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Merged
shammamah-zz merged 9 commits into from
Apr 1, 2019
Merged

Dash renderer update #297

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7702844
Update Dash requirements to latest version in requirements.
Apr 1, 2019
e02f5a9
Regenerate all Python files with the newest version of Dash.
Apr 1, 2019
7121743
Remove dash table version lock in requirements.
Apr 1, 2019
85a9813
Remove other Dash library requirements.
Apr 1, 2019
a476cdd
Select default tab for all applications.
Apr 1, 2019
c92a4e9
Remove autogenerated file.
Apr 1, 2019
92d6f6e
Remove unnecessary callback.
Apr 1, 2019
30489e7
Update CHANGELOG.
Apr 1, 2019
213d238
Remove dash-html-components dependency.
Apr 1, 2019
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1 change: 1 addition & 0 deletions CHANGELOG.md
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Expand Up @@ -13,6 +13,7 @@
* Changed property `fullChromosomeLabels` so that it can be updated using dash callbacks
* Changed Imputer (deprecated) to SimpleImputer in Clustergram component.
* Changed property name `impute_function` to `imputer_parameters` in Clustergram component.
* Changed install requirement to Dash version 0.40.0 or greater.

### Added
* Added ability to define custom colours in styles parser for Molecule3D.
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23 changes: 0 additions & 23 deletions dash_bio/AlignmentChart.py
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Expand Up @@ -112,26 +112,3 @@ def __init__(self, id=Component.UNDEFINED, eventDatum=Component.UNDEFINED, data=
raise TypeError(
'Required argument `' + k + '` was not specified.')
super(AlignmentChart, self).__init__(**args)

def __repr__(self):
if(any(getattr(self, c, None) is not None
for c in self._prop_names
if c is not self._prop_names[0])
or any(getattr(self, c, None) is not None
for c in self.__dict__.keys()
if any(c.startswith(wc_attr)
for wc_attr in self._valid_wildcard_attributes))):
props_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self._prop_names
if getattr(self, c, None) is not None])
wilds_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self.__dict__.keys()
if any([c.startswith(wc_attr)
for wc_attr in
self._valid_wildcard_attributes])])
return ('AlignmentChart(' + props_string +
(', ' + wilds_string if wilds_string != '' else '') + ')')
else:
return (
'AlignmentChart(' +
repr(getattr(self, self._prop_names[0], None)) + ')')
23 changes: 0 additions & 23 deletions dash_bio/AlignmentViewer.py
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Expand Up @@ -112,26 +112,3 @@ def __init__(self, id=Component.UNDEFINED, eventDatum=Component.UNDEFINED, data=
raise TypeError(
'Required argument `' + k + '` was not specified.')
super(AlignmentViewer, self).__init__(**args)

def __repr__(self):
if(any(getattr(self, c, None) is not None
for c in self._prop_names
if c is not self._prop_names[0])
or any(getattr(self, c, None) is not None
for c in self.__dict__.keys()
if any(c.startswith(wc_attr)
for wc_attr in self._valid_wildcard_attributes))):
props_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self._prop_names
if getattr(self, c, None) is not None])
wilds_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self.__dict__.keys()
if any([c.startswith(wc_attr)
for wc_attr in
self._valid_wildcard_attributes])])
return ('AlignmentViewer(' + props_string +
(', ' + wilds_string if wilds_string != '' else '') + ')')
else:
return (
'AlignmentViewer(' +
repr(getattr(self, self._prop_names[0], None)) + ')')
23 changes: 0 additions & 23 deletions dash_bio/Circos.py
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Expand Up @@ -57,26 +57,3 @@ def __init__(self, enableDownloadSVG=Component.UNDEFINED, enableZoomPan=Componen
raise TypeError(
'Required argument `' + k + '` was not specified.')
super(Circos, self).__init__(**args)

