Source code for jscatter.mpl

# -*- coding: utf-8 -*-
# written by Ralf Biehl at the Forschungszentrum Jülich ,
# Jülich Center for Neutron Science 1 and Institute of Complex Systems 1
#    Jscatter is a program to read, analyse and plot data
#    Copyright (C) 2015  Ralf Biehl
#
#    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 3 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, see <http://www.gnu.org/licenses/>.
#
"""
This is a rudimentary interface to matplotlib to use dataArrays easier.
The standard way to use matplotlib is full available without using this module..

The intention is to allow fast/easy plotting (one command to plot) with some convenience
function in relation to dataArrays and in a non blocking mode of matplotlib.
E.g. to include automatically the value of an attribute (qq in example) in the legend::

 fig[0].Plot(mydataArray, legend='sqr=$qq',sy=[2,3,-1],li=0)
 # dataList
 fig[0].Plot(mydataList , legend='sqr=$qq',sy=[2,3,-1],li=0)

With somehow shorter form to determine the marker (sy=symbol) and line (li)
and allow plotting in one line. Matplotlib is quite slow (and looks for me ugly).
For 2D plotting use xmgrace.
For 3D plotting this will give some simple plot options (planned).

* The new methods introduced all start with a big Letter to allow still the access of the original methods.
* By indexing subplots can be accessed as figure[i] which is figure.axes[i].
* Same for axes with lines figure[0][i] is figure.axes[0].lines[i].

Example 1::

    import jscatter as js
    import numpy as np
    i5=js.dL(js.examples.datapath+'/iqt_1hho.dat')
    p=js.mplot()
    p[0].Plot(i5,sy=[-1,0.4,-1],li=1,legend='Q= $q')
    p[0].Yaxis(scale='l')
    p[0].Title('intermediate scattering function')
    p[0].Legend(x=1.13,y=1) # x,y in relative units of the plot
    p[0].Yaxis(label='I(Q,t)/I(Q,0)',min=0.01)
    p[0].Xaxis(label='Q / 1/nm',max=120)

Example 2  ( same as js.mpl.test() )::

    import jscatter as js
    import numpy as np
    from matplotlib import pyplot
    # use this
    #fig=pyplot.figure(FigureClass=js.mpl.Figure)
    # or
    fig=js.mplot()
    fig.Multi(2,1)
    fig[0].SetView(0.1,0.25,0.8,0.9)
    fig[1].SetView(0.1,0.09,0.8,0.23)
    q=js.loglist(0.01,5,100)
    aa=js.dL()
    for pp in range(5):
        aa.append(js.dA(np.c_[q,-pp*np.sin(q),0.2*np.cos(5*q)].T))
        aa[-1].qq=pp
    bb=js.dA(np.c_[q,q**2].T)
    bb.qq=123
    for pp in range(5):
        fig[0].Plot(aa[pp].X,-1*aa[pp].Y,legend='some stufff',sy=[1,(pp+1)/10.],li=0)

    fig[0].Plot(aa, legend='qq = $qq', sy=[-1, 0.4, -1, ''], li=0, markeredgewidth=1)
    for pp in range(5):
        fig[1].Plot(aa[-1].X/5+pp,pp*aa[-1].Y,legend='q=%.1f' %pp,sy=0,li=-1,markeredgewidth =1)
    fig[1].Plot(bb,legend='sqr=$qq ',sy=2,li=2)
    fig[0].Title('test')
    fig[0].Legend(x=1.3,y=1)
    fig[1].Legend(x=1.3,y=1)
    fig[0].Yaxis(label='y-axis')
    fig[1].Yaxis(label='something else')
    fig[0].tick_params(labelbottom=False)
    fig[1].Xaxis(label='x-axis')

"""

import sys
if (sys.version_info > (3, 0)):
    # basestring is python <3  , above its only string for checking isinstance('',basestring)
    basestring = str

import numpy as np
from functools import reduce

import matplotlib
from matplotlib.projections import register_projection
from matplotlib import pyplot 
from matplotlib.lines import Line2D
from mpl_toolkits.mplot3d import Axes3D
import matplotlib.cm as cm
from  mpl_toolkits.axes_grid1 import inset_locator


lineStyles=('','-','--','-.',':')
linecolors=('w','k','r','b','g','c','m','y',)
linecolors=('white','black','red','darkgreen','blue','grey','orange','magenta','yellow','green')
fillstyles = ( 'none','full', 'left', 'right', 'bottom', 'top',)
symboldefault=[1,0.3,1,'']  # type,size,facecolor,edgecolor
linedefault=[1,0.5,1]    # type,size,color

#: gracefactor to get same scaling as in grace set to 10
gf=10

def _translate(axlen,kwargs,data=None,yerr=None):
    """
    This function transforms a short description as [1,2,3] for symbol and line to matplotlib compatible arguments.
    This allows a shorter description of the symbol and line formats.
    Additionally the replacement of $parname in dataArray attributes is done.
    
