def get_plot_data(data, x_name, y_name, z_expr):
# fetch x
try:
x_col = data.getColumn(x_name)
except xdp.ColumnNameError:
util.fatal_error('invalid x-axis column name "%s"', repr(x_name)[1:-1])
# fetch y
try:
y_col = data.getColumn(y_name)
except xdp.ColumnNameError:
util.fatal_error('invalid y-axis column name "%s"', repr(x_name)[1:-1])
# evaluate the specified expression to get z
z_col = data.evaluate(z_expr)
return makeXYZ(x_col, y_col, z_col)
def parse_arguments(args):
USAGE = "%prog [OPTIONS...] FILE [ROI-NUMBER]"
VERSION = "%prog " + frankenplot.__version__ + ", by Ken McIvor <*****@*****.**>"
parser = optparse.OptionParser(usage=USAGE, version=VERSION)
parser.add_option(
"-i", action="callback", type="string", callback=legacy_i_callback, help=optparse.SUPPRESS_HELP, metavar="N"
)
parser.add_option(
"-x",
action="store",
type="string",
dest="xName",
default=defaults.x_name,
help='x-axis column name ("%s" is default)' % defaults.x_name,
metavar="N",
)
parser.add_option(
"-y",
action="store",
type="string",
dest="yName",
default=defaults.y_name,
help='y-axis column name ("%s" is default)' % defaults.y_name,
metavar="N",
)
parser.add_option(
"-z",
action="store",
type="string",
dest="zName",
default=defaults.fluor_mode.z_name,
help='z-axis column name ("%s" is default)' % defaults.fluor_mode.z_name,
metavar="N",
)
# FIXME move to Edit -> Preferences
parser.add_option("-n", action="store_false", dest="normalize", default=True, help="disable Io normalization")
parser.add_option(
"-m",
action="store",
dest="colormap",
default=defaults.colormap,
help=("color map (%s)" % ", ".join(defaults.colormaps)),
metavar="C",
)
opts, args = parser.parse_args(args)
if not 0 < len(args) < 3:
parser.print_usage()
sys.exit(1)
# FIXME: most of this logic should be moved into f.data or f.gui
fileName = args[0]
roiNumber = 0
if len(args) == 2:
try:
roiNumber = int(args[1])
except ValueError:
util.fatal_error('invalid ROI number "%s"', repr(args[1])[1:-1])
if roiNumber < 0:
util.fatal_error('invalid ROI number "%s"', repr(args[1])[1:-1])
cm = opts.colormap.lower()
if cm not in defaults.colormaps:
fatal_error('invalid color map "%s"', opts.colormap)
else:
opts.colormap = cm
return opts, (fileName, roiNumber)
