def report(self):
'''
run reporting modules
'''
import pweave
os.chdir('source')
try:
pweave.pweave('genPnw.Pnw')
except:
sys.stderr.write('error creating data files in %s'%self.here + '/source')
return
import glob
files = glob.glob('K*Pnw')
for file in files:
print file
try:
pweave.pweave(file)
except:
sys.stderr.write('error Pweaving data file %s in %s'%(file,self.here + '/source'))
os.chdir(self.here)
cmd = 'make clean html'
try:
os.system(cmd)
except:
sys.stderr.write('error making html')
return
def report(self):
'''
run reporting modules
'''
import pweave
os.chdir('source')
try:
pweave.pweave('genPnw.Pnw')
except:
sys.stderr.write('error creating data files in %s' % self.here +
'/source')
return
import glob
files = glob.glob('K*Pnw')
for file in files:
print file
try:
pweave.pweave(file)
except:
sys.stderr.write('error Pweaving data file %s in %s' %
(file, self.here + '/source'))
os.chdir(self.here)
cmd = 'make clean html'
try:
os.system(cmd)
except:
sys.stderr.write('error making html')
return
def weave():
if len(sys.argv)==1:
print "This is Pweave %s, enter Pweave -h for help" % pweave.__version__
sys.exit()
# Command line options
parser = OptionParser(usage="Pweave [options] sourcefile", version="Pweave " + pweave.__version__)
parser.add_option("-f", "--format", dest="format", default='rst',
help="The output format. Available formats: " + pweave.PwebFormats.shortformats() + " Use Pweave -l to list descriptions or see http://mpastell.com/pweave/formats.html")
parser.add_option("-i", "--input-format", dest="informat", default='noweb',
help="Input format: noweb, notebook or script")
parser.add_option("-s", "--shell", dest="shell", default='python',
help="shell used to run code: python or ipython")
parser.add_option("-l","--list-formats", dest="listformats", action = "store_true" ,default=False,
help="List output formats")
parser.add_option("-m", "--matplotlib", dest="mplotlib", default='true',
help="Do you want to use matplotlib (or Sho with Ironpython) True (default) or False")
parser.add_option("-d","--documentation-mode", dest="docmode",
action = "store_true" ,default=False,
help="Use documentation mode, chunk code and results will be loaded from cache and inline code will be hidden")
parser.add_option("-c","--cache-results", dest="cache",
action = "store_true", default=False,
help="Cache results to disk for documentation mode")
parser.add_option("--figure-directory", dest="figdir", default = 'figures',
help="Directory path for matplolib graphics: Default 'figures'")
parser.add_option("--cache-directory", dest="cachedir", default = 'cache',
help="Directory path for cached results used in documentation mode: Default 'cache'")
parser.add_option("-g","--figure-format", dest="figfmt",
help="Figure format for matplotlib graphics: Defaults to 'png' for rst and Sphinx html documents and 'pdf' for tex")
(options, args) = parser.parse_args()
try:
infile = args[0]
except:
infile = ""
mplotlib = (options.mplotlib.lower() == 'true')
if options.figfmt is not None:
figfmt = ('.%s' % options.figfmt)
else:
figfmt = None
pweave.pweave(infile, doctype = options.format, informat=options.informat, shell=options.shell, plot = mplotlib,
docmode = options.docmode, cache = options.cache, figdir = options.figdir,
cachedir = options.cachedir, figformat = figfmt, listformats = options.listformats)
def test_pweave():
"""Integration test pweave by comparing output to a known good
reference.
N.B. can't use anything in the .mdw that will give different
outputs each time. For example, setting term=True and then
calling figure() will output a matplotlib figure reference. This
has a memory pointer that changes every time.
"""
REF = 'tests/simple_REF.md'
infile = 'tests/simple.mdw'
outfile = 'tests/simple.md'
pweave.pweave(file=infile, doctype="pandoc", figdir='tests/figures')
# Compare the outfile and the ref
out = open(outfile)
ref = open(REF)
assert(out.read() == ref.read())
def test_pweave():
"""Integration test pweave by comparing output to a known good
reference.
N.B. can't use anything in the .mdw that will give different
outputs each time. For example, setting term=True and then
calling figure() will output a matplotlib figure reference. This
has a memory pointer that changes every time.
"""
REF = 'tests/simple_REF.md'
infile = 'tests/simple.mdw'
outfile = 'tests/simple.md'
pweave.pweave(file=infile, doctype="pandoc", figdir='tests/figures')
# Compare the outfile and the ref
out = open(outfile)
ref = open(REF)
assert (out.read() == ref.read())
import pweave as pw
import os as os
import pweave as pw
from parameters import *
os.system("cp $ROUTINESPATH/Photoz-Analysis/pz_report.Plw ./" + code + "_" + cat_file[:-4] + "_report.Plw")
pw.pweave(code + "_" + cat_file[:-4] + "_report.Plw", doctype = 'tex')
os.system("rm " + code + "_" + cat_file[:-4] + "_report.Plw")
def weave():
if len(sys.argv) == 1:
print "This is Pweave %s, enter Pweave -h for help" % pweave.__version__
sys.exit()
# Command line options
parser = OptionParser(usage="Pweave [options] sourcefile",
version="Pweave " + pweave.__version__)
parser.add_option(
"-f",
"--format",
dest="format",
default='rst',
help="The output format. Available formats: " +
pweave.PwebFormats.shortformats() +
" Use Pweave -l to list descriptions or see http://mpastell.com/pweave/formats.html"
)
parser.add_option("-i",
"--input-format",
dest="informat",
default='noweb',
help="Input format: noweb, notebook or script")
parser.add_option("-s",
"--shell",
dest="shell",
default='python',
help="shell used to run code: python or ipython")
parser.add_option("-l",
"--list-formats",
dest="listformats",
action="store_true",
default=False,
help="List output formats")
parser.add_option(
"-m",
"--matplotlib",
dest="mplotlib",
default='true',
help=
"Do you want to use matplotlib (or Sho with Ironpython) True (default) or False"
)
parser.add_option(
"-d",
"--documentation-mode",
dest="docmode",
action="store_true",
default=False,
help=
"Use documentation mode, chunk code and results will be loaded from cache and inline code will be hidden"
)
parser.add_option("-c",
"--cache-results",
dest="cache",
action="store_true",
default=False,
help="Cache results to disk for documentation mode")
parser.add_option(
"--figure-directory",
dest="figdir",
default='figures',
help="Directory path for matplolib graphics: Default 'figures'")
parser.add_option(
"--cache-directory",
dest="cachedir",
default='cache',
help=
"Directory path for cached results used in documentation mode: Default 'cache'"
)
parser.add_option(
"-g",
"--figure-format",
dest="figfmt",
help=
"Figure format for matplotlib graphics: Defaults to 'png' for rst and Sphinx html documents and 'pdf' for tex"
)
(options, args) = parser.parse_args()
try:
infile = args[0]
except:
infile = ""
mplotlib = (options.mplotlib.lower() == 'true')
if options.figfmt is not None:
figfmt = ('.%s' % options.figfmt)
else:
figfmt = None
pweave.pweave(infile,
doctype=options.format,
informat=options.informat,
shell=options.shell,
plot=mplotlib,
docmode=options.docmode,
cache=options.cache,
figdir=options.figdir,
cachedir=options.cachedir,
figformat=figfmt,
listformats=options.listformats)
