dcscope 2.22.1__py3-none-any.whl

dcscope/gui/analysis/ana_view.ui

@@ -0,0 +1,269 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<ui version="4.0">
+ <class>Form</class>
+ <widget class="QWidget" name="Form">
+  <property name="geometry">
+   <rect>
+    <x>0</x>
+    <y>0</y>
+    <width>702</width>
+    <height>547</height>
+   </rect>
+  </property>
+  <property name="minimumSize">
+   <size>
+    <width>600</width>
+    <height>500</height>
+   </size>
+  </property>
+  <property name="windowTitle">
+   <string>Analysis View</string>
+  </property>
+  <property name="windowIcon">
+   <iconset theme="tools-wizard"/>
+  </property>
+  <layout class="QHBoxLayout" name="horizontalLayout">
+   <item>
+    <widget class="QTabWidget" name="tabWidget">
+     <property name="currentIndex">
+      <number>1</number>
+     </property>
+     <widget class="QWidget" name="tab_meta">
+      <attribute name="icon">
+       <iconset theme="documentinfo"/>
+      </attribute>
+      <attribute name="title">
+       <string>Meta</string>
+      </attribute>
+      <layout class="QHBoxLayout" name="horizontalLayout_2">
+       <property name="spacing">
+        <number>0</number>
+       </property>
+       <property name="leftMargin">
+        <number>0</number>
+       </property>
+       <property name="topMargin">
+        <number>0</number>
+       </property>
+       <property name="rightMargin">
+        <number>0</number>
+       </property>
+       <property name="bottomMargin">
+        <number>0</number>
+       </property>
+       <item>
+        <widget class="MetaPanel" name="widget_meta" native="true">
+         <property name="minimumSize">
+          <size>
+           <width>0</width>
+           <height>0</height>
+          </size>
+         </property>
+        </widget>
+       </item>
+      </layout>
+     </widget>
+     <widget class="QWidget" name="tab_basins">
+      <attribute name="icon">
+       <iconset theme="view-list-tree"/>
+      </attribute>
+      <attribute name="title">
+       <string>Basins</string>
+      </attribute>
+      <layout class="QVBoxLayout" name="verticalLayout_5">
+       <property name="leftMargin">
+        <number>0</number>
+       </property>
+       <property name="topMargin">
+        <number>0</number>
+       </property>
+       <property name="rightMargin">
+        <number>0</number>
+       </property>
+       <property name="bottomMargin">
+        <number>0</number>
+       </property>
+       <item>
+        <widget class="BasinsPanel" name="widget_basins" native="true"/>
+       </item>
+      </layout>
+     </widget>
+     <widget class="QWidget" name="tab_tables">
+      <attribute name="icon">
+       <iconset theme="office-chart-line-stacked"/>
+      </attribute>
+      <attribute name="title">
+       <string>Tables</string>
+      </attribute>
+      <layout class="QVBoxLayout" name="verticalLayout_4">
+       <property name="leftMargin">
+        <number>0</number>
+       </property>
+       <property name="topMargin">
+        <number>0</number>
+       </property>
+       <property name="rightMargin">
+        <number>0</number>
+       </property>
+       <property name="bottomMargin">
+        <number>0</number>
+       </property>
+       <item>
+        <widget class="TablesPanel" name="widget_tables" native="true"/>
+       </item>
+      </layout>
+     </widget>
+     <widget class="QWidget" name="tab_log">
+      <attribute name="icon">
+       <iconset theme="view-calendar-list"/>
+      </attribute>
+      <attribute name="title">
+       <string>Logs</string>
+      </attribute>
+      <layout class="QVBoxLayout" name="verticalLayout_3">
+       <property name="leftMargin">
+        <number>0</number>
+       </property>
+       <property name="topMargin">
+        <number>0</number>
+       </property>
+       <property name="rightMargin">
+        <number>0</number>