    
    """
    #split some special keywords in kwargs
    if 'legend' in kwargs:
        legend=kwargs['legend']
        del kwargs['legend']
    elif 'le' in kwargs:
        legend=kwargs['le']
        del kwargs['le']
    else:
        legend=None
    if 'line' in kwargs:
        line=kwargs['line']
        del kwargs['line']
    elif 'li' in kwargs:
        line=kwargs['li']
        del kwargs['li']
    else:
        line=''
    if 'symbol' in kwargs:
        symbol=kwargs['symbol']
        del kwargs['symbol']
    elif 'sy' in kwargs:
        symbol=kwargs['sy']
        del kwargs['sy']
    else:
        symbol=[-1,0.3,-1]
    if 'errorbar' in kwargs:
        errorbar=kwargs['errorbar']
        del kwargs['errorbar']
    elif 'er' in kwargs:
        errorbar=kwargs['er']
        del kwargs['er']
    else:
        errorbar=None
    #replace $attr by the value in data
    if legend is not None:
        if '$' in legend and hasattr(data,'_isdataArray'):
            for par in data.attr:
                if '$'+par in legend or '$('+par+')' in legend:
                    # noinspection PyBroadException
                    try:
                        vall=np.array(getattr(data,par)).flatten()[0]
                        if isinstance(vall,(int,float)):
                            val='%.4g'%vall
                        else:
                            val=str(vall)
                        if '$('+par+')' in legend:
                            legend=legend.replace('$('+par+')',val)
                        else:
                            legend=legend.replace('$'+par,val)
                    except:
                            pass
    #--------
    if isinstance(symbol,(int,str)):
        symbol=[symbol] # type,size,facecolor,edgecolor
    symbol=symbol+symboldefault[len(symbol):]
    # symbol marker
    if isinstance(symbol[0],(int,float)):
        if symbol[0]<0:symbol[0]=axlen
        if symbol[0]>0:
            symbol[0]=Line2D.filled_markers[divmod(symbol[0]-1,len(Line2D.filled_markers))[1]]
        else:
            symbol[0]=None
    # symbol color
    if isinstance(symbol[2],(int,float)):
        if symbol[2]<0:symbol[2]=axlen
        if symbol[2]>0:
            symbol[2]=linecolors[divmod(symbol[2]-1,len(linecolors)-1)[1]+1]
        else:
            symbol[2]=None
    # edgecolor
    if isinstance(symbol[3],(int,float)):
        if symbol[3]<0:symbol[3]=axlen
        if symbol[3]>0:
            symbol[3]=linecolors[divmod(symbol[3]-1,len(linecolors)-1)[1]+1]
        else:
            symbol[3]=linecolors[0]
    else:
        # synchronize with facecolor
        symbol[3]=symbol[2]
    # same for line
    if isinstance(line,(int,str)):
        # type,size,color
        line=linedefault[:2]+[line]
    if isinstance(line[0],(int,float)): # type
        if line[0]<0:line[0]=axlen
        if line[0]>0:
            line[0]=lineStyles[divmod(line[0]-1,len(lineStyles)-1)[1]+1]
        else:
            line[0]=None
    if isinstance(line[2],(int,float)): # color
        if line[2]<0:line[2]=axlen
        if line[2]>0:
            line[2]=linecolors[divmod(line[2]-1,len(linecolors)-1)[1]+1]
        else:
            line[0]='' # this makes no line to overwrite default '-'
            line[2]=None
        if symbol[0] is None and line[2] is not None:
            symbol[2]=line[2]
    if yerr is None or errorbar is None:
        errorbar=[None,None]
    else:
        if isinstance(errorbar,(int,float)):
            errorbar=[None,errorbar]
        if isinstance(errorbar[0], (int, float)):
            if errorbar[0]<0:errorbar[0]=axlen
            if errorbar[0]>0:
                errorbar[0]=linecolors[divmod(errorbar[0]-1,len(linecolors)-1)[1]+1]
            else:
                errorbar[0]=linecolors[0]
        else:
            errorbar[0]=None
    # fmt=fmt,markersize=ssize, markerfacecolor=mfc,linewidth=lsize,label=legend
    # capsize same as markersize
    for opt,val in zip(['color','marker','linestyle','markersize','markerfacecolor','markeredgecolor',
                        'linewidth','elinewidth','ecolor','capsize'],
                       [symbol[2],symbol[0],line[0],symbol[1]*gf,symbol[2],symbol[3],
                        line[1],errorbar[1],errorbar[0],symbol[1]*gf/3.]):
        if opt not in kwargs:
            kwargs[opt]=val
    if legend is not None:
        if r'\n' in legend:
            lines=[]
            for line in legend.replace('\\n', '\n').splitlines():
                words=line.split()
                if len(words)>4:
                    line=' '.join(words[:5])+'...'
                else:
                    line = ' '.join(words)
                lines.append(line)
            kwargs['label'] = '\n'.join(lines)
        else:
            kwargs['label'] = legend
    return kwargs


