Merge pull request #3 from hcji/testing

0.99.5b

Author: hcji

AnalTPCAUI.py

@@ -144,10 +144,10 @@ def LoadProteinFile(self):
         else:
             for fileName in fileNames:
                 if fileName:
-                    if fileName.split('.')[1] in ['csv', 'xlsx']:
+                    if fileName.split('.')[-1] in ['csv', 'xlsx']:
                         self.ListFile.addItem(fileName)
                     else:
-                        pass
+                        self.WarnMsg("Invalid format")
 
 
     def ClearProteinFile(self):
@@ -159,10 +159,11 @@ def LoadProteinComplex(self):
         options |= QtWidgets.QFileDialog.DontUseNativeDialog
         fileName, _ = QtWidgets.QFileDialog.getOpenFileName(self,"Load", "","All Files (*);;CSV Files (*.csv)", options=options)
         if fileName:
-            if fileName.split('.')[1] in ['csv', 'xlsx']:
+            if fileName.split('.')[-1] in ['csv', 'xlsx']:
                 self.ListDatabase.addItem(fileName)
             else:
                 self.ErrorMsg("Invalid format")
+                return None
         else:
             pass
 
@@ -192,11 +193,12 @@ def SelectProteinTable(self):
             self.ErrorMsg('No item is selected')
             return None
         try:
-            if selectItem.text().split('.')[1] == 'csv':
+            if selectItem.text().split('.')[-1] == 'csv':
                 selectData = pd.read_csv(selectItem.text())
-            elif selectItem.text().split('.')[1] == 'xlsx':
+            elif selectItem.text().split('.')[-1] == 'xlsx':
                 selectData = pd.read_excel(selectItem.text())
             else:
+                self.ErrorMsg("Invalid format")
                 return None
         except:
             self.ErrorMsg('Cannot be load the selected file')
@@ -290,12 +292,13 @@ def TakeProteinComplex(self):
     def SetProteinComplex(self):
         selectItem = self.ListDatabase.currentItem()
         try:
-            if selectItem.text().split('.')[1] == 'csv':
+            if selectItem.text().split('.')[-1] == 'csv':
                 selectData = pd.read_csv(selectItem.text())
-            elif selectItem.text().split('.')[1] == 'xlsx':
+            elif selectItem.text().split('.')[-1] == 'xlsx':
                 selectData = pd.read_excel(selectItem.text())
             else:
-                pass
+                self.ErrorMsg("Invalid format")
+                return None
 
             if 'Subunits_UniProt_IDs' not in selectData.columns:
                 self.ErrorMsg("Subunits_UniProt_IDs' not in columns")
@@ -391,18 +394,19 @@ def LoadProteinPair(self):
         options |= QtWidgets.QFileDialog.DontUseNativeDialog
         fileName, _ = QtWidgets.QFileDialog.getOpenFileName(self,"Load", "","All Files (*);;CSV Files (*.csv)", options=options)
         if fileName:
-            if fileName.split('.')[1] == 'csv':
+            if fileName.split('.')[-1] == 'csv':
                 proteinPair = pd.read_csv(fileName)
                 header = [c for c in proteinPair.columns if c in ['Protein A', 'Protein B', 'Publications']]
                 proteinPair = proteinPair.loc[:, header]
                 self.AnalROCUI.tableView.setModel(TableModel(proteinPair))
-            elif fileName.split('.')[1] == 'xlsx':
+            elif fileName.split('.')[-1] == 'xlsx':
                 proteinPair = pd.read_excel(fileName)
                 header = [c for c in proteinPair.columns if c in ['Protein A', 'Protein B', 'Publications']]
                 proteinPair = proteinPair.loc[:, header]
                 self.AnalROCUI.tableView.setModel(TableModel(proteinPair))
             else:
                 self.ErrorMsg("Invalid format")
+                return None
             self.AnalROCUI.spinBoxRandom.setProperty("value", len(proteinPair))
 
 

