def test_Builder_download():
# download
b = Builder(map_name='iJO1366.Central metabolism', model_name='iJO1366')
assert b.loaded_map_json is not None
assert b.loaded_model_json is not None
b._get_html(js_source='web')
# b.display_in_notebook(height=200)
# data
b = Builder(map_name='iJO1366.Central metabolism',
model_name='iJO1366',
reaction_data=[{
'GAPD': 123
}, {
'GAPD': 123
}])
b = Builder(map_name='iJO1366.Central metabolism',
model_name='iJO1366',
metabolite_data=[{
'nadh_c': 123
}, {
'nadh_c': 123
}])
b = Builder(map_name='iJO1366.Central metabolism',
model_name='iJO1366',
gene_data=[{
'gapA': 123
}, {
'adhE': 123
}])
assert type(b.the_id) is unicode_type
assert len(b.the_id) == 10
def test__get_html():
b = Builder(map_json='"useless_map"', model_json='"useless_model"',
embedded_css='')
def look_for_string(st, substring):
"""Look for the string in the substring. This solves a bug in py.test
for these cases"""
try:
found = st.find(substring)
assert found > -1
except AssertionError:
raise AssertionError('Could not find\n\n%s\n\nin\n\n%s' % (substring, st))
# no static parse, local
html = b._get_html(js_source='local')
look_for_string(html, 'map_data: JSON.parse(\'"useless_map"\'),')
look_for_string(html, 'model_data: JSON.parse(\'"useless_model"\'),')
look_for_string(html, 'escher.Builder(t_map_data, t_model_data, data.builder_embed_css,')
# static parse, not dev
static_index = '{"my": ["useless", "index"]}'
html = b._get_html(static_site_index_json=static_index, protocol='https')
look_for_string(html, 'map_data: JSON.parse(\'"useless_map"\'),')
look_for_string(html, 'model_data: JSON.parse(\'"useless_model"\'),')
look_for_string(html, 'map_download_url: JSON.parse(\'"https://escher.github.io/%s/%s/maps/"\'),' % (__schema_version__, __map_model_version__))
look_for_string(html, 'model_download_url: JSON.parse(\'"https://escher.github.io/%s/%s/models/"\'),' % (__schema_version__, __map_model_version__))
look_for_string(html, static_index)
look_for_string(html, 'escher.Builder(t_map_data, t_model_data, data.builder_embed_css,')
def test__get_html():
b = Builder(map_json='"useless_map"', model_json='"useless_model"', embedded_css="")
def look_for_string(st, substring):
"""Look for the string in the substring. This solves a bug in py.test
for these cases"""
try:
found = st.find(substring)
assert found > -1
except AssertionError:
raise AssertionError("Could not find\n\n%s\n\nin\n\n%s" % (substring, st))
# no static parse, local
html = b._get_html(js_source="local")
look_for_string(html, "map_data: JSON.parse('\"useless_map\"'),")
look_for_string(html, "model_data: JSON.parse('\"useless_model\"'),")
look_for_string(html, "escher.Builder(t_map_data, t_model_data, data.builder_embed_css,")
# static parse, not dev
static_index = '{"my": ["useless", "index"]}'
html = b._get_html(static_site_index_json=static_index, protocol="https")
look_for_string(html, "map_data: JSON.parse('\"useless_map\"'),")
look_for_string(html, "model_data: JSON.parse('\"useless_model\"'),")
look_for_string(
html,
"map_download_url: JSON.parse('\"https://escher.github.io/%s/%s/maps/\"'),"
% (__schema_version__, __map_model_version__),
)
look_for_string(
html,
"model_download_url: JSON.parse('\"https://escher.github.io/%s/%s/models/\"'),"
% (__schema_version__, __map_model_version__),
)
look_for_string(html, static_index)
look_for_string(html, "escher.Builder(t_map_data, t_model_data, data.builder_embed_css,")
def test__get_html():
b = Builder(map_json='"useless_map"',
model_json='"useless_model"',
embedded_css='')
def look_for_string(st, substring):
"""Look for the string in the substring. This solves a bug in py.test
for these cases"""
try:
found = st.find(substring)
assert found > -1
except AssertionError:
raise AssertionError('Could not find\n\n%s\n\nin\n\n%s' %
(substring, st))
# no static parse, local
html = b._get_html(js_source='local')
look_for_string(
html,
'map_data: JSON.parse(b64DecodeUnicode(\'InVzZWxlc3NfbWFwIg==\')),')
look_for_string(
html,
'model_data: JSON.parse(b64DecodeUnicode(\'InVzZWxlc3NfbW9kZWwi\')),')
look_for_string(
html,
'escher.Builder(t_map_data, t_model_data, data.builder_embed_css,')
# static parse, not dev
static_index = '{"my": ["useless", "index"]}'
html = b._get_html(static_site_index_json=static_index, protocol='https')
look_for_string(
html,
'map_data: JSON.parse(b64DecodeUnicode(\'InVzZWxlc3NfbWFwIg==\')),')
look_for_string(
html,
'model_data: JSON.parse(b64DecodeUnicode(\'InVzZWxlc3NfbW9kZWwi\')),')
map_download_url = base64.b64encode(
("https://escher.github.io/%s/%s/maps/" %
(__schema_version__,
__map_model_version__)).encode('utf-8')).decode('utf-8')
look_for_string(
html, 'map_download_url: b64DecodeUnicode(\'%s\'),' % map_download_url)
model_download_url = base64.b64encode(
("https://escher.github.io/%s/%s/models/" %
(__schema_version__,
__map_model_version__)).encode('utf-8')).decode('utf-8')
look_for_string(
html,
'model_download_url: b64DecodeUnicode(\'%s\'),' % model_download_url)
look_for_string(html,
'eyJteSI6IFsidXNlbGVzcyIsICJpbmRleCJdfQ==') # static_index
look_for_string(
html,
'escher.Builder(t_map_data, t_model_data, data.builder_embed_css,')
def test_Builder_download():
# download
b = Builder(map_name="iJO1366.Central metabolism", model_name="iJO1366")
assert b.loaded_map_json is not None
assert b.loaded_model_json is not None
b._get_html(js_source="web")
# b.display_in_notebook(height=200)
# data
b = Builder(
map_name="iJO1366.Central metabolism", model_name="iJO1366", reaction_data=[{"GAPD": 123}, {"GAPD": 123}]
)
b = Builder(
map_name="iJO1366.Central metabolism", model_name="iJO1366", metabolite_data=[{"nadh_c": 123}, {"nadh_c": 123}]
)
b = Builder(map_name="iJO1366.Central metabolism", model_name="iJO1366", gene_data=[{"gapA": 123}, {"adhE": 123}])
assert type(b.the_id) is unicode_type
assert len(b.the_id) == 10
def test_Builder_download():
# download
b = Builder(map_name='iJO1366.Central metabolism',
model_name='iJO1366')
assert b.loaded_map_json is not None
assert b.loaded_model_json is not None
b._get_html(js_source='web')
b.display_in_notebook(height=200)
# data
b = Builder(map_name='iJO1366.Central metabolism',
model_name='iJO1366',
reaction_data=[{'GAPD': 123}, {'GAPD': 123}])
b = Builder(map_name='iJO1366.Central metabolism',
model_name='iJO1366',
metabolite_data=[{'nadh_c': 123}, {'nadh_c': 123}])
b = Builder(map_name='iJO1366.Central metabolism',
model_name='iJO1366',
gene_data=[{'gapA': 123}, {'adhE': 123}])
assert type(b.the_id) is unicode_type
assert len(b.the_id) == 10
def test_Builder(tmpdir):
# ok with embedded_css arg
b = Builder(map_json='{"r": "val"}',
model_json='{"r": "val"}',
embedded_css='')
# b.display_in_notebook(js_source='local')
b.save_html(join(str(tmpdir), 'Builder.html'), js_source='local')
# test options
with raises(Exception):
b._get_html(js_source='devv')
with raises(Exception):
b._get_html(menu='')
with raises(Exception):
b._get_html(scroll_behavior='asdf')
b._get_html(js_source='local')
b._get_html(menu='all')
b._get_html(scroll_behavior='zoom')
def test_Builder_options():
b = Builder(embedded_css='')
b.set_metabolite_no_data_color('white')
assert b.metabolite_no_data_color=='white'
html = b._get_html(js_source='local')
assert 'metabolite_no_data_color: "white"' in html
def test_Builder(tmpdir):
b = Builder(map_json='{"r": "val"}', model_json='{"r": "val"}')
