def test_tutorials(testfolder, tutorials=('ligand-binding-analysis', 'protein-folding-analysis')):
startdir = os.path.dirname(os.path.realpath(__file__))
pyexp = PythonExporter()
pyexp.template_file = os.path.join(startdir, 'simplepython.tpl')
# For each tutorial noteboook
for tut in glob(os.path.join(startdir, '*.ipynb')):
name = os.path.splitext(os.path.basename(tut))[0]
if name not in tutorials:
continue
testsubf = os.path.abspath(os.path.join(testfolder, name))
if not os.path.exists(testsubf):
os.makedirs(testsubf)
# Read notebook in
with open(tut, 'r') as fi:
notebook = nbformat.read(fi, nbformat.NO_CONVERT)
output, resources = pyexp.from_notebook_node(notebook, )
# Write it out in .py format
with open(os.path.join(testsubf, 'test_{}.py'.format(name)), 'w') as fo:
fo.writelines(format_script(output, testsubf, name))
return pytest.main([testfolder])
def test_tutorials(testfolder,
tutorials=('ligand-binding-analysis',
'protein-folding-analysis')):
startdir = os.path.dirname(os.path.realpath(__file__))
pyexp = PythonExporter()
pyexp.template_file = os.path.join(startdir, 'simplepython.tpl')
# For each tutorial noteboook
for tut in glob(os.path.join(startdir, '*.ipynb')):
name = os.path.splitext(os.path.basename(tut))[0]
if name not in tutorials:
continue
testsubf = os.path.abspath(os.path.join(testfolder, name))
if not os.path.exists(testsubf):
os.makedirs(testsubf)
# Read notebook in
with open(tut, 'r') as fi:
notebook = nbformat.read(fi, nbformat.NO_CONVERT)
output, resources = pyexp.from_notebook_node(notebook, )
# Write it out in .py format
with open(os.path.join(testsubf, 'test_{}.py'.format(name)),
'w') as fo:
fo.writelines(format_script(output, testsubf, name))
return pytest.main([testfolder])
def convert_to_python(notebook, template_file=None):
exporter = PythonExporter()
exporter.template_file = template_file
notebook_code, meta = exporter.from_notebook_node(notebook)
return notebook_code, meta
def convert_to_python(notebook, template_file=None):
exporter = PythonExporter()
exporter.template_file = template_file
notebook_code, meta = exporter.from_notebook_node(notebook)
return notebook_code, meta