+       </property>
+       <property name="bottomMargin">
+        <number>0</number>
+       </property>
+       <item>
+        <widget class="LogPanel" name="widget_log" native="true"/>
+       </item>
+      </layout>
+     </widget>
+     <widget class="QWidget" name="tab_slot">
+      <attribute name="icon">
+       <iconset theme="office-chart-ring"/>
+      </attribute>
+      <attribute name="title">
+       <string>Dataset</string>
+      </attribute>
+      <layout class="QVBoxLayout" name="verticalLayout_2">
+       <property name="leftMargin">
+        <number>0</number>
+       </property>
+       <property name="topMargin">
+        <number>0</number>
+       </property>
+       <property name="rightMargin">
+        <number>0</number>
+       </property>
+       <property name="bottomMargin">
+        <number>0</number>
+       </property>
+       <item>
+        <widget class="SlotPanel" name="widget_slot" native="true"/>
+       </item>
+      </layout>
+     </widget>
+     <widget class="QWidget" name="tab_filter">
+      <attribute name="icon">
+       <iconset theme="view-filter"/>
+      </attribute>
+      <attribute name="title">
+       <string>Filter</string>
+      </attribute>
+      <layout class="QHBoxLayout" name="horizontalLayout_3">
+       <property name="spacing">
+        <number>0</number>
+       </property>
+       <property name="leftMargin">
+        <number>0</number>
+       </property>
+       <property name="topMargin">
+        <number>0</number>
+       </property>
+       <property name="rightMargin">
+        <number>0</number>
+       </property>
+       <property name="bottomMargin">
+        <number>0</number>
+       </property>
+       <item>
+        <widget class="FilterPanel" name="widget_filter" native="true"/>
+       </item>
+      </layout>
+     </widget>
+     <widget class="QWidget" name="tab_plot">
+      <attribute name="icon">
+       <iconset theme="draw-watercolor"/>
+      </attribute>
+      <attribute name="title">
+       <string>Plot</string>
+      </attribute>
+      <layout class="QVBoxLayout" name="verticalLayout">
+       <property name="leftMargin">
+        <number>0</number>
+       </property>
+       <property name="topMargin">
+        <number>0</number>
+       </property>
+       <property name="rightMargin">
+        <number>0</number>
+       </property>
+       <property name="bottomMargin">
+        <number>0</number>
+       </property>
+       <item>
+        <widget class="PlotPanel" name="widget_plot" native="true"/>
+       </item>
+      </layout>
+     </widget>
+    </widget>
+   </item>
+  </layout>
+ </widget>
+ <customwidgets>
+  <customwidget>
+   <class>FilterPanel</class>
+   <extends>QWidget</extends>
+   <header>dcscope.gui.analysis</header>
+   <container>1</container>
+  </customwidget>
+  <customwidget>
+   <class>MetaPanel</class>
+   <extends>QWidget</extends>
+   <header>dcscope.gui.analysis</header>
+   <container>1</container>
+  </customwidget>
+  <customwidget>
+   <class>PlotPanel</class>
+   <extends>QWidget</extends>
+   <header>dcscope.gui.analysis</header>
+   <container>1</container>
+  </customwidget>
+  <customwidget>
+   <class>SlotPanel</class>
+   <extends>QWidget</extends>
+   <header>dcscope.gui.analysis</header>
+   <container>1</container>
+  </customwidget>
+  <customwidget>
+   <class>LogPanel</class>
+   <extends>QWidget</extends>
+   <header>dcscope.gui.analysis</header>
+   <container>1</container>
+  </customwidget>
+  <customwidget>
+   <class>TablesPanel</class>
+   <extends>QWidget</extends>
+   <header>dcscope.gui.analysis</header>
+   <container>1</container>
+  </customwidget>
+  <customwidget>
+   <class>BasinsPanel</class>
+   <extends>QWidget</extends>
+   <header>dcscope.gui.analysis</header>
+   <container>1</container>
+  </customwidget>
+ </customwidgets>
+ <resources/>
+ <connections/>
+</ui>

