packages/rdkit/Chem/Draw/init.pyc in MolToImage(mol, size, kekulize, wedgeBonds, fitImage, options, canvas, **kwargs)
92 raise ValueError('Null molecule provided')
93 if canvas is None:
---> 94 img,canvas=_createCanvas(size)
95 else:
96 img=None
/usr/lib/python2.7/dist-packages/rdkit/Chem/Draw/init.pyc in _createCanvas(size)
48 from PIL import Image
49 img = Image.new("RGBA",size,(0,0,0,0))
---> 50 canvas = Canvas(img)
51 else:
52 from rdkit.Chem.Draw.spingCanvas import Canvas
/usr/lib/python2.7/dist-packages/rdkit/Chem/Draw/cairoCanvas.pyc in init(self, image, size, ctx, imageType, fileName)
65 if image is not None:
66 try:
---> 67 imgd = image.tostring("raw","BGRA")
68 except SystemError:
69 r,g,b,a = image.split()
/usr/lib/python2.7/dist-packages/PIL/Image.pyc in tostring(self, *args, **kw)
693 def tostring(self, *args, **kw):
694 raise Exception("tostring() has been removed. " +
--> 695 "Please call tobytes() instead.")
696
697 def tobitmap(self, name="image"):
Exception: tostring() has been removed. Please call tobytes() instead.
As per this message. It seems I have to switch to older version of Pillow. I did that "pip install Pillow==2.1.0". Is that right?.
It does solve the issue. Just reporting it may help someone.