import numpy as np
import matplotlib.pyplot
from pylab import *
import setOpt
import readOpt
import fit

class plotClass():

 def __init__(self):
  self.optFile="-"

 """
 def simplePlot(self,dataFiles):
  for f in dataFiles:
   data=np.loadtxt(f)
   x=data[:,0]
   y=data[:,1]

   plot(x,y)
  savefig("plt.png")
  show()
  """

 def writeMapOpt(insertOptObj):
  fileOpt=open("plt_map.opt","w")
  fileOpt.write("xyzCol %d %d %d\n" % (insertOptObj.xyzCol[0],insertOptObj.xyzCol[1],insertOptObj.xyzCol[2]))
  fileOpt.write("dataSets %i\n" % insertOptObj.dataSets)
  fileOpt.write("xySubPlt %i %i\n" % (insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1]))
  fileOpt.close()

 #############
 #           #
 # color map #
 #           #
 #############

 def mapPlot(self,dataFiles,optMode):

  if(optMode=="defOpt"):
   insertOptObj=setOpt.setOptClass(dataFiles)

  if(optMode=="setOpt"):
   insertOptObj=setOpt.setOptClass(dataFiles)
   insertOptObj.setOptMap()

  if(optMode=="readOpt"):
   insertOptObj=readOpt.readOptClass(dataFiles)
   insertOptObj.readOptMap(self.optFile)

  #fig=figure(figsize=(18,12))
  #fig.subplots_adjust(left=0.12,bottom=0.12,right=0.94,top=0.94)

  dataNum=len(dataFiles)			# total number of input data, e.g. 6
  dataSets=insertOptObj.dataSets		# number of data sets, e.g. 2 - AA, CG
  dataSubsets=int(dataNum/dataSets)		# number of data per set, e.g. 3 - 5%, 10%, 30%

  ax=subplot(1,1,1)

  subPltNum=0
 
  n=0
  for f in dataFiles:	# Order
   n+=1
   data=np.loadtxt(f)

   x=data[:,insertOptObj.xyzCol[0]-1]
   y=data[:,insertOptObj.xyzCol[1]-1]
   z=data[:,insertOptObj.xyzCol[2]-1]

   ### subplots

   if((insertOptObj.xySubPlt[0]>1)|(insertOptObj.xySubPlt[1]>1)):
    if(dataSets>1):
     if(n%dataSets==1):
      subPltNum+=1
      ax=subplot(insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1],subPltNum) # e.g (1,4)(2,5)(3,6)
    elif(dataSets==1):
     subPltNum+=1
     ax=subplot(insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1],subPltNum) # e.g (1)(2)(3)(4)(5)(6)

   ### matrix dimension

   for i in range(1,len(y)):	# x1,y1 -> x1,y2 -> x1,y3 -> ...
    if(y[i]<y[i-1]):
     ny=i
     nx=int(len(x)/ny)
     break

   for i in range(1,len(x)):	# x1,y1 -> x2,y1 -> x3,y1 -> ...
    if(x[i]<x[i-1]):
     nx=i
     ny=int(len(y)/nx)
     break

   print("dimension:",nx,ny)

   ### matrix

   Z=np.zeros((nx,ny))

   for i in range(0,len(x)):
    ix=int(x[i]-1)
    iy=int(y[i]-1)
    Z[ix,iy]=z[i]

   Z=np.transpose(Z)	# pyplot interprets x column as y, and vice versa

   extent=(0,nx,0,ny)

   my_cmap=matplotlib.cm.get_cmap('jet_r')
   #my_cmap.set_over('w')
   #my_cmap.set_under('w')

   vmin=min(z[nonzero(z)])
   vmax=max(z[nonzero(z)])
   #print(vmin,"-",vmax)

   valmin=min(z)
   valmax=max(z)

   z[z>valmax]=valmin
   z[z==0.0]=valmax

   bbcont=arange(valmin,valmax+1.0,1.0)
   bb=arange(valmin,valmax+0.2,0.2)

   #palette=plt.matplotlib.colors.LinearSegmentedColormap('jet3',plt.cm.datad['jet'],2048)