AnalTPP2D.py

@@ -0,0 +1,243 @@
+# -*- coding: utf-8 -*-
+
+# Form implementation generated from reading ui file 'AnalTPP2D.ui'
+#
+# Created by: PyQt5 UI code generator 5.15.4
+#
+# WARNING: Any manual changes made to this file will be lost when pyuic5 is
+# run again.  Do not edit this file unless you know what you are doing.
+
+
+from PyQt5 import QtCore, QtGui, QtWidgets
+
+
+class Ui_Form(object):
+    def setupUi(self, Form):
+        Form.setObjectName("Form")
+        Form.resize(1101, 782)
+        self.gridLayout = QtWidgets.QGridLayout(Form)
+        self.gridLayout.setObjectName("gridLayout")
+        self.splitter = QtWidgets.QSplitter(Form)
+        self.splitter.setOrientation(QtCore.Qt.Horizontal)
+        self.splitter.setObjectName("splitter")
+        self.widget = QtWidgets.QWidget(self.splitter)
+        self.widget.setObjectName("widget")
+        self.verticalLayout = QtWidgets.QVBoxLayout(self.widget)
+        self.verticalLayout.setContentsMargins(0, 0, 0, 0)
+        self.verticalLayout.setObjectName("verticalLayout")
+        self.label_1 = QtWidgets.QLabel(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(12)
+        font.setBold(False)
+        font.setWeight(50)
+        self.label_1.setFont(font)
+        self.label_1.setObjectName("label_1")
+        self.verticalLayout.addWidget(self.label_1)
+        self.horizontalLayout = QtWidgets.QHBoxLayout()
+        self.horizontalLayout.setObjectName("horizontalLayout")
+        self.label_2 = QtWidgets.QLabel(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(11)
+        self.label_2.setFont(font)
+        self.label_2.setObjectName("label_2")
+        self.horizontalLayout.addWidget(self.label_2)
+        self.comboBoxMethod = QtWidgets.QComboBox(self.widget)
+        self.comboBoxMethod.setObjectName("comboBoxMethod")
+        self.horizontalLayout.addWidget(self.comboBoxMethod)
+        self.verticalLayout.addLayout(self.horizontalLayout)
+        self.horizontalLayout_2 = QtWidgets.QHBoxLayout()
+        self.horizontalLayout_2.setObjectName("horizontalLayout_2")
+        self.label_9 = QtWidgets.QLabel(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(11)
+        self.label_9.setFont(font)
+        self.label_9.setObjectName("label_9")
+        self.horizontalLayout_2.addWidget(self.label_9)
+        self.spinBoxMaxIt = QtWidgets.QSpinBox(self.widget)
+        self.spinBoxMaxIt.setMinimum(2)
+        self.spinBoxMaxIt.setMaximum(1000)
+        self.spinBoxMaxIt.setProperty("value", 200)
+        self.spinBoxMaxIt.setObjectName("spinBoxMaxIt")
+        self.horizontalLayout_2.addWidget(self.spinBoxMaxIt)
+        self.verticalLayout.addLayout(self.horizontalLayout_2)
+        self.horizontalLayout_3 = QtWidgets.QHBoxLayout()
+        self.horizontalLayout_3.setObjectName("horizontalLayout_3")
+        self.label_12 = QtWidgets.QLabel(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(11)
+        self.label_12.setFont(font)
+        self.label_12.setObjectName("label_12")
+        self.horizontalLayout_3.addWidget(self.label_12)
+        self.spinBoxBoost = QtWidgets.QSpinBox(self.widget)
+        self.spinBoxBoost.setMinimum(2)
+        self.spinBoxBoost.setMaximum(1000)
+        self.spinBoxBoost.setProperty("value", 2)
+        self.spinBoxBoost.setObjectName("spinBoxBoost")
+        self.horizontalLayout_3.addWidget(self.spinBoxBoost)
+        self.verticalLayout.addLayout(self.horizontalLayout_3)
+        self.horizontalLayout_6 = QtWidgets.QHBoxLayout()
+        self.horizontalLayout_6.setObjectName("horizontalLayout_6")
+        self.label_10 = QtWidgets.QLabel(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(11)
+        self.label_10.setFont(font)
+        self.label_10.setObjectName("label_10")
