# **************************************************************************
# *
# * Authors: J.M. De la Rosa Trevin (jmdelarosa@cnb.csic.es)
# *
# * Unidad de Bioinformatica of Centro Nacional de Biotecnologia , CSIC
# *
# * This program is free software; you can redistribute it and/or modify
# * it under the terms of the GNU General Public License as published by
# * the Free Software Foundation; either version 2 of the License, or
# * (at your option) any later version.
# *
# * This program is distributed in the hope that it will be useful,
# * but WITHOUT ANY WARRANTY; without even the implied warranty of
# * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# * GNU General Public License for more details.
# *
# * You should have received a copy of the GNU General Public License
# * along with this program; if not, write to the Free Software
# * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA
# * 02111-1307 USA
# *
# * All comments concerning this program package may be sent to the
# * e-mail address 'scipion@cnb.csic.es'
# *
# **************************************************************************
"""
This module implement the classes to create plots on xmipp.
"""
from pwem.viewers.plotter import EmPlotter
[docs]class FlexPlotter(EmPlotter):
''' Class to create several plots with Xmipp utilities'''
def __init__(self, x=1, y=1, mainTitle="", **kwargs):
EmPlotter.__init__(self, x, y, mainTitle, **kwargs)
[docs] def plotMdAngularDistribution(self, title, md, color='blue'):
'''Create an special type of subplot, representing the angular
distribution of weight projections. A metadata should be provided containing
labels: MDL_ANGLE_ROT, MDL_ANGLE_TILT, MDL_WEIGHT '''
from math import radians
from pwem.emlib import MDL_ANGLE_ROT, MDL_ANGLE_TILT, MDL_WEIGHT
rot = [radians(md.getValue(MDL_ANGLE_ROT, objId)) for objId in md]
tilt = [md.getValue(MDL_ANGLE_TILT, objId) for objId in md]
weight = [md.getValue(MDL_WEIGHT, objId) for objId in md]
self.plotAngularDistribution(title, rot, tilt, weight)
[docs] def plotMd(self, md, mdLabelX, mdLabelY, color='g',**args):
""" plot metadata columns mdLabelX and mdLabelY
if nbins is in args then and histogram over y data is made
"""
if mdLabelX:
xx = []
else:
xx = range(1, md.size() + 1)
yy = []
for objId in md:
if mdLabelX:
xx.append(md.getValue(mdLabelX, objId))
yy.append(md.getValue(mdLabelY, objId))
nbins = args.pop('nbins', None)
if nbins is None:
self.plotData(xx, yy, color, **args)
else:
self.plotHist(yy, nbins, color, **args)
[docs] def plotMdFile(self, mdFilename, mdLabelX, mdLabelY, color='g', **args):
""" plot metadataFile columns mdLabelX and mdLabelY
if nbins is in args then and histogram over y data is made
"""
from pwem.emlib import MetaData
md = MetaData(mdFilename)
self.plotMd(md, mdLabelX, mdLabelY, color=color,**args)