   #plt.imshow(Z,extent=extent,cmap="hot",origin='lower',vmin=min(z),vmax=max(z),aspect='auto',interpolation='lanczos')
   ### origin='lower',aspect='auto',interpolation='lanczos' 
   map=plt.contour(Z,bbcont,extent=extent,vmin=valmin,vmax=valmax,linewidths=0.5,colors='k',alpha=0.5)
   map=plt.contourf(Z,bb,extent=extent,cmap=my_cmap,vmin=valmin,vmax=valmax)

   """
   cb=plt.colorbar(map)
   cb.set_clim(vmin=valmin,vmax=valmax)
   cb.set_ticks(arange(valmin,valmax+2.0,2.0))
   cb.ax.tick_params(labelsize=20)
   cb.set_ticklabels(arange(valmin,valmax+2.0,2.0))

   cb.set_label(r'average minimum C$\alpha$ distance [$\AA$]',fontsize=24)
   """

   #plt.ylabel(r'closest residue',fontsize=24)
   #plt.xlabel(r'residue',fontsize=24)

   xlim(0,nx)
   ylim(0,ny)

   #xticks(arange(5,40,5),fontsize=20)
   #yticks(arange(5,40,5),fontsize=20)

  if(optMode=="setOpt"):
   plotClass.writeMapOpt(insertOptObj)

  savefig("plt_map.png")
  plt.show()

################
#              #
# save options #
#              #
################

 def saveOpt(insertOptObj):
  fileOpt=open("plt.opt","w")

  fileOpt.write("xyCol %d %d\n" % (insertOptObj.xyCol[0],insertOptObj.xyCol[1]))
  fileOpt.write("xyErrCol %d %d\n" % (insertOptObj.xyErrCol[0],insertOptObj.xyErrCol[1]))

  fileOpt.write("dataSets %i\n" % insertOptObj.dataSets)
  fileOpt.write("xySubPlt %i %i\n" % (insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1]))

  fileOpt.write("labels ")
  for i in range(0,len(insertOptObj.labels)):
   if(i<len(insertOptObj.labels)-1):
    fileOpt.write("%s," % insertOptObj.labels[i])
   else:
    fileOpt.write("%s\n" % insertOptObj.labels[i])

  fileOpt.write("logSca %s\n" % insertOptObj.logSca)

  fileOpt.write("xAxis %.3f %.3f\n" % (insertOptObj.xAxis[0],insertOptObj.xAxis[1]))
  fileOpt.write("yAxis %.3f %.3f\n" % (insertOptObj.yAxis[0],insertOptObj.yAxis[1]))

  fileOpt.write("xTitle %s\n" % (insertOptObj.xTitle))
  fileOpt.write("yTitle %s\n" % (insertOptObj.yTitle))

  fileOpt.write("title %s\n" % (insertOptObj.title))

  fileOpt.write("grid %s\n" % insertOptObj.grid)

  fileOpt.write("xMargin %4.3f %4.3f\n" % (insertOptObj.xMargin[0],insertOptObj.xMargin[1]))
  fileOpt.write("yMargin %4.3f %4.3f\n" % (insertOptObj.yMargin[0],insertOptObj.yMargin[1]))

  fileOpt.write("xySize %4.3f %4.3f\n" % (insertOptObj.xySize[0],insertOptObj.xySize[1]))

  fileOpt.write("xySubSpace %4.3f %4.3f\n" % (insertOptObj.xySubSpace[0],insertOptObj.xySubSpace[1]))

  fileOpt.write("colors ")
  for i in range(0,len(insertOptObj.colors)):
   if(i<len(insertOptObj.colors)-1):
    fileOpt.write("%s," % insertOptObj.colors[i])
   else:
    fileOpt.write("%s\n" % insertOptObj.colors[i])

  fileOpt.write("widths ")
  for i in range(0,len(insertOptObj.widths)):
   if(i<len(insertOptObj.widths)-1):
    fileOpt.write("%.1f," % insertOptObj.widths[i])
   else:
    fileOpt.write("%.1f\n" % insertOptObj.widths[i])