+        self.horizontalLayout_6.addWidget(self.label_10)
+        self.doubleSpinBoxAlpha = QtWidgets.QDoubleSpinBox(self.widget)
+        self.doubleSpinBoxAlpha.setSingleStep(0.01)
+        self.doubleSpinBoxAlpha.setProperty("value", 0.1)
+        self.doubleSpinBoxAlpha.setObjectName("doubleSpinBoxAlpha")
+        self.horizontalLayout_6.addWidget(self.doubleSpinBoxAlpha)
+        self.verticalLayout.addLayout(self.horizontalLayout_6)
+        self.horizontalLayout_5 = QtWidgets.QHBoxLayout()
+        self.horizontalLayout_5.setObjectName("horizontalLayout_5")
+        self.pushButtonData = QtWidgets.QPushButton(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(11)
+        self.pushButtonData.setFont(font)
+        self.pushButtonData.setObjectName("pushButtonData")
+        self.horizontalLayout_5.addWidget(self.pushButtonData)
+        self.pushButtonOK = QtWidgets.QPushButton(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(11)
+        self.pushButtonOK.setFont(font)
+        self.pushButtonOK.setObjectName("pushButtonOK")
+        self.horizontalLayout_5.addWidget(self.pushButtonOK)
+        self.pushButtonClose = QtWidgets.QPushButton(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(11)
+        self.pushButtonClose.setFont(font)
+        self.pushButtonClose.setObjectName("pushButtonClose")
+        self.horizontalLayout_5.addWidget(self.pushButtonClose)
+        self.verticalLayout.addLayout(self.horizontalLayout_5)
+        self.labelDatabase = QtWidgets.QLabel(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(12)
+        self.labelDatabase.setFont(font)
+        self.labelDatabase.setObjectName("labelDatabase")
+        self.verticalLayout.addWidget(self.labelDatabase)
+        self.tableWidgetProteinList = QtWidgets.QTableWidget(self.widget)
+        self.tableWidgetProteinList.setMinimumSize(QtCore.QSize(0, 500))
+        self.tableWidgetProteinList.setObjectName("tableWidgetProteinList")
+        self.tableWidgetProteinList.setColumnCount(0)
+        self.tableWidgetProteinList.setRowCount(0)
+        self.verticalLayout.addWidget(self.tableWidgetProteinList)
+        self.horizontalLayout_4 = QtWidgets.QHBoxLayout()
+        self.horizontalLayout_4.setObjectName("horizontalLayout_4")
+        spacerItem = QtWidgets.QSpacerItem(40, 20, QtWidgets.QSizePolicy.Expanding, QtWidgets.QSizePolicy.Minimum)
+        self.horizontalLayout_4.addItem(spacerItem)
+        self.pushButtonSave = QtWidgets.QPushButton(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(11)
+        self.pushButtonSave.setFont(font)
+        self.pushButtonSave.setObjectName("pushButtonSave")
+        self.horizontalLayout_4.addWidget(self.pushButtonSave)
+        self.pushButtonShow = QtWidgets.QPushButton(self.widget)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(11)
+        self.pushButtonShow.setFont(font)
+        self.pushButtonShow.setObjectName("pushButtonShow")
+        self.horizontalLayout_4.addWidget(self.pushButtonShow)
+        self.verticalLayout.addLayout(self.horizontalLayout_4)
+        self.widget1 = QtWidgets.QWidget(self.splitter)
+        self.widget1.setObjectName("widget1")
+        self.verticalLayout_5 = QtWidgets.QVBoxLayout(self.widget1)
+        self.verticalLayout_5.setContentsMargins(0, 0, 0, 0)
+        self.verticalLayout_5.setObjectName("verticalLayout_5")
+        self.verticalLayout_2 = QtWidgets.QVBoxLayout()
+        self.verticalLayout_2.setObjectName("verticalLayout_2")
+        self.label_11 = QtWidgets.QLabel(self.widget1)
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(12)
+        self.label_11.setFont(font)
+        self.label_11.setObjectName("label_11")
+        self.verticalLayout_2.addWidget(self.label_11)