dcscope/gui/analysis/dlg_slot_reorder.py

@@ -0,0 +1,55 @@
+import importlib.resources
+
+from PyQt6 import uic, QtCore, QtWidgets
+
+
+class DlgSlotReorder(QtWidgets.QDialog):
+    pipeline_changed = QtCore.pyqtSignal(dict)
+
+    def __init__(self, pipeline, *args, **kwargs):
+        super(DlgSlotReorder, self).__init__(*args, **kwargs)
+        ref = importlib.resources.files(
+            "dcscope.gui.analysis") / "dlg_slot_reorder.ui"
+        with importlib.resources.as_file(ref) as path_ui:
+            uic.loadUi(path_ui, self)
+
+        self.pipeline = pipeline
+        for ii, slot in enumerate(pipeline.slots):
+            self.listWidget.addItem("{}: {}".format(ii, slot.name))
+
+        self.toolButton_down.clicked.connect(self.on_move_item)
+        self.toolButton_up.clicked.connect(self.on_move_item)
+        btn_ok = self.buttonBox.button(
+            QtWidgets.QDialogButtonBox.StandardButton.Ok)
+        btn_ok.clicked.connect(self.on_ok)
+
+    @QtCore.pyqtSlot()
+    def on_ok(self):
+        """Apply the changes made in the UI and update the pipeline"""
+        # get order
+        indices = []
+        for row in range(self.listWidget.count()):
+            item = self.listWidget.item(row)
+            text = item.text()
+            idx = int(text.split(":", 1)[0])
+            indices.append(idx)
+        # reorder pipeline and send pipeline_changed signal
+        self.pipeline.reorder_slots(indices)
+        state = self.pipeline.__getstate__()
+        self.pipeline_changed.emit(state)
+
+    @QtCore.pyqtSlot()
+    def on_move_item(self):
+        """Move currently selected item one row up or down"""
+        row = self.listWidget.currentRow()
+        if row == -1:
+            return
+        item = self.listWidget.takeItem(row)
+
+        if self.sender() == self.toolButton_down:
+            new_row = row + 1
+        else:
+            new_row = row - 1
+
+        self.listWidget.insertItem(new_row, item)
+        self.listWidget.setCurrentRow(new_row)

dcscope/gui/analysis/dlg_slot_reorder.ui

@@ -0,0 +1,138 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<ui version="4.0">
+ <class>Dialog</class>
+ <widget class="QDialog" name="Dialog">
+  <property name="geometry">
+   <rect>
+    <x>0</x>
+    <y>0</y>
+    <width>400</width>
+    <height>300</height>
+   </rect>
+  </property>
+  <property name="windowTitle">
+   <string>Change dataset order</string>
+  </property>
+  <layout class="QVBoxLayout" name="verticalLayout">
+   <item>
+    <widget class="QLabel" name="label">
+     <property name="text">
+      <string>To change the dataset order, use drag&amp;drop or select an item and use the arrow buttons.</string>
+     </property>
+     <property name="wordWrap">
+      <bool>true</bool>
+     </property>
+    </widget>
+   </item>
+   <item>
+    <layout class="QHBoxLayout" name="horizontalLayout">
+     <item>
+      <widget class="QListWidget" name="listWidget">
+       <property name="showDropIndicator" stdset="0">
+        <bool>true</bool>
+       </property>
+       <property name="dragDropMode">
+        <enum>QAbstractItemView::InternalMove</enum>
+       </property>
+      </widget>
+     </item>
+     <item>
+      <layout class="QVBoxLayout" name="verticalLayout_2">
+       <item>
+        <spacer name="verticalSpacer">
+         <property name="orientation">
+          <enum>Qt::Vertical</enum>
+         </property>
+         <property name="sizeHint" stdset="0">
+          <size>
+           <width>20</width>
+           <height>0</height>
+          </size>
+         </property>
+        </spacer>
+       </item>
+       <item>
+        <widget class="QToolButton" name="toolButton_up">
+         <property name="text">
+          <string>...</string>
+         </property>
+         <property name="arrowType">
+          <enum>Qt::UpArrow</enum>
+         </property>
+        </widget>
+       </item>
+       <item>
+        <widget class="QToolButton" name="toolButton_down">
+         <property name="text">
+          <string>...</string>
+         </property>
+         <property name="arrowType">
+          <enum>Qt::DownArrow</enum>
+         </property>
+        </widget>
+       </item>
+       <item>
+        <spacer name="verticalSpacer_2">
+         <property name="orientation">
+          <enum>Qt::Vertical</enum>
+         </property>
+         <property name="sizeHint" stdset="0">
+          <size>
+           <width>20</width>
+           <height>0</height>
+          </size>
+         </property>
+        </spacer>
+       </item>
+      </layout>
+     </item>
+    </layout>
+   </item>
+   <item>
+    <widget class="QDialogButtonBox" name="buttonBox">
+     <property name="orientation">
+      <enum>Qt::Horizontal</enum>
+     </property>
+     <property name="standardButtons">
+      <set>QDialogButtonBox::Cancel|QDialogButtonBox::Ok</set>
+     </property>
+    </widget>
+   </item>
+  </layout>
+ </widget>
+ <resources/>
+ <connections>
+  <connection>
+   <sender>buttonBox</sender>
+   <signal>accepted()</signal>
+   <receiver>Dialog</receiver>
+   <slot>accept()</slot>
+   <hints>
+    <hint type="sourcelabel">
+     <x>248</x>
+     <y>254</y>
+    </hint>
+    <hint type="destinationlabel">
+     <x>157</x>
+     <y>274</y>
+    </hint>
+   </hints>
+  </connection>
+  <connection>
+   <sender>buttonBox</sender>
+   <signal>rejected()</signal>
+   <receiver>Dialog</receiver>
+   <slot>reject()</slot>
+   <hints>
+    <hint type="sourcelabel">
+     <x>316</x>
+     <y>260</y>
+    </hint>
+    <hint type="destinationlabel">
+     <x>286</x>
+     <y>274</y>
+    </hint>
+   </hints>
+  </connection>
+ </connections>
+</ui>