  fileOpt.write("styles ")
  for i in range(0,len(insertOptObj.styles)):
   if(i<len(insertOptObj.styles)-1):
    fileOpt.write("%s," % insertOptObj.styles[i])
   else:
    fileOpt.write("%s\n" % insertOptObj.styles[i])

  fileOpt.write("markers ")
  for i in range(0,len(insertOptObj.markers)):
   if(i<len(insertOptObj.markers)-1):
    fileOpt.write("%s," % insertOptObj.markers[i])
   else:
    fileOpt.write("%s\n" % insertOptObj.markers[i])

  fileOpt.write("alphas ")
  for i in range(0,len(insertOptObj.alphas)):
   if(i<len(insertOptObj.alphas)-1):
    fileOpt.write("%.1f," % insertOptObj.alphas[i])
   else:
    fileOpt.write("%.1f\n" % insertOptObj.alphas[i])

  fileOpt.close()

 ################
 #              #
 # regular plot #
 #              #
 ################

 def optionsPlot(self,dataFiles,optMode,optFit):

  if(optMode=="defOpt"):
   insertOptObj=setOpt.setOptClass(dataFiles)

  if(optMode=="setOpt"):
   insertOptObj=setOpt.setOptClass(dataFiles)
   insertOptObj.setOpt()

  if(optMode=="readOpt"):
   insertOptObj=readOpt.readOptClass(dataFiles)
   insertOptObj.readOpt(self.optFile)

  fig=figure(figsize=(insertOptObj.xySize[0],insertOptObj.xySize[1]))
  fig.subplots_adjust(left=insertOptObj.xMargin[0],right=insertOptObj.xMargin[1],bottom=insertOptObj.yMargin[0],top=insertOptObj.yMargin[1], \
                      hspace=insertOptObj.xySubSpace[0],wspace=insertOptObj.xySubSpace[1])

  ### 1.  1.a) AA: 10%
  ### 2.  1.b) AA: 30%
  ### 3.  1.c) AA:  5%
  ### 4.  2.a) CG: 10%
  ### 5.  2.b) CG: 30%
  ### 6.  2.c) CG:  5%

  dataNum=len(dataFiles)			# total number of input data, e.g. 6
  dataSets=insertOptObj.dataSets		# number of data sets, e.g. 2 - AA, CG
  dataSubsets=int(dataNum/dataSets)		# number of data per set, e.g. 3 - 5%, 10%, 30%

  ### order

  dataFilesOrder=dataFiles
  labelsOrder=insertOptObj.labels 

  if(dataSets>1):
   dataFilesOrder=[]
   labelsOrder=[]
   for i in range(1,dataSubsets+1):
    for j in range(0,dataSets):
     dataFilesOrder.append(dataFiles[(i+j*dataSubsets)-1]) # e.g. 1,4,2,5,3,6
     labelsOrder.append(insertOptObj.labels[(i+j*dataSubsets)-1])

  subPltNum=0

  colorNum=0
  widthNum=0
  styleNum=0

  ax=subplot(1,1,1)

  n=0
  for f in dataFilesOrder:
   n+=1
   data=np.loadtxt(f)

   ### subplots

   if((insertOptObj.xySubPlt[0]>1)|(insertOptObj.xySubPlt[1]>1)):
    if(dataSets>1):
     if(n%dataSets==1):
      subPltNum+=1
      ax=subplot(insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1],subPltNum) # e.g (1,4)(2,5)(3,6)
    elif(dataSets==1):
     subPltNum+=1
     ax=subplot(insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1],subPltNum) # e.g (1)(2)(3)(4)(5)(6)

   colorNum=int((n-1)%dataSets)		# e.g. (red,blue)(red,blue)(red,blue)

   ### styles (only when no subplots)

   styleNum=0

   if((insertOptObj.xySubPlt[0]==1)&(insertOptObj.xySubPlt[1]==1)):
    if(dataSets!=1):
     styleNum=int((n-1)%dataSets)
     colorNum=int((n-1)/dataSets)
    if(dataSets==1):
     colorNum=int(n-1)
     styleNum=0