# noinspection PyIncorrectDocstring,PyIncorrectDocstring,PyIncorrectDocstring,PyIncorrectDocstring,PyIncorrectDocstring
[docs]class jspaperAxes(matplotlib.axes.Axes): """ An Axes that should look like typical paper layout. """ name='paper' def __init__(self,*args,**kwargs): super(matplotlib.axes.Axes, self).__init__(*args,**kwargs) self.tick_params(axis='both', direction='in')
[docs] def SetView(self,xmin=None,ymin=None,xmax=None,ymax=None): """ This sets the bounding box of the axes. Parameters ---------- xmin,xmax,ymin,ymax : float view range """ self.set_position([xmin, ymin, xmax-xmin, ymax-ymin]) # [left, bottom, width, height] self.figure.show()
def __getitem__(self, key): return self.lines[key] # noinspection PyIncorrectDocstring
[docs] def plot(self,*datasets,**kwargs): """ Plot dataArrays/dataList or array in matplotlib axes. Parameters are passed to matplotlib.axes.Axes.plot Parameters ---------- datasets : dataArray/dataList or 1D arrays Datasets to plot. - Can be several dataArray/dataList (with .X, .Y and .eY) or 1D arrays (a[1,:],b[2,:]), but dont mix it. - If dataArray/dataList has .eY errors a errorbars are plotted. - If format strings are found only the first is used. symbol, line override this. - Only a single line for 1D arrays is allowed. symbol,sy : int, list of float - [symbol,size,color,fillcolor,fillpattern] as [1,1,1,-1]; - single integer to chose symbol eg symbol=3; symbol=0 switches off - negative increments from last - symbol => see Line2D.filled_markers - size => size in pixel - color => int in sequence = wbgrcmyk - fillcolor=None see color - fillpattern=None 0 empty, 1 full, ....test it line,li : int, list of float or Line object - [linestyle,linewidth,color] as [1,1,'']; - negative increments - single integer to chose linestyle line=1; line=0 switches of - linestyle int '-','--','-.',':' - linewidth float increasing thickness - color see symbol color errorbar,er : int or list of float or Errorbar object - [color,size] as [1,1]; no increment, no repeat - color int see symbol color, non-integer syncs to symbol color - size float default 1.0 ; smaller is 0.5 legend,le : string - determines legend for all datasets - string replacement: attr name prepended by '$' (eg. '$par') is replaced by value str(par1.flatten()[0]) if possible. $(par) for not unique names errorbar,er : float - errorbar thickness, zero is no errorbar """ # extract format strings fmt = [dset for dset in datasets if isinstance(dset, basestring)] datasets = [dset for dset in datasets if not isinstance(dset, basestring)] # concat to dataList's if its not a format string if np.alltrue([hasattr(dset,'_isdataList') or (hasattr(dset,'_isdataArray') and np.ndim(dset)>1) for dset in datasets]): # use a single list datasets=reduce(lambda a,b:a+b,datasets) if hasattr(datasets,'_isdataArray'): # return always as dataList not only dataArray datasets=[datasets] # If 1 dim data are given elif np.alltrue([np.ndim(dset)==1 for dset in datasets ]): # We create a single dataset and use this shape0=[np.shape(dset)[0] for dset in datasets ] if shape0.count(shape0[0])==len(shape0): # all same length -> make array datasets=[np.asanyarray(datasets)] else: raise TypeError('Dont know how to plot this.') # self.lines is updated only after show so we need to count explicitly nlines=len(self.lines) showerr=True if 'comment' in kwargs: del kwargs['comment'] if 'errorbar' in kwargs: if not kwargs['errorbar']: showerr=False elif 'er' in kwargs: if not kwargs['er']: showerr=False for data in datasets: if hasattr(data,'_isdataArray'): if