dcscope/gui/bulk/__init__.py

@@ -0,0 +1,2 @@
+# flake8: noqa: F401
+from .bulk_emodulus import BulkActionEmodulus

dcscope/gui/bulk/bulk_emodulus.py

@@ -0,0 +1,200 @@
+import importlib.resources
+
+import dclab
+from dclab.features.emodulus.viscosity import (
+    KNOWN_MEDIA, SAME_MEDIA, get_viscosity
+)
+import numpy as np
+
+from PyQt6 import uic, QtCore, QtWidgets
+
+from dcscope.gui.analysis.ana_slot import SlotPanel
+from dcscope.gui.widgets import show_wait_cursor
+
+
+class BulkActionEmodulus(QtWidgets.QDialog):
+    #: Emitted when the pipeline is to be changed
+    pipeline_changed = QtCore.pyqtSignal(dict)
+
+    def __init__(self, parent, pipeline, *args, **kwargs):
+        super(BulkActionEmodulus, self).__init__(parent=parent,
+                                                 *args, **kwargs)
+        ref = importlib.resources.files(
+            "dcscope.gui.bulk") / "bulk_emodulus.ui"
+        with importlib.resources.as_file(ref) as path_ui:
+            uic.loadUi(path_ui, self)
+
+        # main
+        self.parent = self.parent
+
+        # set pipeline
+        self.pipeline = pipeline
+
+        # ui choices
+        self.comboBox_medium.clear()
+        self.comboBox_medium.addItem("Other", "other")
+        for name in SAME_MEDIA:
+            for sk in SAME_MEDIA[name]:
+                if sk.count("Cell"):  # just add CellCarrier information
+                    info = f" ({sk})"
+                    break
+            else:
+                info = ""
+            self.comboBox_medium.addItem(name + info, name)
+
+        self.comboBox_medium.addItem("Not defined", "undefined")
+        self.comboBox_medium.addItem("Unchanged", "unchanged")
+        self.comboBox_medium.setCurrentIndex(
+            self.comboBox_medium.findData("unchanged"))
+        self.comboBox_medium.currentIndexChanged.connect(self.on_cb_medium)
+
+        self.comboBox_temp.clear()
+        self.comboBox_temp.addItem("From feature", "feature")
+        self.comboBox_temp.addItem("From meta data", "config")
+        self.comboBox_temp.addItem("Manual", "manual")
+        self.comboBox_temp.setCurrentIndex(
+            self.comboBox_temp.findData("feature"))
+        self.comboBox_temp.currentIndexChanged.connect(self.on_cb_temp)
+
+        self.comboBox_visc_model.clear()
+        self.comboBox_visc_model.addItem("buyukurganci-2022",
+                                         "buyukurganci-2022")
+        self.comboBox_visc_model.addItem("herold-2017", "herold-2017")
+        self.comboBox_visc_model.setCurrentIndex(
+            self.comboBox_visc_model.findData("buyukurganci-2022"))
+        self.comboBox_visc_model.currentIndexChanged.connect(self.on_cb_medium)
+
+        self.comboBox_lut.clear()
+        lut_dict = dclab.features.emodulus.load.get_internal_lut_names_dict()
+        for lut_id in lut_dict.keys():
+            self.comboBox_lut.addItem(lut_id, lut_id)
+        # Set default LUT
+        idx = self.comboBox_lut.findData("LE-2D-FEM-19")
+        self.comboBox_lut.setCurrentIndex(idx)
+
+        # buttons
+        btn_ok = self.buttonBox.button(
+            QtWidgets.QDialogButtonBox.StandardButton.Ok)
+        btn_ok.clicked.connect(self.on_ok)
+
+        # spin control
+        self.doubleSpinBox_temp.valueChanged.connect(self.on_cb_temp)
+
+        self.on_cb_medium()
+
+    @QtCore.pyqtSlot()
+    def on_ok(self):
+        self.set_emodulus_properties()
+        self.update_ui()
+
+    @QtCore.pyqtSlot()
+    def on_cb_medium(self):
+        """User changed medium"""
+        medium = self.comboBox_medium.currentData()
+        if medium in list(SAME_MEDIA.keys()) + ["unchanged"]:
+            self.doubleSpinBox_visc.setEnabled(False)
+            self.comboBox_temp.setEnabled(True)
+            self.comboBox_visc_model.setEnabled(True)
+        else:
+            self.doubleSpinBox_visc.setEnabled(True)
+            self.comboBox_temp.setEnabled(False)
+            self.comboBox_visc_model.setEnabled(False)