   #if(insertOptObj.colors!=""):
   colorNum=n-1
   widthNum=n-1
   styleNum=n-1
   markerNum=n-1
   alphaNum=n-1
    

   print(n,f,"label:",labelsOrder[n-1],"color:",insertOptObj.colors[colorNum],"style:",insertOptObj.styles[styleNum],"marker:",insertOptObj.markers[markerNum],\
         insertOptObj.alphas[alphaNum],insertOptObj.widths[widthNum])

   ### data   

   x=data[:,insertOptObj.xyCol[0]-1]
   y=data[:,insertOptObj.xyCol[1]-1]

   ### fit

   if(optFit==True):
    fitObj=fit.fitClass(x,y)
    yfit=fitObj.fit()

### plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot
  
   plot(x,y,\
        color=insertOptObj.colors[colorNum],\
        linewidth=float(insertOptObj.widths[widthNum]),\
        linestyle=insertOptObj.styles[styleNum],\
        label=labelsOrder[n-1],\
        marker=insertOptObj.markers[markerNum],\
        alpha=float(insertOptObj.alphas[alphaNum]))

   if(optFit==True):
    plot(x,yfit,\
         color=colors[colorNum],\
         linewidth=widths[widthNum],\
         linestyle=styles[styleNum],\
         alpha=0.5)

   if(insertOptObj.xyErrCol[0]!=0):
    xerr=data[:,insertOptObj.xyErrCol[0]-1]
    errorbar(x,y,xerr=xerr,linestyle="",capsize=1.0)
   if(insertOptObj.xyErrCol[1]!=0):
    yerr=data[:,insertOptObj.xyErrCol[1]-1]
    errorbar(x,y,yerr=yerr,linestyle="",capsize=2.0)

   if((insertOptObj.logSca=="x")|(insertOptObj.logSca=="xy")):
    ax.set_xscale("log")
   if((insertOptObj.logSca=="y")|(insertOptObj.logSca=="xy")):
    ax.set_yscale("log")

   if(labelsOrder[0]!="-"):
    legend(loc=1,fontsize=8,fancybox=True).get_frame().set_alpha(0.5)

  if(insertOptObj.xAxis[0]<insertOptObj.xAxis[1]):
   xlim(insertOptObj.xAxis[0],insertOptObj.xAxis[1])
  if(insertOptObj.yAxis[0]<insertOptObj.yAxis[1]):
   ylim(insertOptObj.yAxis[0],insertOptObj.yAxis[1])

  if(insertOptObj.xTitle!="-"):
   xlabel(insertOptObj.xTitle)
  if(insertOptObj.yTitle!="-"):
   ylabel(insertOptObj.yTitle)

  if(insertOptObj.title!="-"):
   title(insertOptObj.title)

  if(insertOptObj.grid=="yes"):
   grid()

### plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot

  if(optMode=="setOpt"):
   plotClass.saveOpt(insertOptObj)

  savefig("plt.png")
  show()

import numpy as np
import matplotlib.pyplot
from pylab import *
import setOpt
import readOpt
import fit

class plotClass():

 def __init__(self):
  self.optFile="-"

 """
 def simplePlot(self,dataFiles):
  for f in dataFiles:
   data=np.loadtxt(f)
   x=data[:,0]
   y=data[:,1]

   plot(x,y)
  savefig("plt.png")
  show()
  """

 def writeMapOpt(insertOptObj):
  fileOpt=open("plt_map.opt","w")
  fileOpt.write("xyzCol %d %d %d\n" % (insertOptObj.xyzCol[0],insertOptObj.xyzCol[1],insertOptObj.xyzCol[2]))
  fileOpt.write("dataSets %i\n" % insertOptObj.dataSets)
  fileOpt.write("xySubPlt %i %i\n" % (insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1]))
  fileOpt.close()

 #############
 #           #
 # color map #
 #           #
 #############

 def mapPlot(self,dataFiles,optMode):

  if(optMode=="defOpt"):
   insertOptObj=setOpt.setOptClass(dataFiles)

  if(optMode=="setOpt"):
   insertOptObj=setOpt.setOptClass(dataFiles)
   insertOptObj.setOptMap()

  if(optMode=="readOpt"):
   insertOptObj=readOpt.readOptClass(dataFiles)
   insertOptObj.readOptMap(self.optFile)