+        self.tableViewData = QtWidgets.QTableView(self.widget1)
+        self.tableViewData.setMinimumSize(QtCore.QSize(0, 250))
+        self.tableViewData.setObjectName("tableViewData")
+        self.verticalLayout_2.addWidget(self.tableViewData)
+        self.verticalLayout_5.addLayout(self.verticalLayout_2)
+        self.tabWidget = QtWidgets.QTabWidget(self.widget1)
+        self.tabWidget.setMinimumSize(QtCore.QSize(0, 300))
+        font = QtGui.QFont()
+        font.setFamily("Times New Roman")
+        font.setPointSize(12)
+        self.tabWidget.setFont(font)
+        self.tabWidget.setObjectName("tabWidget")
+        self.vocano = QtWidgets.QWidget()
+        font = QtGui.QFont()
+        font.setPointSize(12)
+        self.vocano.setFont(font)
+        self.vocano.setObjectName("vocano")
+        self.gridLayout_5 = QtWidgets.QGridLayout(self.vocano)
+        self.gridLayout_5.setObjectName("gridLayout_5")
+        self.groupBoxVolcano = QtWidgets.QGroupBox(self.vocano)
+        self.groupBoxVolcano.setMinimumSize(QtCore.QSize(0, 0))
+        font = QtGui.QFont()
+        font.setFamily("Arial")
+        font.setPointSize(13)
+        self.groupBoxVolcano.setFont(font)
+        self.groupBoxVolcano.setTitle("")
+        self.groupBoxVolcano.setObjectName("groupBoxVolcano")
+        self.gridLayout_5.addWidget(self.groupBoxVolcano, 0, 0, 1, 1)
+        self.tabWidget.addTab(self.vocano, "")
+        self.heatmap = QtWidgets.QWidget()
+        self.heatmap.setObjectName("heatmap")
+        self.gridLayout_2 = QtWidgets.QGridLayout(self.heatmap)
+        self.gridLayout_2.setObjectName("gridLayout_2")
+        self.groupBoxHeatmap = QtWidgets.QGroupBox(self.heatmap)
+        self.groupBoxHeatmap.setMinimumSize(QtCore.QSize(0, 0))
+        font = QtGui.QFont()
+        font.setFamily("Arial")
+        font.setPointSize(13)
+        self.groupBoxHeatmap.setFont(font)
+        self.groupBoxHeatmap.setTitle("")
+        self.groupBoxHeatmap.setObjectName("groupBoxHeatmap")
+        self.gridLayout_2.addWidget(self.groupBoxHeatmap, 0, 0, 1, 1)
+        self.tabWidget.addTab(self.heatmap, "")
+        self.verticalLayout_5.addWidget(self.tabWidget)
+        self.gridLayout.addWidget(self.splitter, 0, 0, 1, 1)
+
+        self.retranslateUi(Form)
+        self.tabWidget.setCurrentIndex(1)
+        QtCore.QMetaObject.connectSlotsByName(Form)
+
+    def retranslateUi(self, Form):
+        _translate = QtCore.QCoreApplication.translate
+        Form.setWindowTitle(_translate("Form", "Form"))
+        self.label_1.setText(_translate("Form", "Parameters for TPP2D analysis:"))
+        self.label_2.setText(_translate("Form", "Select methods"))
+        self.label_9.setText(_translate("Form", "Maximum Iter"))
+        self.label_12.setText(_translate("Form", "Bootstrap Round"))
+        self.label_10.setText(_translate("Form", "Significance Threshold"))
+        self.pushButtonData.setText(_translate("Form", "Data"))
+        self.pushButtonOK.setText(_translate("Form", "Confirm"))
+        self.pushButtonClose.setText(_translate("Form", "Cancel"))
+        self.labelDatabase.setText(_translate("Form", "Hit Targets Table"))
+        self.pushButtonSave.setText(_translate("Form", "Save"))
+        self.pushButtonShow.setText(_translate("Form", "Show Result"))
+        self.label_11.setText(_translate("Form", "Data viewer"))
+        self.tabWidget.setTabText(self.tabWidget.indexOf(self.vocano), _translate("Form", "Volcano"))
+        self.tabWidget.setTabText(self.tabWidget.indexOf(self.heatmap), _translate("Form", "Heatmap"))
+
+
+if __name__ == "__main__":
+    import sys
+    app = QtWidgets.QApplication(sys.argv)
+    Form = QtWidgets.QWidget()
+    ui = Ui_Form()
+    ui.setupUi(Form)
+    Form.show()
+    sys.exit(app.exec_())