"""
#################################################
#
from bioconvert.core.graph import create_graph
#####################################################
# If you use pygraphviz, you can have a good quality
# image using:
import matplotlib as mpl
mpl.rcParams['figure.dpi'] = 250
############################################################
# In order to create the following image, you need graphviz
# and pygraphviz.
# If you cannot install those packages, you may use a singularity
# image like in the following example by setting the use_singularity
# parameter to True. This would work under Linux. Not tested on other systems
# yet.
create_graph("conversion.png", use_singularity=True)
#####################################################
#
from pylab import imshow, imread, xticks, yticks, gca
imshow(imread("conversion.png"), interpolation="nearest")
xticks([])
yticks([])
ax = gca()
ax.axis('off')
"""
Possible Conversion
====================
Plot directed graph of possible conversion
"""
#################################################
#
from bioconvert.core.graph import create_graph
#####################################################
# Get a data set (BAM file) for testing
create_graph("conversion", format="png")
####################################################
#
from pylab import imshow, imread, xticks, yticks, gca
imshow(imread("conversion.png"))
xticks([])
yticks([])
ax = gca()
ax.axis('off')
# Create the main image
from bioconvert.core.graph import create_graph
import matplotlib as mpl
mpl.rcParams['figure.dpi']= 250
create_graph("conversion.png", color_for_disabled_converter="black")
create_graph("conversion-local.png")
from bioconvert.core.graph import create_graph
import matplotlib as mpl
mpl.rcParams['figure.dpi'] = 250
create_graph("conversion.png")
def test_create_graph():
with TempFile(suffix=".png") as fout:
create_graph(fout.name, use_singularity=False)