  #fig=figure(figsize=(18,12))
  #fig.subplots_adjust(left=0.12,bottom=0.12,right=0.94,top=0.94)

  dataNum=len(dataFiles)			# total number of input data, e.g. 6
  dataSets=insertOptObj.dataSets		# number of data sets, e.g. 2 - AA, CG
  dataSubsets=int(dataNum/dataSets)		# number of data per set, e.g. 3 - 5%, 10%, 30%

  ax=subplot(1,1,1)

  subPltNum=0
 
  n=0
  for f in dataFiles:	# Order
   n+=1
   data=np.loadtxt(f)

   x=data[:,insertOptObj.xyzCol[0]-1]
   y=data[:,insertOptObj.xyzCol[1]-1]
   z=data[:,insertOptObj.xyzCol[2]-1]

   ### subplots

   if((insertOptObj.xySubPlt[0]>1)|(insertOptObj.xySubPlt[1]>1)):
    if(dataSets>1):
     if(n%dataSets==1):
      subPltNum+=1
      ax=subplot(insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1],subPltNum) # e.g (1,4)(2,5)(3,6)
    elif(dataSets==1):
     subPltNum+=1
     ax=subplot(insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1],subPltNum) # e.g (1)(2)(3)(4)(5)(6)

   ### matrix dimension

   for i in range(1,len(y)):	# x1,y1 -> x1,y2 -> x1,y3 -> ...
    if(y[i]<y[i-1]):
     ny=i
     nx=int(len(x)/ny)
     break

   for i in range(1,len(x)):	# x1,y1 -> x2,y1 -> x3,y1 -> ...
    if(x[i]<x[i-1]):
     nx=i
     ny=int(len(y)/nx)
     break

   print("dimension:",nx,ny)

   ### matrix

   Z=np.zeros((nx,ny))

   for i in range(0,len(x)):
    ix=int(x[i]-1)
    iy=int(y[i]-1)
    Z[ix,iy]=z[i]

   Z=np.transpose(Z)	# pyplot interprets x column as y, and vice versa

   extent=(0,nx,0,ny)

   my_cmap=matplotlib.cm.get_cmap('jet_r')
   #my_cmap.set_over('w')
   #my_cmap.set_under('w')

   vmin=min(z[nonzero(z)])
   vmax=max(z[nonzero(z)])
   #print(vmin,"-",vmax)

   valmin=min(z)
   valmax=max(z)

   z[z>valmax]=valmin
   z[z==0.0]=valmax

   bbcont=arange(valmin,valmax+1.0,1.0)
   bb=arange(valmin,valmax+0.2,0.2)

   #palette=plt.matplotlib.colors.LinearSegmentedColormap('jet3',plt.cm.datad['jet'],2048)

   #plt.imshow(Z,extent=extent,cmap="hot",origin='lower',vmin=min(z),vmax=max(z),aspect='auto',interpolation='lanczos')
   ### origin='lower',aspect='auto',interpolation='lanczos' 
   map=plt.contour(Z,bbcont,extent=extent,vmin=valmin,vmax=valmax,linewidths=0.5,colors='k',alpha=0.5)
   map=plt.contourf(Z,bb,extent=extent,cmap=my_cmap,vmin=valmin,vmax=valmax)

   """
   cb=plt.colorbar(map)
   cb.set_clim(vmin=valmin,vmax=valmax)
   cb.set_ticks(arange(valmin,valmax+2.0,2.0))
   cb.ax.tick_params(labelsize=20)
   cb.set_ticklabels(arange(valmin,valmax+2.0,2.0))

   cb.set_label(r'average minimum C$\alpha$ distance [$\AA$]',fontsize=24)
   """

   #plt.ylabel(r'closest residue',fontsize=24)
   #plt.xlabel(r'residue',fontsize=24)

   xlim(0,nx)
   ylim(0,ny)

   #xticks(arange(5,40,5),fontsize=20)
   #yticks(arange(5,40,5),fontsize=20)

  if(optMode=="setOpt"):
   plotClass.writeMapOpt(insertOptObj)

  savefig("plt_map.png")
  plt.show()