hasattr(data,'_iey') and showerr: yerr=data.eY else: yerr=None nkwargs=_translate(nlines+1,kwargs.copy(),data,yerr) if fmt and 'fmt' not in nkwargs: # if fmt not empty and not other setting found nkwargs['fmt']=fmt[0] self.errorbar(x=data.X,y=data.Y,yerr=yerr,**nkwargs) nlines+=1 elif hasattr(data,'_isdataList'): for da in data: if hasattr(da,'_iey') and showerr: yerr=da.eY else: yerr=None nkwargs=_translate(nlines+1,kwargs.copy(),da,yerr) if fmt and 'fmt' not in nkwargs: # if fmt not empty and not other setting found nkwargs['fmt'] = fmt[0] self.errorbar(x=da.X,y=da.Y,yerr=yerr,**nkwargs) nlines+=1 elif isinstance(data,np.ndarray): if showerr: # noinspection PyBroadException try : yerr=data[2] except: yerr=None nkwargs=_translate(nlines+1,kwargs.copy(),data,yerr) if fmt and 'fmt' not in nkwargs: # if fmt not empty and not other setting found nkwargs['fmt']=fmt[0] self.errorbar(x=data[0],y=data[1],yerr=yerr,**nkwargs) nlines+=1 self.figure.show()
Plot=plot
[docs] def Yaxis(self,min=None,max=None,label=None,scale=None,size=None,charsize=None,tick=None,ticklabel=None,**kwargs): """ Set xaxis Parameters ---------- label : string Label scale : 'log', 'normal' Scale min,max : float Set min and max size : int Pixelsize of label kwargs : kwargs of axes.set_xscale Any given kwarg overrides the previous """ if size is not None: size=size*gf if label is not None: self.set_ylabel(label,size=size) self.set_ylim(min,max) if scale is not None: if scale[0]=='l': val='log' #kwargs['nonposx']='clip' elif scale[0]=='n': val='linear' if 'subsy' not in kwargs: kwargs['subsy']=[2, 3, 4, 5, 6, 7, 8, 9] self.set_yscale(val,**kwargs) self.figure.show()
[docs] def Xaxis(self,min=None,max=None,label=None,scale=None,size=None,charsize=None,tick=None,ticklabel=None,**kwargs): """ Set xaxis Parameters ---------- label : string Label scale : 'log', 'normal' Scale min,max : float Set min and max of scale size : int Pixelsize of label kwargs : kwargs of axes.set_xscale Any given kwarg overrides the previous """ if size is not None: size=size*gf if label is not None: self.set_xlabel(label,size=size) self.set_xlim(min,max) if scale is not None: if scale[0]=='l': val='log' #kwargs['nonposx']='clip' elif scale[0]=='n': val='linear' if 'subsx' not in kwargs: kwargs['subsx']=[2, 3, 4, 5, 6, 7, 8, 9] self.set_xscale(val,**kwargs) self.figure.show()
[docs] def Resetlast(self,): pass
[docs] def Legend(self,**kwargs): """ Show/update legend. Parameters ---------- charsize, fontsize : int, default 12 Font size of labels labelspacing : int , default =12 Spacing of labels loc : int [0..10] default 1 'upper right' Location specifier - ‘best’ 0, ‘upper right’ 1, ‘upper left’ 2, ‘lower left’ 3, ‘lower right’ 4,‘center left’ 6, x,y : float [0..1] Determines **if both** given loc and sets position in axes coordinates. Sets bbox_to_anchor=(x,y) kwargs : kwargs of axes.legend Any given kwarg overrides the previous """ if 'charsize' in kwargs: kwargs['fontsize']=kwargs.pop('charsize')*10. if 'fontsize' not in kwargs:kwargs['fontsize']=10 if 'labelspacing' not in kwargs:kwargs['labelspacing']=0.2 if 'loc' not in kwargs:kwargs['loc']=0 # best x = kwargs.pop('x',None) y = kwargs.pop('y',None) if x is not None and y is not None: kwargs['loc'] = 'upper right' kwargs['bbox_to_anchor'] = (x,y) self.legend(**kwargs) self.figure.show()
[docs] def Title(self,title,size=None,**kwargs): """set Axes title""" if size is not None: kwargs.update({'size':size*gf}) self.set_title(title,**kwargs) self.figure.show()
