def collate_plots(tablelist, plotName1, plotName2):
'''Creates an HTML page with the plots and labels'''
import sys, os, subprocess
import numpy as num
sys.path.append(
'/fslhome/bch/pythonscripts/pythonscripts_gr/half_graphane_scripts/analysis_scripts'
)
from analysisTools import getElement
if not os.path.exists('plots'):
subprocess.call(['mkdir', 'plots'])
nRow = 7 # put in periodic table order, with duplicates at end
plotType = plotName1.split('.')[-2]
print plotType
collatefile = open('%splots.htm' % plotType, 'w')
collatefile.write(' <html>\n <HEAD>\n<TITLE> %s </TITLE>\n</HEAD>\n' %
plotType)
collatefile.write(
' <BODY>\n <p style="font-size:20px"> <table border="1">\n <tr>\n'
) #start row
iImage = 0
for path in tablelist:
element = getElement('adatom_', path)
elementPlotName = element + plotName2
try:
subprocess.call(
['cp',
'%s%s' % (path, plotName1), 'plots/' + elementPlotName])
except:
print 'copy plot failed', path
if not element in ['Cr_pv', 'Mn_pv'
]: # don't want these in first table
iImage += 1
collatefile.write(
'<td><p><img src="plots/%s" ></p><p>%s</p></td>\n' %
(elementPlotName, element)) #Image and element under it
if num.mod(iImage, nRow) == 0:
collatefile.write('</tr>\n<tr>\n') #end of row, begin new
collatefile.write(' </tr></table> \n') #end of row and table
for path in tablelist:
#get element name
element = getElement('adatom_', path)
elementPlotName = element + plotName2
if element in ['Cr_pv', 'Mn_pv']: # put these last
collatefile.write(
'<td><p><img src="plots/%s" ></p><p>%s</p></td>\n' %
(elementPlotName, element)) #Image and element under it
collatefile.write(' </BODY> </html>') #end of file
collatefile.close()
def collate_plots(checkedList,plotName):
import sys, os, subprocess
import numpy as num
sys.path.append('/fslhome/bch/pythonscripts/pythonscripts_gr/half_graphane_scripts/analysis_scripts')
from analysisTools import getElement
'''Creates an HTML page with the plots and labels'''
if not os.path.exists('plots'):
subprocess.call(['mkdir','plots'])
nRow = 7 # put in periodic table order, with duplicates at end
plotType = plotName.split('.')[-2]
print plotType
collatefile = open('%splots.htm' % plotType,'w')
collatefile.write(' <html>\n <HEAD>\n<TITLE> %s </TITLE>\n</HEAD>\n' % plotType)
collatefile.write(' <BODY>\n <p style="font-size:20px"> <table border="1">\n <tr>\n') #start row
iImage = 0
for path in checkedList:
element = getElement('adatom_',path)
elementPlotName = element + plotName
try:
subprocess.call(['cp','%s%s' % (path,plotName),'plots/'+elementPlotName])
except:
print 'copy plot failed', path
if not element in ['Cr_pv', 'Mn_pv']: # don't want these in first table
iImage += 1
collatefile.write('<td><p><img src="plots/%s" ></p><p>%s</p></td>\n' % (elementPlotName,element))#Image and element under it
if num.mod(iImage,nRow) == 0:
collatefile.write('</tr>\n<tr>\n') #end of row, begin new
collatefile.write(' </tr></table> \n') #end of row and table
for path in checkedList:
#get element name
element = getElement('adatom_',path)
elementPlotName = element + plotName
if element in ['Cr_pv', 'Mn_pv']: # put these last
collatefile.write('<td><p><img src="plots/%s" ></p><p>%s</p></td>\n' % (elementPlotName,element))#Image and element under it
collatefile.write(' </BODY> </html>') #end of file
collatefile.close()
print("Checking to see which folders contain "+run+"\n")
time.sleep(1)
os.chdir(dir)
print("Searching all Directories in " + dir+"\n")
tools.CheckFoldersDOS()
checkedList=sorted(checkedList)
toRunList=sorted(toRunList)
#Copy contcars to poscars
from analysisTools import getElement
#pathparts2 = contcardir.split('/')
#nparts2 = len(pathparts2)
#print nparts2
for path1 in checkedList:
path2 = contcardir.replace('Co',getElement('adatom_',path1))
print("cp CONTCAR" + path2)
print('to POSCAR'+ path1)
os.system('cp ' + path2 + 'CONTCAR ' + path1 +'POSCAR')
os.chdir(dir)
tools.removeCsPOSCAR(toRunList)
print "\nThe following folders will be run:"
for i in toRunList:
print("toRunList contains : " + i)
raw_input("Press enter to submit jobs")
print"\n"
for folder in toRunList:
newFolder = folder
print folder
print("Checking to see which folders contain " + run + "\n")
time.sleep(1)
os.chdir(dir)
print("Searching all Directories in " + dir + "\n")
tools.CheckFoldersDOS()
checkedList = sorted(checkedList)
toRunList = sorted(toRunList)
#Copy contcars to poscars
from analysisTools import getElement
#pathparts2 = contcardir.split('/')
#nparts2 = len(pathparts2)
#print nparts2
for path1 in checkedList:
path2 = contcardir.replace('Co', getElement('adatom_', path1))
print("cp CONTCAR" + path2)
print('to POSCAR' + path1)
os.system('cp ' + path2 + 'CONTCAR ' + path1 + 'POSCAR')
os.chdir(dir)
tools.removeCsPOSCAR(toRunList)
print "\nThe following folders will be run:"
for i in toRunList:
print("toRunList contains : " + i)
raw_input("Press enter to submit jobs")
print "\n"
for folder in toRunList:
newFolder = folder
print folder