################
#              #
# save options #
#              #
################

 def saveOpt(insertOptObj):
  fileOpt=open("plt.opt","w")

  fileOpt.write("xyCol %d %d\n" % (insertOptObj.xyCol[0],insertOptObj.xyCol[1]))
  fileOpt.write("xyErrCol %d %d\n" % (insertOptObj.xyErrCol[0],insertOptObj.xyErrCol[1]))

  fileOpt.write("dataSets %i\n" % insertOptObj.dataSets)
  fileOpt.write("xySubPlt %i %i\n" % (insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1]))

  fileOpt.write("labels ")
  for i in range(0,len(insertOptObj.labels)):
   if(i<len(insertOptObj.labels)-1):
    fileOpt.write("%s," % insertOptObj.labels[i])
   else:
    fileOpt.write("%s\n" % insertOptObj.labels[i])

  fileOpt.write("logSca %s\n" % insertOptObj.logSca)

  fileOpt.write("xAxis %.3f %.3f\n" % (insertOptObj.xAxis[0],insertOptObj.xAxis[1]))
  fileOpt.write("yAxis %.3f %.3f\n" % (insertOptObj.yAxis[0],insertOptObj.yAxis[1]))

  fileOpt.write("xTitle %s\n" % (insertOptObj.xTitle))
  fileOpt.write("yTitle %s\n" % (insertOptObj.yTitle))

  fileOpt.write("title %s\n" % (insertOptObj.title))

  fileOpt.write("grid %s\n" % insertOptObj.grid)

  fileOpt.write("xMargin %4.3f %4.3f\n" % (insertOptObj.xMargin[0],insertOptObj.xMargin[1]))
  fileOpt.write("yMargin %4.3f %4.3f\n" % (insertOptObj.yMargin[0],insertOptObj.yMargin[1]))

  fileOpt.write("xySize %4.3f %4.3f\n" % (insertOptObj.xySize[0],insertOptObj.xySize[1]))

  fileOpt.write("xySubSpace %4.3f %4.3f\n" % (insertOptObj.xySubSpace[0],insertOptObj.xySubSpace[1]))

  fileOpt.write("colors ")
  for i in range(0,len(insertOptObj.colors)):
   if(i<len(insertOptObj.colors)-1):
    fileOpt.write("%s," % insertOptObj.colors[i])
   else:
    fileOpt.write("%s\n" % insertOptObj.colors[i])

  fileOpt.write("widths ")
  for i in range(0,len(insertOptObj.widths)):
   if(i<len(insertOptObj.widths)-1):
    fileOpt.write("%.1f," % insertOptObj.widths[i])
   else:
    fileOpt.write("%.1f\n" % insertOptObj.widths[i])

  fileOpt.write("styles ")
  for i in range(0,len(insertOptObj.styles)):
   if(i<len(insertOptObj.styles)-1):
    fileOpt.write("%s," % insertOptObj.styles[i])
   else:
    fileOpt.write("%s\n" % insertOptObj.styles[i])

  fileOpt.write("markers ")
  for i in range(0,len(insertOptObj.markers)):
   if(i<len(insertOptObj.markers)-1):
    fileOpt.write("%s," % insertOptObj.markers[i])
   else:
    fileOpt.write("%s\n" % insertOptObj.markers[i])

  fileOpt.write("alphas ")
  for i in range(0,len(insertOptObj.alphas)):
   if(i<len(insertOptObj.alphas)-1):
    fileOpt.write("%.1f," % insertOptObj.alphas[i])
   else:
    fileOpt.write("%.1f\n" % insertOptObj.alphas[i])

  fileOpt.close()

 ################
 #              #
 # regular plot #
 #              #
 ################

 def optionsPlot(self,dataFiles,optMode,optFit):

  if(optMode=="defOpt"):
   insertOptObj=setOpt.setOptClass(dataFiles)

  if(optMode=="setOpt"):
   insertOptObj=setOpt.setOptClass(dataFiles)
   insertOptObj.setOpt()

  if(optMode=="readOpt"):
   insertOptObj=readOpt.readOptClass(dataFiles)
   insertOptObj.readOpt(self.optFile)

  fig=figure(figsize=(insertOptObj.xySize[0],insertOptObj.xySize[1]))
  fig.subplots_adjust(left=insertOptObj.xMargin[0],right=insertOptObj.xMargin[1],bottom=insertOptObj.yMargin[0],top=insertOptObj.yMargin[1], \
                      hspace=insertOptObj.xySubSpace[0],wspace=insertOptObj.xySubSpace[1])

