def add_eics(self, data, labels=None, configs=None):
""" do not forget to call replot() after calling this function ! """
allrts = list()
if configs is None:
configs = [{"color": getColor(i)} for i in range(len(data))]
if labels is None:
labels = [""] * len(data)
unique_labels = set()
# items_with_label = []
seen = set()
for i, (rts, chromatogram) in enumerate(data):
# we do not plot duplicates, which might happen if multiple lines in the
# table explorer are sellected !
if (id(rts), id(chromatogram)) in seen:
continue
seen.add((id(rts), id(chromatogram)))
config = configs[i]
label = "<pre>%s</pre>" % labels[i]
unique_labels.add(label)
curve = make_unselectable_curve(rts, chromatogram, title=label, **config)
allrts.extend(rts)
self.plot.add_item(curve)
self.plot.add_item(self.label)
self.plot.set_x_values(sorted(set(allrts)))
# no idea why guiqwt needs double registration here:
self.marker.attach(self.plot)
self.plot.add_item(self.marker)
# self._add_legend(unique_labels, items_with_label)
if self.range_ is not None:
self.plot.add_item(self.range_)
def __init__(self, parent=None):
super(MzPlottingWidget, self).__init__(parent, xlabel="mz", ylabel="I")
patch_inner_plot_object(self, MzPlot)
self.plot.centralMz = None
def label(self, x):
# label with full precision:
return QwtText(str(x))
a = QwtScaleDraw()
a.label = new.instancemethod(label, self.plot, QwtScaleDraw)
self.plot.setAxisScaleDraw(self.plot.xBottom, a)
self.pm = PlotManager(self)
self.pm.add_plot(self.plot)
self.curve = make_unselectable_curve([], [],
color="b",
curvestyle="Sticks")
self.plot.add_item(self.curve)
t = self.pm.add_tool(MzSelectionTool)
self.pm.set_default_tool(t)
t.activate()
marker = Marker(label_cb=self.plot.label_info,
constraint_cb=self.plot.on_plot)
marker.attach(self.plot)
line = make_measurement_line()
line.setVisible(0)
setupCommonStyle(line, marker)
line.shapeparam.line.color = "#555555"
line.shapeparam.update_shape(line)
label = make.info_label("TR", [MzCursorInfo(marker, line)], title=None)
label.labelparam.label = ""
label.labelparam.font.size = 12
label.labelparam.update_label(label)
self.marker = marker
self.label = label
self.line = line
def add_time_series(self, time_series, configs=None):
seen = set()
x_values = []
labels = []
items_with_label = []
for i, ts in enumerate(time_series):
# we do not plot duplicates, which might happen if multiple lines in the
# table explorer are sellected !
if ts.uniqueId() in seen:
continue
seen.add(ts.uniqueId())
config = None
if configs is not None:
config = configs[i]
if config is None:
config = dict(color=getColor(i))
title = ts.label
for j, item in enumerate(ts.for_plotting()):
lconfig = config.copy()
if len(item) == 2:
x, y = item
else:
x, y, special_config = item
lconfig.update(special_config)
x = [
xi.toordinal() if isinstance(xi, datetime) else xi
for xi in x
]
x_values.extend(x)
curve = make_unselectable_curve(x,
y,
title="<pre>%s</pre>" % title,
**lconfig)
self.plot.add_item(curve)
if j == 0:
labels.append(title)
items_with_label.append(curve)
x_values = sorted(set(x_values))
self.plot.set_x_values(x_values)
self.plot.add_item(self.marker)
self.plot.add_item(self.label)
unique_labels = set(labels)
self._add_legend(unique_labels, items_with_label)
def plot_spectra(self, all_peaks, labels):
self.plot.del_all_items()
self.plot.add_item(self.marker)
self.plot.add_item(make.legend("TL"))
self.plot.add_item(self.label)
for i, (peaks, label) in enumerate(zip(all_peaks, labels)):
config = dict(color=getColor(i))
curve = make_unselectable_curve([], [], title=label, curvestyle="Sticks", **config)
curve.set_data(peaks[:, 0], peaks[:, 1])
self.plot.add_item(curve)
self.plot.resample_config = []
self.plot.add_item(self.line)
if len(all_peaks):
self.plot.all_peaks = np.vstack(all_peaks)
else:
self.plot.all_peaks = np.zeros((0, 2))
def __init__(self, parent=None):
super(MzPlottingWidget, self).__init__(parent, xlabel="mz", ylabel="I")
patch_inner_plot_object(self, MzPlot)
self.plot.centralMz = None
def label(self, x):
# label with full precision:
return QwtText(str(x))
a = QwtScaleDraw()
a.label = new.instancemethod(label, self.plot, QwtScaleDraw)
self.plot.setAxisScaleDraw(self.plot.xBottom, a)
self.pm = PlotManager(self)
self.pm.add_plot(self.plot)