def __repr__(self):
if(any(getattr(self, c, None) is not None
for c in self._prop_names
if c is not self._prop_names[0])
or any(getattr(self, c, None) is not None
for c in self.__dict__.keys()
if any(c.startswith(wc_attr)
for wc_attr in self._valid_wildcard_attributes))):
props_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self._prop_names
if getattr(self, c, None) is not None])
wilds_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self.__dict__.keys()
if any([c.startswith(wc_attr)
for wc_attr in
self._valid_wildcard_attributes])])
return ('Circos(' + props_string +
(', ' + wilds_string if wilds_string != '' else '') + ')')
else:
return (
'Circos(' +
repr(getattr(self, self._prop_names[0], None)) + ')')
23 changes: 0 additions & 23 deletions dash_bio/Ideogram.py
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Expand Up @@ -165,26 +165,3 @@ def __init__(self, id=Component.REQUIRED, style=Component.UNDEFINED, className=C
raise TypeError(
'Required argument `' + k + '` was not specified.')
super(Ideogram, self).__init__(**args)

def __repr__(self):
if(any(getattr(self, c, None) is not None
for c in self._prop_names
if c is not self._prop_names[0])
or any(getattr(self, c, None) is not None
for c in self.__dict__.keys()
if any(c.startswith(wc_attr)
for wc_attr in self._valid_wildcard_attributes))):
props_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self._prop_names
if getattr(self, c, None) is not None])
wilds_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self.__dict__.keys()
if any([c.startswith(wc_attr)
for wc_attr in
self._valid_wildcard_attributes])])
return ('Ideogram(' + props_string +
(', ' + wilds_string if wilds_string != '' else '') + ')')
else:
return (
'Ideogram(' +
repr(getattr(self, self._prop_names[0], None)) + ')')
23 changes: 0 additions & 23 deletions dash_bio/Molecule3dViewer.py
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Expand Up @@ -42,26 +42,3 @@ def __init__(self, id=Component.UNDEFINED, selectionType=Component.UNDEFINED, ba
raise TypeError(
'Required argument `' + k + '` was not specified.')
super(Molecule3dViewer, self).__init__(**args)

def __repr__(self):
if(any(getattr(self, c, None) is not None
for c in self._prop_names
if c is not self._prop_names[0])
or any(getattr(self, c, None) is not None
for c in self.__dict__.keys()
if any(c.startswith(wc_attr)
for wc_attr in self._valid_wildcard_attributes))):
props_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self._prop_names
if getattr(self, c, None) is not None])
wilds_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self.__dict__.keys()
if any([c.startswith(wc_attr)
for wc_attr in
self._valid_wildcard_attributes])])
return ('Molecule3dViewer(' + props_string +
(', ' + wilds_string if wilds_string != '' else '') + ')')
else:
return (
'Molecule3dViewer(' +
repr(getattr(self, self._prop_names[0], None)) + ')')
23 changes: 0 additions & 23 deletions dash_bio/NeedlePlot.py
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Expand Up @@ -51,26 +51,3 @@ def __init__(self, id=Component.UNDEFINED, mutationData=Component.UNDEFINED, xla
raise TypeError(
'Required argument `' + k + '` was not specified.')
super(NeedlePlot, self).__init__(**args)

def __repr__(self):
if(any(getattr(self, c, None) is not None
for c in self._prop_names
if c is not self._prop_names[0])
or any(getattr(self, c, None) is not None
for c in self.__dict__.keys()
if any(c.startswith(wc_attr)
for wc_attr in self._valid_wildcard_attributes))):
props_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self._prop_names
if getattr(self, c, None) is not None])
wilds_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self.__dict__.keys()
if any([c.startswith(wc_attr)
for wc_attr in
self._valid_wildcard_attributes])])
return ('NeedlePlot(' + props_string +
(', ' + wilds_string if wilds_string != '' else '') + ')')
else:
return (
'NeedlePlot(' +
repr(getattr(self, self._prop_names[0], None)) + ')')
23 changes: 0 additions & 23 deletions dash_bio/OncoPrint.py
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Expand Up @@ -60,26 +60,3 @@ def __init__(self, id=Component.UNDEFINED, eventDatum=Component.UNDEFINED, data=
raise TypeError(
'Required argument `' + k + '` was not specified.')
super(OncoPrint, self).__init__(**args)