  ### 1.  1.a) AA: 10%
  ### 2.  1.b) AA: 30%
  ### 3.  1.c) AA:  5%
  ### 4.  2.a) CG: 10%
  ### 5.  2.b) CG: 30%
  ### 6.  2.c) CG:  5%

  dataNum=len(dataFiles)			# total number of input data, e.g. 6
  dataSets=insertOptObj.dataSets		# number of data sets, e.g. 2 - AA, CG
  dataSubsets=int(dataNum/dataSets)		# number of data per set, e.g. 3 - 5%, 10%, 30%

  ### order

  dataFilesOrder=dataFiles
  labelsOrder=insertOptObj.labels 

  if(dataSets>1):
   dataFilesOrder=[]
   labelsOrder=[]
   for i in range(1,dataSubsets+1):
    for j in range(0,dataSets):
     dataFilesOrder.append(dataFiles[(i+j*dataSubsets)-1]) # e.g. 1,4,2,5,3,6
     labelsOrder.append(insertOptObj.labels[(i+j*dataSubsets)-1])

  subPltNum=0

  colorNum=0
  widthNum=0
  styleNum=0

  ax=subplot(1,1,1)

  n=0
  for f in dataFilesOrder:
   n+=1
   data=np.loadtxt(f)

   ### subplots

   if((insertOptObj.xySubPlt[0]>1)|(insertOptObj.xySubPlt[1]>1)):
    if(dataSets>1):
     if(n%dataSets==1):
      subPltNum+=1
      ax=subplot(insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1],subPltNum) # e.g (1,4)(2,5)(3,6)
    elif(dataSets==1):
     subPltNum+=1
     ax=subplot(insertOptObj.xySubPlt[0],insertOptObj.xySubPlt[1],subPltNum) # e.g (1)(2)(3)(4)(5)(6)

   colorNum=int((n-1)%dataSets)		# e.g. (red,blue)(red,blue)(red,blue)

   ### styles (only when no subplots)

   styleNum=0

   if((insertOptObj.xySubPlt[0]==1)&(insertOptObj.xySubPlt[1]==1)):
    if(dataSets!=1):
     styleNum=int((n-1)%dataSets)
     colorNum=int((n-1)/dataSets)
    if(dataSets==1):
     colorNum=int(n-1)
     styleNum=0

   #if(insertOptObj.colors!=""):
   colorNum=n-1
   widthNum=n-1
   styleNum=n-1
   markerNum=n-1
   alphaNum=n-1
    

   print(n,f,"label:",labelsOrder[n-1],"color:",insertOptObj.colors[colorNum],"style:",insertOptObj.styles[styleNum],"marker:",insertOptObj.markers[markerNum],\
         insertOptObj.alphas[alphaNum],insertOptObj.widths[widthNum])

   ### data   

   x=data[:,insertOptObj.xyCol[0]-1]
   y=data[:,insertOptObj.xyCol[1]-1]

   ### fit

   if(optFit==True):
    fitObj=fit.fitClass(x,y)
    yfit=fitObj.fit()

### plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot
  
   plot(x,y,\
        color=insertOptObj.colors[colorNum],\
        linewidth=float(insertOptObj.widths[widthNum]),\
        linestyle=insertOptObj.styles[styleNum],\
        label=labelsOrder[n-1],\
        marker=insertOptObj.markers[markerNum],\
        alpha=float(insertOptObj.alphas[alphaNum]))

   if(optFit==True):
    plot(x,yfit,\
         color=colors[colorNum],\
         linewidth=widths[widthNum],\
         linestyle=styles[styleNum],\
         alpha=0.5)

   if(insertOptObj.xyErrCol[0]!=0):
    xerr=data[:,insertOptObj.xyErrCol[0]-1]
    errorbar(x,y,xerr=xerr,linestyle="",capsize=1.0)
   if(insertOptObj.xyErrCol[1]!=0):
    yerr=data[:,insertOptObj.xyErrCol[1]-1]
    errorbar(x,y,yerr=yerr,linestyle="",capsize=2.0)