# Cannot load dev/local version without an explicit css string property.
# TODO include a test where these do not raise.
with raises(Exception):
b.display_in_notebook(js_source='dev')
with raises(Exception):
b.display_in_notebook(js_source='local')
# ok with embedded_css arg
b = Builder(map_json='{"r": "val"}', model_json='{"r": "val"}', embedded_css='')
b.display_in_notebook(js_source='dev')
b.save_html(join(str(tmpdir), 'Builder.html'), js_source='dev')
# test options
with raises(Exception):
b._get_html(js_source='devv')
with raises(Exception):
b._get_html(menu='')
with raises(Exception):
b._get_html(scroll_behavior='asdf')
b._get_html(js_source='local')
b._get_html(menu='all')
b._get_html(scroll_behavior='zoom')
def test_Builder_options():
b = Builder(embedded_css="")
b.set_metabolite_no_data_color("white")
assert b.metabolite_no_data_color == "white"
html = b._get_html(js_source="local")
assert '"metabolite_no_data_color": "white"' in html
def test_Builder(tmpdir):
# ok with embedded_css arg
b = Builder(map_json='{"r": "val"}', model_json='{"r": "val"}', embedded_css="")
# b.display_in_notebook(js_source='local')
b.save_html(join(str(tmpdir), "Builder.html"), js_source="local")
# test options
with raises(Exception):
b._get_html(js_source="devv")
with raises(Exception):
b._get_html(menu="")
with raises(Exception):
b._get_html(scroll_behavior="asdf")
b._get_html(js_source="local")
b._get_html(menu="all")
b._get_html(scroll_behavior="zoom")
def test_Builder_options():
b = Builder(embedded_css='')
b.set_metabolite_no_data_color('white')
assert b.metabolite_no_data_color=='white'
html = b._get_html(js_source='local')
assert 'metabolite_no_data_color: "white"' in html
def test_Builder(tmpdir):
b = Builder(map_json='{"r": "val"}', model_json='{"r": "val"}')
# Cannot load dev/local version without an explicit css string property.
# TODO include a test where these do not raise.
with raises(Exception):
b.display_in_notebook(js_source='dev')
with raises(Exception):
b.display_in_notebook(js_source='local')
# ok with embedded_css arg
b = Builder(map_json='{"r": "val"}', model_json='{"r": "val"}', embedded_css='')
b.display_in_notebook(js_source='dev')
b.save_html(join(str(tmpdir), 'Builder.html'), js_source='dev')
# test options
with raises(Exception):
b._get_html(js_source='devv')
with raises(Exception):
b._get_html(menu='')
with raises(Exception):
b._get_html(scroll_behavior='asdf')
b._get_html(js_source='local')
b._get_html(menu='all')
b._get_html(scroll_behavior='zoom')
def test_Builder(tmpdir):
b = Builder(map_json='{"r": "val"}', model_json='{"r": "val"}')
# Cannot load dev/local version without an explicit css string property.
# TODO include a test where these do not raise.
with raises(Exception):
b.display_in_notebook(js_source='dev')
with raises(Exception):
b.display_in_notebook(js_source='local')
b.display_in_notebook(js_source='web')
b.display_in_notebook(height=200)
# b.display_in_browser()
b.save_html(join(str(tmpdir), 'Builder.html'))
# test options
with raises(Exception):
b._get_html(js_source='devv')
with raises(Exception):
b._get_html(menu='')
with raises(Exception):
b._get_html(scroll_behavior='asdf')
b._get_html(js_source='web')
b._get_html(menu='all')
b._get_html(scroll_behavior='zoom')
# download
b = Builder(map_name='iJO1366_central_metabolism', model_name='iJO1366')
assert b.loaded_map_json is not None
assert b.loaded_model_json is not None
b.display_in_notebook(height=200)
# data
b = Builder(map_name='iJO1366_central_metabolism', model_name='iJO1366',
reaction_data=[{'GAPD': 123}, {'GAPD': 123}])
b = Builder(map_name='iJO1366_central_metabolism', model_name='iJO1366',
metabolite_data=[{'nadh_c': 123}, {'nadh_c': 123}])
assert type(b.the_id) is unicode
assert len(b.the_id) == 10
def test_Builder(tmpdir):
# ok with embedded_css arg
b = Builder(map_json='{"r": "val"}', model_json='{"r": "val"}', embedded_css='')
b.display_in_notebook(js_source='local')
b.save_html(join(str(tmpdir), 'Builder.html'), js_source='local')
# test options
with raises(Exception):
b._get_html(js_source='devv')
with raises(Exception):
b._get_html(menu='')
with raises(Exception):
b._get_html(scroll_behavior='asdf')
b._get_html(js_source='local')
b._get_html(menu='all')
b._get_html(scroll_behavior='zoom')