[docs] def Subtitle(self,subtitle,size=None,**kwargs): """ Append subtitle to title """ if size is not None: kwargs.update({'size':size*gf}) #subtitle=self.get_title()+'\n'+subtitle self.set_title(subtitle,**kwargs)
[docs] def Clear(self): """ Clear content of this axes. """ self.clear() self.figure.show()
[docs] def Text(self,string,x,y,**kwargs): size=kwargs.pop('charsize',None) rot=kwargs.pop('rot',None) if size is not None: kwargs.update({'size':size*gf}) color=kwargs.pop('color',None) if isinstance(color,(float,int)): color=linecolors[divmod(color-1,len(linecolors)-1)[1]+1] if color is not None: kwargs.update({'color':color}) self.text(x=x,y=y,s=string,**kwargs)
[docs] def linlog(self,*args,**kwargs): self.semilogx(*args,**kwargs)
[docs] def loglin(self,*args,**kwargs): self.semilogy(*args,**kwargs)
[docs] def Arrow(self, x1=None, y1=None, x2=None, y2=None, linewidth=None, arrow=None): """ Plot an arrow or line. Parameters ---------- x1,y1,x2,y2 : float Start/end coordinates in box units [0..1]. linewidth : float Linewidth arrow : int or ['-','->','<-','<->'] Type of arrow. If int it selects from ['-','->','<-','<->'] Returns ------- """ if isinstance(arrow,int): arrow=['-','->','<-','<->'][arrow] self.annotate("", xy=(x1, y1), xycoords='data', xytext=(x2, y2), textcoords='data', arrowprops=dict(arrowstyle=arrow,connectionstyle="arc3",linewidth=linewidth) )
# register that it can be used as other Axes register_projection(jspaperAxes)
[docs]class jsFigure(matplotlib.figure.Figure): def __init__(self, *args, **kwargs): """ Create figure with Axes as jspaperAxes projection. Examples -------- :: import jscatter as js import numpy as np i5=js.dL(js.examples.datapath+'/iqt_1hho.dat') p=js.mplot() p[0].Plot(i5,sy=[-1,0.4,-1],li=1,legend='Q= $q') p[0].Yaxis(scale='l') p[0].Title('intermediate scattering function') p[0].Legend(x=1.13,y=1) # x,y in relative units of the plot p[0].Yaxis(label='I(Q,t)/I(Q,0)',min=0.01) p[0].Xaxis(label='Q / 1/nm',max=120) """ for opt,val in zip(['facecolor','frameon','facecolor','edgecolor'],['w',False,'w','w']): if opt not in kwargs: kwargs[opt]=val matplotlib.figure.Figure.__init__(self, *args, **kwargs) self.add_subplot(1,1,1,projection='paper') #lastsymbol=[0,0.5,0,0,0] #lastline=[0,0,0,0] #lasterror=[0,0,0,0]
[docs] def Multi(self,n,m): """ Creates multiple subplots on grid n,m. with projection "jspaperAxes". Subplots can be accesses as fig[i] """ for ax in self.axes:self.delaxes(ax) nn=0 for ni in range(n): for mi in range(m): nn+=1 self.add_subplot(n,m,nn,projection='paper') self.show()
[docs] def Addsubplot(self, bbox=(0.2,0.2,0.6,0.6),*args, **kwargs): """ Add a subplot in the foreground. Parameters ---------- bbox : rect [left, bottom, width, height] Bounding box position and size. """ bb_axes=[bb.get_position() for bb in self.axes] kwargs.update({'rect':bbox,'projection':'paper'}) self.add_axes(*args, **kwargs) for i,bb in enumerate(self.axes[:-1]): bb.set_position(bb_axes[i]) self[-1].set_zorder(self[-2].get_zorder()+1) self.show()
def __getitem__(self, key): return self.axes[key]
[docs] def Clear(self): """ Clear content of all axes to clear axes use fig.clear() """ for ax in self: ax.clear() self.show()
# noinspection PyUnusedLocal
[docs] def Save(self,filename,format=None,dpi=None,**kwargs): """ Save with filename """ self.savefig(filename,format=format,dpi=None,**kwargs)
[docs] def is_open(self): """ Is the figure window still open. """ return pyplot.fignum_exists(self.number)
[docs] def Exit(self): pass
[docs] def Close(self): """ Close the figure """ pyplot.close(self)
[docs] def plot(self,*args,**kwargs): self[0].Plot(*args, **kwargs)