def __repr__(self):
if(any(getattr(self, c, None) is not None
for c in self._prop_names
if c is not self._prop_names[0])
or any(getattr(self, c, None) is not None
for c in self.__dict__.keys()
if any(c.startswith(wc_attr)
for wc_attr in self._valid_wildcard_attributes))):
props_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self._prop_names
if getattr(self, c, None) is not None])
wilds_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self.__dict__.keys()
if any([c.startswith(wc_attr)
for wc_attr in
self._valid_wildcard_attributes])])
return ('OncoPrint(' + props_string +
(', ' + wilds_string if wilds_string != '' else '') + ')')
else:
return (
'OncoPrint(' +
repr(getattr(self, self._prop_names[0], None)) + ')')
23 changes: 0 additions & 23 deletions dash_bio/SequenceViewer.py
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Expand Up @@ -76,26 +76,3 @@ def __init__(self, id=Component.UNDEFINED, sequence=Component.UNDEFINED, showLin
raise TypeError(
'Required argument `' + k + '` was not specified.')
super(SequenceViewer, self).__init__(**args)

def __repr__(self):
if(any(getattr(self, c, None) is not None
for c in self._prop_names
if c is not self._prop_names[0])
or any(getattr(self, c, None) is not None
for c in self.__dict__.keys()
if any(c.startswith(wc_attr)
for wc_attr in self._valid_wildcard_attributes))):
props_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self._prop_names
if getattr(self, c, None) is not None])
wilds_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self.__dict__.keys()
if any([c.startswith(wc_attr)
for wc_attr in
self._valid_wildcard_attributes])])
return ('SequenceViewer(' + props_string +
(', ' + wilds_string if wilds_string != '' else '') + ')')
else:
return (
'SequenceViewer(' +
repr(getattr(self, self._prop_names[0], None)) + ')')
23 changes: 0 additions & 23 deletions dash_bio/Speck.py
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Expand Up @@ -61,26 +61,3 @@ def __init__(self, id=Component.UNDEFINED, data=Component.UNDEFINED, scrollZoom=
raise TypeError(
'Required argument `' + k + '` was not specified.')
super(Speck, self).__init__(**args)

def __repr__(self):
if(any(getattr(self, c, None) is not None
for c in self._prop_names
if c is not self._prop_names[0])
or any(getattr(self, c, None) is not None
for c in self.__dict__.keys()
if any(c.startswith(wc_attr)
for wc_attr in self._valid_wildcard_attributes))):
props_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self._prop_names
if getattr(self, c, None) is not None])
wilds_string = ', '.join([c+'='+repr(getattr(self, c, None))
for c in self.__dict__.keys()
if any([c.startswith(wc_attr)
for wc_attr in
self._valid_wildcard_attributes])])
return ('Speck(' + props_string +
(', ' + wilds_string if wilds_string != '' else '') + ')')
else:
return (
'Speck(' +
repr(getattr(self, self._prop_names[0], None)) + ')')
6 changes: 1 addition & 5 deletions requirements.txt
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Expand Up @@ -5,13 +5,9 @@
biopython
colour==0.1.5
Comment thread
mkcor marked this conversation as resolved.
cython>=0.19
dash==0.37.0
dash>=0.40.0
dash-bio==0.0.8rc13
dash-core-components==0.43.1
dash-daq==0.1.4
dash-html-components==0.13.5
dash-renderer==0.18.0
dash-table==3.4.0
gunicorn
jsonschema
matplotlib
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3 changes: 1 addition & 2 deletions setup.py
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Expand Up @@ -18,8 +18,7 @@
install_requires=[
'biopython',
'colour',
'dash>=0.37.0',
'dash-html-components',
'dash>=0.40.0',
'pandas',
'parmed',
'plotly',
Expand Down
4 changes: 2 additions & 2 deletions tests/dashbio_demos/app_alignment_viewer.py
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Expand Up @@ -104,11 +104,11 @@ def layout():
html.Div([
html.Div(id='alignment-control-tabs', children=[
dcc.Tabs(
id='alignment-tabs',
id='alignment-tabs', value='what-is',
children=[
dcc.Tab(
label='About',
value='alignment-tab-about',
value='what-is',
children=html.Div(className='alignment-tab', children=[
html.H4(
"What is Alignment Viewer?"
Expand Down
2 changes: 1 addition & 1 deletion tests/dashbio_demos/app_circos.py
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Expand Up @@ -922,7 +922,7 @@ def layout():
),