   if((insertOptObj.logSca=="x")|(insertOptObj.logSca=="xy")):
    ax.set_xscale("log")
   if((insertOptObj.logSca=="y")|(insertOptObj.logSca=="xy")):
    ax.set_yscale("log")

   if(labelsOrder[0]!="-"):
    legend(loc=1,fontsize=8,fancybox=True).get_frame().set_alpha(0.5)

  if(insertOptObj.xAxis[0]<insertOptObj.xAxis[1]):
   xlim(insertOptObj.xAxis[0],insertOptObj.xAxis[1])
  if(insertOptObj.yAxis[0]<insertOptObj.yAxis[1]):
   ylim(insertOptObj.yAxis[0],insertOptObj.yAxis[1])

  if(insertOptObj.xTitle!="-"):
   xlabel(insertOptObj.xTitle)
  if(insertOptObj.yTitle!="-"):
   ylabel(insertOptObj.yTitle)

  if(insertOptObj.title!="-"):
   title(insertOptObj.title)

  if(insertOptObj.grid=="yes"):
   grid()

### plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot

  if(optMode=="setOpt"):
   plotClass.saveOpt(insertOptObj)

  savefig("plt.png")
  show()

def simplePlot(self,dataFiles):   for f in dataFiles:    data=np.loadtxt(f)    x=data[:,0]    y=data[:,1]     plot(x,y)   savefig("plt.png")   show() ############# #           # # color map # #           # ############# #fig=figure(figsize=(18,12)) #fig.subplots_adjust(left=0.12,bottom=0.12,right=0.94,top=0.94) # total number of input data, e.g. 6 # number of data sets, e.g. 2 - AA, CG # number of data per set, e.g. 3 - 5%, 10%, 30% # Order ### subplots # e.g (1,4)(2,5)(3,6) # e.g (1)(2)(3)(4)(5)(6) ### matrix dimension # x1,y1 -> x1,y2 -> x1,y3 -> ... # x1,y1 -> x2,y1 -> x3,y1 -> ... ### matrix # pyplot interprets x column as y, and vice versa #my_cmap.set_over('w') #my_cmap.set_under('w') #print(vmin,"-",vmax) #palette=plt.matplotlib.colors.LinearSegmentedColormap('jet3',plt.cm.datad['jet'],2048) #plt.imshow(Z,extent=extent,cmap="hot",origin='lower',vmin=min(z),vmax=max(z),aspect='auto',interpolation='lanczos') ### origin='lower',aspect='auto',interpolation='lanczos' cb=plt.colorbar(map)    cb.set_clim(vmin=valmin,vmax=valmax)    cb.set_ticks(arange(valmin,valmax+2.0,2.0))    cb.ax.tick_params(labelsize=20)    cb.set_ticklabels(arange(valmin,valmax+2.0,2.0))     cb.set_label(r'average minimum C$\alpha$ distance [$\AA$]',fontsize=24) #plt.ylabel(r'closest residue',fontsize=24) #plt.xlabel(r'residue',fontsize=24) #xticks(arange(5,40,5),fontsize=20) #yticks(arange(5,40,5),fontsize=20) ################ #              # # save options # #              # ################ ################ #              # # regular plot # #              # ################ ### 1.  1.a) AA: 10% ### 2.  1.b) AA: 30% ### 3.  1.c) AA:  5% ### 4.  2.a) CG: 10% ### 5.  2.b) CG: 30% ### 6.  2.c) CG:  5% # total number of input data, e.g. 6 # number of data sets, e.g. 2 - AA, CG # number of data per set, e.g. 3 - 5%, 10%, 30% ### order # e.g. 1,4,2,5,3,6 ### subplots # e.g (1,4)(2,5)(3,6) # e.g (1)(2)(3)(4)(5)(6) # e.g. (red,blue)(red,blue)(red,blue) ### styles (only when no subplots) #if(insertOptObj.colors!=""): ### data ### fit ### plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot ### plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot plot