Esempio n. 1
0
    def _doViewRawDeformation(self, components):
#        components = map(int, self.displayRawDeformation.get().split())
        components = map(int, components.split())
        dim = len(components)
        views = []
        
        if dim > 0:
            modeList = [m - 1 for m in components]
            modeNameList = ['Mode %d' % m for m in components]
            missingList = []
                    
            if missingList:
                return [self.errorMessage("Invalid mode(s) *%s*\n." % (', '.join(missingList)), 
                              title="Invalid input")]
            
            # Actually plot
            plotter = XmippNmaPlotter(data=self.getData())
            baseList = [basename(n) for n in modeNameList]
            
            if dim == 1:
                self.getData().XIND = modeList[0]
                plotter.plotArray1D("Histogram for %s" % baseList[0], 
                                    "Deformation value", "Number of images")
            else:
                self.getData().YIND = modeList[1]
                if dim == 2:
                    plotter.plotArray2D("%s vs %s" % tuple(baseList), *baseList)
                elif dim == 3:
                    self.getData().ZIND = modeList[2]
                    plotter.plotArray3D("%s %s %s" % tuple(baseList), *baseList)
            views.append(plotter)
            
        return views
Esempio n. 2
0
    def _doViewRawDeformation(self, components):
        #        components = map(int, self.displayRawDeformation.get().split())
        components = map(int, components.split())
        dim = len(components)
        views = []

        if dim > 0:
            modeList = []
            modeNameList = []
            missingList = []

            for modeNumber in components:
                found = False
                md = xmipp.MetaData(self.protocol._getExtraPath('modes.xmd'))
                for i, objId in enumerate(md):
                    modeId = md.getValue(xmipp.MDL_ORDER, objId)
                    if modeNumber == modeId:
                        modeNameList.append('Mode %d' % modeNumber)
                        modeList.append(i)
                        found = True
                        break
                if not found:
                    missingList.append(str(modeNumber))

            if missingList:
                return [
                    self.errorMessage("Invalid mode(s) *%s*\n." %
                                      (', '.join(missingList)),
                                      title="Invalid input")
                ]

            # Actually plot
            plotter = XmippNmaPlotter(data=self.getData())
            baseList = [basename(n) for n in modeNameList]

            if dim == 1:
                self.getData().XIND = modeList[0]
                plotter.plotArray1D("Histogram for %s" % baseList[0],
                                    "Deformation value", "Number of images")
            else:
                self.getData().YIND = modeList[1]
                if dim == 2:
                    plotter.plotArray2D("%s vs %s" % tuple(baseList),
                                        *baseList)
                elif dim == 3:
                    self.getData().ZIND = modeList[2]
                    plotter.plotArray3D("%s %s %s" % tuple(baseList),
                                        *baseList)
            views.append(plotter)

        return views
Esempio n. 3
0
    def _doViewRawDeformation(self, components):
#        components = map(int, self.displayRawDeformation.get().split())
        components = map(int, components.split())
        dim = len(components)
        views = []
        
        if dim > 0:
            modeList = []
            modeNameList = []
            missingList = []
            
            for modeNumber in components:
                found = False
                md = xmipp.MetaData(self.protocol._getExtraPath('modes.xmd'))
                for i, objId in enumerate(md):
                    modeId = md.getValue(xmipp.MDL_ORDER, objId)
                    if modeNumber == modeId:
                        modeNameList.append('Mode %d' % modeNumber)
                        modeList.append(i)
                        found = True
                        break
                if not found:
                    missingList.append(str(modeNumber))
                    
            if missingList:
                return [self.errorMessage("Invalid mode(s) *%s*\n." % (', '.join(missingList)), 
                              title="Invalid input")]
            
            # Actually plot
            plotter = XmippNmaPlotter(data=self.getData())
            baseList = [basename(n) for n in modeNameList]
            
            if dim == 1:
                self.getData().XIND = modeList[0]
                plotter.plotArray1D("Histogram for %s" % baseList[0], 
                                    "Deformation value", "Number of images")
            else:
                self.getData().YIND = modeList[1]
                if dim == 2:
                    plotter.plotArray2D("%s vs %s" % tuple(baseList), *baseList)
                elif dim == 3:
                    self.getData().ZIND = modeList[2]
                    plotter.plotArray3D("%s %s %s" % tuple(baseList), *baseList)
            views.append(plotter)
            
        return views
Esempio n. 4
0
    def _doViewRawDeformation(self, components):
        #        components = map(int, self.displayRawDeformation.get().split())
        components = map(int, components.split())
        dim = len(components)
        views = []

        if dim > 0:
            modeList = [m - 1 for m in components]
            modeNameList = ['Mode %d' % m for m in components]
            missingList = []

            if missingList:
                return [
                    self.errorMessage("Invalid mode(s) *%s*\n." %
                                      (', '.join(missingList)),
                                      title="Invalid input")
                ]

            # Actually plot
            plotter = XmippNmaPlotter(data=self.getData())
            baseList = [basename(n) for n in modeNameList]

            if dim == 1:
                self.getData().XIND = modeList[0]
                plotter.plotArray1D("Histogram for %s" % baseList[0],
                                    "Deformation value", "Number of images")
            else:
                self.getData().YIND = modeList[1]
                if dim == 2:
                    plotter.plotArray2D("%s vs %s" % tuple(baseList),
                                        *baseList)
                elif dim == 3:
                    self.getData().ZIND = modeList[2]
                    plotter.plotArray3D("%s %s %s" % tuple(baseList),
                                        *baseList)
            views.append(plotter)

        return views