lyr = QgsRasterLayer(os.getcwd() + '/data/rasters/dof/dof.vrt', 'Ortophoto')
QgsMapLayerRegistry.instance().addMapLayer(lyr, False)
ml = QgsMapCanvasLayer(lyr)
ml.setVisible(False)

lyr2 = QgsRasterLayer(os.getcwd() + '/data/rasters/chm/chm.vrt', 'Chm')
QgsMapLayerRegistry.instance().addMapLayer(lyr2, False)
ml2 = QgsMapCanvasLayer(lyr2)
ml2.setVisible(True)

ml.setVisible(True)
ml2.setVisible(False)

canvas.setLayerSet([ml2, ml])

ml.setVisible(True)
 ml2.setVisible(False)

 qgis.utils.iface.mapCanvas().refresh()

qgis.utils.iface.legendInterface().setLayerVisible(m1, False)
 qgis.utils.iface.legendInterface().setLayerVisible(m12, True)

QgsProject.instance().layerTreeRoot().findLayer(layer.id()).setItemVisibilityChecked(False)

node = QgsProject.instance().layerTreeRoot().findLayer(layer.id())
if node:
  node.setItemVisibilityChecked(False)