Plot=plot
[docs] def Xaxis(self, *args, **kwargs): self[0].Xaxis(*args, **kwargs)
[docs] def Yaxis(self,*args,**kwargs): self[0].Yaxis(*args, **kwargs)
[docs] def Legend(self, *args, **kwargs): self[0].Legend(*args, **kwargs)
[docs] def Title(self, *args, **kwargs): self[0].Title(*args, **kwargs)
[docs] def Subtitle(self, *args, **kwargs): self[0].Subtitle(*args, **kwargs)
[docs] def Text(self, *args, **kwargs): self[0].Text(*args, **kwargs)
[docs] def Line(self, *args, **kwargs): self[0].Line(*args, **kwargs)
[docs]def mplot(width=None,height=None,**kwargs): """ Open matplotlib figure in interactive mode with mplot.jsFigure and mplot.jspaperAxes. Parameters ---------- width,height : float Size of plot in cm. kwargs : Keyword args of matplotlib.pyplot.figure . Returns ------- matplotlib figure Notes ----- - By indexing as the axes subplots can be accessed as figure[i] which is figure.axes[i]. - Same for axes with lines figure[0][i] is figure.axes[0].lines[i]. - Some methods with similar behaviour as in grace are defined (big letter commands) - matplotlib methods are still available (small letters commands) """ inch=2.54 pyplot.ion() if width is not None and height is not None: kwargs.update({'figsize':(width*inch,height*inch)}) kwargs.update({'FigureClass':jsFigure}) fig=pyplot.figure(**kwargs) return fig
[docs]def regrid(x,y,z,xdim=None): """ Make a meshgrid from XYZ data columns. Parameters ---------- x,y,z : array like Array like data should be quadratic or rectangular. xdim : None, shape of first x dimension If None the number of unique values in x is used as first dimension Returns ------- 2dim arrays for x,y,z """ if xdim is None: xdim = len(np.unique(x)) try:xx = x.reshape(xdim,-1) except:xx=None try:yy = y.reshape(xdim, -1) except:yy=None try:zz = z.reshape(xdim, -1) except:zz=None return xx,yy,zz
[docs]def surface(x,y,z,xdim=None,levels=8, colorMap='jet',lineMap=None,alpha=0.7): """ Surface plot of x,y,z, data Parameters ---------- x,y,z : array Data as array xdim : integer First dimension of x levels : integer, array Levels for contour lines as number of levels or array of specific values. colorMap : string Color map name, see showColors. lineMap : string Color name for contour lines b: blue g: green r: red c: cyan m: magenta y: yellow k: black w: white alpha : float [0,1], default 0.7 Transparency of surface Returns ------- figure """ if np.ndim(x)<2: X,Y,Z=regrid(x,y,z,xdim) cmap = pyplot.get_cmap(colorMap) try: lmap = pyplot.get_cmap(lineMap) except ValueError: lmap=lineMap fig = pyplot.figure() ax = fig.add_subplot(111, projection='3d') surf=ax.plot_surface(X, Y, Z,cmap=cmap,linewidth=1, antialiased=True,alpha=alpha) try: # noinspection PyUnusedLocal contour=ax.contour3D(X,Y,Z,levels,linewidths=1,cmap=lmap) except: # noinspection PyUnusedLocal contour = ax.contour3D(X, Y, Z, levels, linewidths=1, colors=lmap) ax.set_xlim([min(x),max(x)]) ax.set_ylim([min(y),max(y)]) ax.set_zlim([min(z),max(z)]) ax.set_xlabel('X axis') ax.set_ylabel('Y axis') ax.set_zlabel('Z axis') fig.colorbar(surf,shrink=0.8) # note that colorbar is a method of the figure, not the axes pyplot.tight_layout() pyplot.show(block=False) return fig