self.curve = make_unselectable_curve([], [], color="b", curvestyle="Sticks")
self.plot.add_item(self.curve)
t = self.pm.add_tool(MzSelectionTool)
self.pm.set_default_tool(t)
t.activate()
marker = Marker(label_cb=self.plot.label_info, constraint_cb=self.plot.on_plot)
marker.attach(self.plot)
line = make_measurement_line()
line.setVisible(0)
setupCommonStyle(line, marker)
line.shapeparam.line.color = "#555555"
line.shapeparam.update_shape(line)
label = make.info_label("TR", [MzCursorInfo(marker, line)], title=None)
label.labelparam.label = ""
label.labelparam.font.size = 12
label.labelparam.update_label(label)
self.marker = marker
self.label = label
self.line = line
def eic_plotter(self):
"""generator which receives plot items"""
unique_labels = set()
seen = set()
allrts = []
for i in itertools.count():
item = yield
if item is None:
break
label, curve, config = item
if config is None:
config = {"color": getColor(i), "linewidth": 1.5}
rts, chromatogram = curve
if (id(rts), id(chromatogram)) in seen:
continue
seen.add((id(rts), id(chromatogram)))
label = "<pre>%s</pre>" % label
unique_labels.add(label)
curve = make_unselectable_curve(rts, chromatogram, title=label, **config)
allrts.extend(rts)
self.plot.add_item(curve)
self.plot.replot()
qapplication().processEvents()
self.plot.add_item(self.label)
self.plot.set_x_values(sorted(set(allrts)))
# no idea why guiqwt needs double registration here:
self.marker.attach(self.plot)
self.plot.add_item(self.marker)
if self.range_ is not None:
self.plot.add_item(self.range_)
self.plot.replot()
yield # avoids StopIteration
def plot_spectra(self, all_peaks, labels):
self.plot.del_all_items()
self.plot.add_item(self.marker)
self.plot.add_item(make.legend("TL"))
self.plot.add_item(self.label)
for i, (peaks, label) in enumerate(zip(all_peaks, labels)):
config = dict(color=getColor(i))
curve = make_unselectable_curve([], [],
title=label,
curvestyle="Sticks",
**config)
curve.set_data(peaks[:, 0], peaks[:, 1])
self.plot.add_item(curve)
self.plot.resample_config = []
self.plot.add_item(self.line)
if len(all_peaks):
self.plot.all_peaks = np.vstack(all_peaks)
else:
self.plot.all_peaks = np.zeros((0, 2))
def add_time_series(self, time_series, configs=None):
seen = set()
x_values = []
labels = []
items_with_label = []
for i, ts in enumerate(time_series):
# we do not plot duplicates, which might happen if multiple lines in the
# table explorer are sellected !
if ts.uniqueId() in seen:
continue
seen.add(ts.uniqueId())
config = None
if configs is not None:
config = configs[i]
if config is None:
config = dict(color=getColor(i))
title = ts.label
for j, item in enumerate(ts.for_plotting()):
lconfig = config.copy()
if len(item) == 2:
x, y = item
else:
x, y, special_config = item
lconfig.update(special_config)
x = [xi.toordinal() if isinstance(xi, datetime) else xi for xi in x]
x_values.extend(x)
curve = make_unselectable_curve(x, y, title="<pre>%s</pre>" % title, **lconfig)
self.plot.add_item(curve)
if j == 0:
labels.append(title)
items_with_label.append(curve)
x_values = sorted(set(x_values))
self.plot.set_x_values(x_values)
self.plot.add_item(self.marker)
self.plot.add_item(self.label)
unique_labels = set(labels)
self._add_legend(unique_labels, items_with_label)
def add_eics(self, data, labels=None, configs=None):
""" do not forget to call replot() after calling this function ! """
allrts = list()
if configs is None:
configs = [{"color": getColor(i)} for i in range(len(data))]
if labels is None:
labels = [""] * len(data)
unique_labels = set()
# items_with_label = []
seen = set()
for i, (rts, chromatogram) in enumerate(data):
# we do not plot duplicates, which might happen if multiple lines in the
# table explorer are sellected !
if (id(rts), id(chromatogram)) in seen:
continue
seen.add((id(rts), id(chromatogram)))
config = configs[i]
label = "<pre>%s</pre>" % labels[i]
unique_labels.add(label)
curve = make_unselectable_curve(rts,
chromatogram,
title=label,
**config)
allrts.extend(rts)
self.plot.add_item(curve)
self.plot.add_item(self.label)
self.plot.set_x_values(sorted(set(allrts)))
# no idea why guiqwt needs double registration here:
self.marker.attach(self.plot)
self.plot.add_item(self.marker)
# self._add_legend(unique_labels, items_with_label)
if self.range_ is not None:
self.plot.add_item(self.range_)