+        self.on_cb_temp()
+
+    @QtCore.pyqtSlot()
+    def on_cb_temp(self):
+        """User changed temperature"""
+        temp = self.comboBox_temp.currentData()
+
+        if not self.comboBox_temp.isEnabled() or temp in ["feature", "config"]:
+            self.doubleSpinBox_temp.setEnabled(False)
+            self.doubleSpinBox_temp.setValue(np.nan)
+        else:
+            self.doubleSpinBox_temp.setEnabled(True)
+            if np.isnan(self.doubleSpinBox_temp.value()):
+                self.doubleSpinBox_temp.setValue(23)
+
+        self.update_viscosity()
+
+    @show_wait_cursor
+    @QtCore.pyqtSlot()
+    def set_emodulus_properties(self):
+        """Set the given emodulus properties for all datasets"""
+        medium = self.comboBox_medium.currentData()
+        visc_model = self.comboBox_visc_model.currentData()
+        lut = self.comboBox_lut.currentData()
+        if self.comboBox_temp.isEnabled():
+            scen = self.comboBox_temp.currentData()
+        else:
+            scen = None
+        if self.doubleSpinBox_temp.isEnabled():
+            tempval = self.doubleSpinBox_temp.value()
+        else:
+            tempval = None
+        if self.doubleSpinBox_visc.isEnabled():
+            viscval = self.doubleSpinBox_visc.value()
+        else:
+            viscval = None
+
+        if len(self.pipeline.slots) == 0:
+            return
+
+        for slot in self.pipeline.slots:
+            ds = slot.get_dataset()
+
+            # Use the internal sanity checks to determine whether
+            # we can set the medium or temperature scenarios.
+            valid_media = SlotPanel.get_dataset_choices_medium(ds)
+            valid_scenarios = SlotPanel.get_dataset_choices_temperature(ds)
+
+            state = slot.__getstate__()
+
+            if medium in [m[1] for m in valid_media]:
+                state["emodulus"]["emodulus medium"] = medium
+                # Set the viscosity here, because unknown media are
+                # available.
+                if viscval is not None:
+                    state["emodulus"]["emodulus viscosity"] = viscval
+
+            if scen in [s[1] for s in valid_scenarios]:  # scen is not None
+                state["emodulus"]["emodulus scenario"] = scen
+                if tempval is not None:
+                    state["emodulus"]["emodulus temperature"] = tempval
+
+            if state["emodulus"]["emodulus medium"] in KNOWN_MEDIA:
+                state["emodulus"]["emodulus viscosity model"] = visc_model
+            else:
+                if "emodulus viscosity model" in state["emodulus"]:
+                    state["emodulus"].pop("emodulus viscosity model")
+
+            state["emodulus"]["emodulus lut"] = lut
+
+            slot.__setstate__(state)
+
+    def update_ui(self):
+        """Update all relevant parts of the main user interface"""
+        state = self.pipeline.__getstate__()
+        self.pipeline_changed.emit(state)
+
+    def update_viscosity(self):
+        """Update viscosity shown"""
+        temp = self.comboBox_temp.currentData()
+
+        if not self.comboBox_temp.isEnabled() or temp in ["feature", "config"]:
+            self.doubleSpinBox_visc.setValue(np.nan)
+            self.doubleSpinBox_visc.setToolTip("unique values per dataset")
+        else:
+            # update the viscosity value shown in the spin control
+            medium = self.comboBox_medium.currentData()
+            if medium in KNOWN_MEDIA:
+                visc = get_viscosity(
+                    temperature=self.doubleSpinBox_temp.value(),
+                    medium=medium,
+                    model=self.comboBox_visc_model.currentData(),
+                )
+                tooltip = "valid for 0.16 µL/s flow rate and 20 µm channel"
+            else:
+                visc = np.nan
+                tooltip = ""
+            self.doubleSpinBox_visc.setValue(visc)
+            self.doubleSpinBox_visc.setToolTip(tooltip)