# noinspection PyUnusedLocal
[docs]def scatter3d(x,y=None,z=None, pointsize=3, color='k'): """ Scatter plot of x,y,z data points. Parameters ---------- x,y,z : arrays Data to plot. If x.shape is Nx3 these points are used. pointsize : float Size of points color : string Colors for points Returns ------- figure """ if np.ndim(x) == 2 and (3 in x.shape): try: x,y,z=x.T except ValueError: x, y, z = x #cmap = pyplot.get_cmap(colorMap) fig = pyplot.figure() ax = fig.add_subplot(111, projection='3d') # noinspection PyUnusedLocal sc=ax.scatter(x, y, z, s=pointsize, color=color) mi = np.min([x,y]) ma = np.max([x, y]) ax.set_xlim(mi,ma) ax.set_ylim(mi,ma) ax.set_zlim(min(z),max(z)) ax.set_xlabel('X axis') ax.set_ylabel('Y axis') ax.set_zlabel('Z axis') ax.set_aspect("equal") pyplot.tight_layout() #fig.colorbar(scatter ,shrink=0.8) # note that colorbar is a method of the figure, not the axes pyplot.show(block=False) return fig
[docs]def contourImage(x,y=None,z=None,xdim=None,levels=8,fontsize=8,colorMap='jet',lineMap=None): """ Image with contour lines of x,y,z arrays with ndim=1 or 2. Parameters ---------- x,y,z : arrays x,y,z coordinates for z display. If x is 2D this is used. xdim : int If x,y,z are one dimensional xdim is dimension of first axis of x,y,z If None the number of unique values in x is used levels : in, sequence of values Number of contour lines between min and max or sequence of specific values. colorMap : string Get a colormap instance from name. Standard mpl colormap name (see showColors). lineMap : string Label color Colormap name as in colorMap, otherwise as cs in in Axes.clabel * if None, the color of each label matches the color of the corresponding contour * if one string color, e.g., colors = ‘r’ or colors = ‘red’, all labels will be plotted in this color * if a tuple of matplotlib color args (string, float, rgb, etc), different labels will be plotted in different colors in the order specified fontsize : int Size of line labels in pixel Returns ------- figure Examples -------- - Create use log scale for maksedArray (sasImage) :: import numpy as np # sets negative values to zero js.mpl.contourImage(np.ma.log(data)) """ if np.ndim(x)<2: x,y,z=regrid(x,y,z,xdim) else: x,y,z=regrid(x.X,x.Y,x.Z,xdim) cmap = pyplot.get_cmap(colorMap) try: lmap = pyplot.get_cmap(lineMap) except ValueError: lmap=lineMap fig = pyplot.figure() ax = fig.add_subplot(1, 1, 1) borders=[np.min(x),np.max(x),np.min(y),np.max(y)] im = ax.imshow(z,cmap=cmap,extent=borders) # drawing the function # adding the Contour lines with labels try: im.cset = pyplot.contour(z,levels,linewidths=1,cmap=lmap,extent=borders) im.labels=pyplot.clabel(im.cset,inline=True,fmt='%1.1f',fontsize=10) except: im.cset = pyplot.contour(z,levels, linewidths=1,extent=borders) im.labels = pyplot.clabel(im.cset, inline=True, fmt='%1.1f', fontsize=fontsize,colors=lmap) #im.set_xlabel('X axis') #im.set_ylabel('Y axis') fig.colorbar(im) # note that colorbar is a method of the figure, not the axes pyplot.show(block=False) return fig
[docs]def showColors(): """ Get a list of the colormaps in matplotlib. Ignore the ones that end with '_r' because these are simply reversed versions of ones that don't end with '_r' Colormaps Names Accent, Accent_r, Blues, Blues_r, BrBG, BrBG_r, BuGn, BuGn_r, BuPu, BuPu_r, CMRmap, CMRmap_r, Dark2, Dark2_r, GnBu, GnBu_r, Greens, Greens_r, Greys, Greys_r, OrRd, OrRd_r, Oranges, Oranges_r, PRGn, PRGn_r, Paired, Paired_r, Pastel1, Pastel1_r, Pastel2, Pastel2_r, PiYG, PiYG_r, PuBu, PuBuGn, PuBuGn_r, PuBu_r, PuOr, PuOr_r, PuRd, PuRd_r, Purples, Purples_r, RdBu, RdBu_r, RdGy, RdGy_r, RdPu, RdPu_r, RdYlBu, RdYlBu_r, RdYlGn, RdYlGn_r, Reds, Reds_r, Set1, Set1_r, Set2, Set2_r, Set3, Set3_r, Spectral, Spectral_r, Vega10, Vega10_r, Vega20, Vega20_r, Vega20b, Vega20b_r, Vega20c, Vega20c_r, Wistia, Wistia_r, YlGn, YlGnBu, YlGnBu_r, YlGn_r, YlOrBr, YlOrBr_r, YlOrRd, YlOrRd_r, afmhot, afmhot_r, autumn, autumn_r, binary, binary_r, bone, bone_r, brg, brg_r, bwr, bwr_r, cool, cool_r, coolwarm, coolwarm_r, copper, copper_r, cubehelix, cubehelix_r, flag, flag_r, gist_earth, gist_earth_r, gist_gray, gist_gray_r, gist_heat, gist_heat_r, gist_ncar, gist_ncar_r, gist_rainbow, gist_rainbow_r, gist_stern, gist_stern_r, gist_yarg, gist_yarg_r, gnuplot, gnuplot2, gnuplot2_r, gnuplot_r, gray, gray_r, hot, hot_r, hsv, hsv_r, inferno, inferno_r, jet, jet_r, magma, magma_r, nipy_spectral, nipy_spectral_r, ocean, ocean_r, pink, pink_r, plasma, plasma_r, prism, prism_r, rainbow, rainbow_r, seismic, seismic_r, spectral, spectral_r, spring, spring_r, summer, summer_r, tab10, tab10_r, tab20, tab20_r, tab20b, tab20b_r, tab20c, tab20c_r, terrain, terrain_r, viridis, viridis_r, winter, winter_r From https://matplotlib.org/1.2.1/examples/pylab_examples/show_colormaps.html """ a = np.linspace(0, 1, 256).reshape(1,-1) a = np.vstack((a,a)) # Get a list of the colormaps in matplotlib. Ignore the ones that end with # '_r' because these are simply reversed versions of ones that don't end # with '_r' maps = sorted(m for m in pyplot.cm.datad if not m.endswith("_r")) nmaps = len(maps) + 1 # fig = pyplot.figure(figsize=(5,10)) fig.subplots_adjust(top=0.99, bottom=0.01, left=0.2, right=0.99) for i,m in enumerate(maps): ax = pyplot.subplot(nmaps, 1, i+1) pyplot.axis("off") pyplot.imshow(a, aspect='auto', cmap=pyplot.get_cmap(m), origin='lower') pos = list(ax.get_position().bounds) fig.text(pos[0] - 0.01, pos[1], m, fontsize=10, horizontalalignment='right') # pyplot.show(block=False)
[docs]def test(keepopen=True): """ A small test for mpl module making a plot. Examples -------- :: import jscatter as js import numpy as np from matplotlib import pyplot # use this #fig=pyplot.figure(FigureClass=js.mpl.Figure) # or fig=js.mplot() fig.Multi(2,1) fig[0].SetView(0.1,0.25,0.8,0.9) fig[1].SetView(0.1,0.09,0.8,0.23) q=js.loglist(0.01,5,100) aa=js.dL() for pp in range(5): aa.append(js.dA(np.c_[q,-pp*np.sin(q),0.2*np.cos(5*q)].T)) aa[-1].qq=pp bb=js.dA(np.c_[q,q**2].T) bb.qq=123 for pp in range(5): fig[0].Plot(aa[pp].X,-1*aa[pp].Y,legend='some stufff',sy=[1,(pp+1)/10.],li=0) fig[0].Plot(aa, legend='qq = $qq', sy=[-1, 0.4, -1, ''], li=0, markeredgewidth=1) for pp in range(5): fig[1].Plot(aa[-1].X/5+pp,pp*aa[-1].Y,legend='q=%.1f' %pp,sy=0,li=-1,markeredgewidth =1) fig[1].Plot(bb,legend='sqr=$qq ',sy=2,li=2) fig[0].Title('test') fig[0].Legend(x=1.3,y=1) fig[1].Legend(x=1.3,y=1) fig[0].Yaxis(label='y-axis') fig[1].Yaxis(label='something else') fig[0].tick_params(labelbottom=False) fig[1].Xaxis(label='x-axis') """ import jscatter as js import numpy as np from matplotlib import pyplot # use this #fig=pyplot.figure(FigureClass=js.mpl.Figure) # or fig=js.mplot() fig.Multi(2,1) fig[0].SetView(0.1,0.25,0.8,0.9) fig[1].SetView(0.1,0.09,0.8,0.23) q=js.loglist(0.01,5,100) aa=js.dL() for pp in range(5): aa.append(js.dA(np.c_[q,-pp*np.sin(q),0.2*np.cos(5*q)].T)) aa[-1].qq=pp bb=js.dA(np.c_[q,q**2].T) bb.qq=123 for pp in range(5): fig[0].Plot(aa[pp].X,-1*aa[pp].Y,legend='some stufff',sy=[1,(pp+1)/10.],li=0) fig[0].Plot(aa, legend='qq = $qq', sy=[-1, 0.4, -1, ''], li=0, markeredgewidth=1) for pp in range(5): fig[1].Plot(aa[-1].X/5+pp,pp*aa[-1].Y,legend='q=%.1f' %pp,sy=0,li=-1,markeredgewidth =1) fig[1].Plot(bb,legend='sqr=$qq ',sy=2,li=2) fig[0].Title('test') fig[0].Legend(x=1.3,y=1) fig[1].Legend(x=1.3,y=1) fig[0].Yaxis(label='y-axis') fig[1].Yaxis(label='something else') fig[0].tick_params(labelbottom=False) fig[1].Xaxis(label='x-axis') if keepopen: return fig else: fig.Close()