Edit centiles

.gitignore

@@ -1,6 +1,5 @@
 .*
 __pycache__
-NiChart_Viewer/tmp*
-tmp*
-test*
+tmp/
+test/
 !.gitignore

NiChart_Viewer/plugins/centileview/centileview.py

@@ -100,15 +100,15 @@ def OnCentileTypeChanged(self):
         self.selCentileFile = dict_centile[self.selCentileType]
 
         ## FIXME
-        d = '/home/guray/Github/NiChart_Projects/NiChart_Viewer/'
         fCentile = os.path.join(self.root_dir, 'shared', 'centiles', 'NiChartcentiles', 
                                 self.selCentileFile + '.csv')
 
         dio = DataIO()
         self.df_cent = dio.ReadCSVFile(fCentile)
 
 
-        self.statusbar.showMessage('Centile reference changed to: ' + self.selCentileType, 8000)
+        #self.statusbar.showMessage('Centile reference changed to: ' + self.selCentileType, 8000)
+        self.statusbar.showMessage('Centile file: ' + fCentile, 8000)
 
     def OnPlotBtnClicked(self):
 
@@ -130,6 +130,8 @@ def OnPlotBtnClicked(self):
 
         df_out = df
 
+        self.statusbar.showMessage('Centile cols : ' + ','.join(self.df_cent.ROI_Name.unique()), 8000)
+
         #DataPlotScatter(self.plotCanvas.axes, df_out, x_var, y_var)
         DataPlotWithCentiles(self.plotCanvas.axes, df_out, x_var, y_var, self.df_cent, self.selCentileType)
 

NiChart_Viewer/shared/centiles/NiChartcentiles/List_Map_Tmp.csv

@@ -0,0 +1,70 @@
+ROI1,ROI2
+"M0_amygdala_L","Amygdala_L"
+"M0_amygdala_L_PercICV","Amygdala_L_PercICV"
+"M0_amygdala_R","Amygdala_R"
+"M0_amygdala_R_PercICV","Amygdala_R_PercICV"
+"M0_caudate_L","Caudate_L"
+"M0_caudate_L_PercICV","Caudate_L_PercICV"
+"M0_caudate_R","Caudate_R"
+"M0_caudate_R_PercICV","Caudate_R_PercICV"
+"M0_corpus_callosum","CorpusCallosum"
+"M0_corpus_callosum_PercICV","CorpusCallosum_PercICV"
+"M0_hippocampus_L","Hippocampus_L"
+"M0_hippocampus_L_PercICV","Hippocampus_L_PercICV"
+"M0_hippocampus_R","Hippocampus_R"
+"M0_hippocampus_R_PercICV","Hippocampus_R_PercICV"
+"M0_Lateral_ventricle_L","LateralVentricles_L"
+"M0_Lateral_ventricle_L_PercICV","LateralVentricles_L_PercICV"
+"M0_Lateral_ventricle_R","LateralVentricles_R"
+"M0_Lateral_ventricle_R_PercICV","LateralVentricles_R_PercICV"
+"M0_putamen_L","Putamen_L"
+"M0_putamen_L_PercICV","Putamen_L_PercICV"
+"M0_putamen_R","Putamen_R"
+"M0_putamen_R_PercICV","Putamen_R_PercICV"
+"M0_thalamus_proper_L","ThalamusProper_L"
+"M0_thalamus_proper_L_PercICV","ThalamusProper_L_PercICV"
+"M0_thalamus_proper_R","ThalamusProper_R"
+"M0_thalamus_proper_R_PercICV","ThalamusProper_R_PercICV"
+"M2_deep_GM","DeepGM"
+"M2_deep_GM_PercICV","DeepGM_PercICV"
+"M2_frontal_GM","Frontal_GM"
+"M2_frontal_GM_PercICV","Frontal_GM_PercICV"
+"M2_limbic_GM","Limbic_GM"
+"M2_limbic_GM_PercICV","Limbic_GM_PercICV"
+"M2_occipital_GM","Occipital_GM"
+"M2_occipital_GM_PercICV","Occipital_GM_PercICV"
+"M2_parietal_GM","Parietal_GM"
+"M2_parietal_GM_PercICV","Parietal_GM_PercICV"
+"M2_temporal_GM","Temporal_GM"
+"M2_temporal_GM_PercICV","Temporal_GM_PercICV"
+"M3_frontal","Frontal"
+"M3_frontal_PercICV","Frontal_PercICV"
+"M3_limbic","Limbic"
+"M3_limbic_PercICV","Limbic_PercICV"
+"M3_occipital","Occipital"
+"M3_occipital_PercICV","Occipital_PercICV"
+"M3_parietal","Parietal"
+"M3_parietal_PercICV","Parietal_PercICV"
+"M3_temporal","Temporal"
+"M3_temporal_PercICV","Temporal_PercICV"
+"M4_cort_CSF","CortCSF"
+"M4_cort_CSF_PercICV","CortCSF_PercICV"
+"M4_GM","GM"
+"M4_GM_L","GM_L"
+"M4_GM_L_PercICV","GM_L_PercICV"
+"M4_GM_PercICV","GM_PercICV"
+"M4_GM_R","GM_R"
+"M4_GM_R_PercICV","GM_R_PercICV"
+"M4_ventricles","Ventricles"
+"M4_ventricles_PercICV","Ventricles_PercICV"
+"M4_WM","WM"
+"M4_WM_L","WM_L"
+"M4_WM_L_PercICV","WM_L_PercICV"
+"M4_WM_PercICV","WM_PercICV"
+"M4_WM_R","WM_R"
+"M4_WM_R_PercICV","WM_R_PercICV"
+"M5_ICV","ICV"
+"M5_total_brain","TotalBrain"
+"M5_total_brain_PercICV","TotalBrain_PercICV"
+"SPARE_AD","SPARE_AD"
+"SPARE_BA","SPARE_BA"

NiChart_Viewer/shared/centiles/NiChartcentiles/List_centiles.csv

@@ -0,0 +1,10 @@
+fname
+NiChart_ALL_AD_Centiles.csv
+NiChart_ALL_CN_Centiles.csv
+NiChart_ALL_MCI_Centiles.csv
+NiChart_F_AD_Centiles.csv
+NiChart_F_CN_Centiles.csv
+NiChart_F_MCI_Centiles.csv
+NiChart_M_AD_Centiles.csv
+NiChart_M_CN_Centiles.csv
+NiChart_M_MCI_Centiles.csv

NiChart_Viewer/shared/centiles/NiChartcentiles/util_rename.py

@@ -0,0 +1,20 @@
+import pandas as pd
+
+df1 = pd.read_csv('List_centiles.csv')
+df2 = pd.read_csv('List_Map_Tmp.csv')
+
+name_dict = dict(zip(df2['ROI1'], df2['ROI2']))
+
+
+
+for fname in df1.fname:
+    dftmp = pd.read_csv(fname)
+
+    fnamenew = fname[0:-4] + '_OLD.csv'
+    print('From : ' + fnamenew)
+
+    dftmp.to_csv(fnamenew)    
+    dftmp = dftmp.replace({"ROI_Name": name_dict})
+    dftmp.to_csv(fname)    
+
+    print('To : ' + fname)