html.Div(id='circos-control-tabs', children=[
dcc.Tabs(id='circos-tabs', children=[
dcc.Tabs(id='circos-tabs', value='what-is', children=[
dcc.Tab(
label='About',
value='what-is',
Expand Down
2 changes: 1 addition & 1 deletion tests/dashbio_demos/app_clustergram.py
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Expand Up @@ -125,7 +125,7 @@ def layout():
),

html.Div(id='clustergram-control-tabs', children=[
dcc.Tabs(id='clustergram-tabs', children=[
dcc.Tabs(id='clustergram-tabs', value='what-is', children=[
dcc.Tab(
label='About',
value='what-is',
Expand Down
2 changes: 1 addition & 1 deletion tests/dashbio_demos/app_ideogram.py
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Expand Up @@ -426,7 +426,7 @@ def layout():
return html.Div(id='ideogram-body', children=[
html.Div(id='ideogram-container'),
html.Div(id='ideogram-control-tabs', children=[
dcc.Tabs(id='ideogram-tabs', children=[
dcc.Tabs(id='ideogram-tabs', value='what-is', children=[
dcc.Tab(
label='About',
value='what-is',
Expand Down
2 changes: 1 addition & 1 deletion tests/dashbio_demos/app_manhattan_plot.py
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Expand Up @@ -53,7 +53,7 @@ def layout():
),

html.Div(id='manhattan-control-tabs', children=[
dcc.Tabs(id='manhattan-tabs', children=[
dcc.Tabs(id='manhattan-tabs', value='what-is', children=[
dcc.Tab(
label='About',
value='what-is',
Expand Down
4 changes: 1 addition & 3 deletions tests/dashbio_demos/app_molecule3d.py
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Expand Up @@ -41,11 +41,10 @@ def layout():
return html.Div(
id="mol3d-body",
children=[

html.Div(
id='mol3d-control-tabs',
children=[
dcc.Tabs([
dcc.Tabs(id='mol3d-tabs', value='what-is', children=[
dcc.Tab(
label='About',
value='what-is',
Expand Down Expand Up @@ -231,7 +230,6 @@ def layout():
),

]),
html.Div(id='mol3d-tabs-content')
]),

html.Div(
Expand Down
2 changes: 1 addition & 1 deletion tests/dashbio_demos/app_needle_plot.py
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Expand Up @@ -120,7 +120,7 @@ def layout():
),

html.Div(id='needleplot-control-tabs', children=[
dcc.Tabs(id='needleplot-tabs', children=[
dcc.Tabs(id='needleplot-tabs', value='what-is', children=[
dcc.Tab(
label='About',
value='what-is',
Expand Down
2 changes: 1 addition & 1 deletion tests/dashbio_demos/app_sequence_viewer.py
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Expand Up @@ -151,7 +151,7 @@ def layout():
),

html.Div(id='seq-view-control-tabs', children=[
dcc.Tabs(id='seq-view-tabs', children=[
dcc.Tabs(id='seq-view-tabs', value='what-is', children=[
dcc.Tab(
label='About',
value='what-is',
Expand Down
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