ax.text() is bugging when using a posy <0

[ijunier]

• It works with posy > 0
• OSX bug?

Here is the the code which makes the code bug (it works with ax.text(-0.5,0.25,"Ter",color='blue')):

import numpy as np

from matplotlib import rc
rc('font', **{'family': 'sans-serif', 'sans-serif':['Helvetica']})
rc('text', usetex=True)

import matplotlib.pyplot as plt

from matplotlib import colors

from circhic import datasets
from circhic import CircHiCFigure
from circhic.utils import generate_circular_map
from circhic.utils import generate_borders

from iced.normalization import ICE_normalization

data = datasets.load_ecoli()
counts = data["counts"]
lengths = data["lengths"]
counts, bias = ICE_normalization(counts, output_bias=True)

granularity = 0.5
resolution = 9897

fig = plt.figure(figsize=(6, 6))


inner_radius, outer_radius = 0.15, 0.95
inner_gdis, outer_gdis = 1200000, 800000

chrom_lengths = lengths * resolution
circhicfig = CircHiCFigure(chrom_lengths, figure=fig)
m, ax = circhicfig.plot_hic(counts, granularity=granularity, resolution = resolution,
                            outer_radius=outer_radius, inner_radius=inner_radius,
                            inner_gdis=inner_gdis, outer_gdis=outer_gdis,
                            vmin=7, cmap="bone_r",border_thickness=0.005)

rax = circhicfig._create_subplot(outer_radius=outer_radius)
rax.set_rlim((-inner_gdis, outer_gdis))

rax.spines["polar"].set_linewidth(0)
rax.spines["inner"].set_linewidth(0)
rax.set_thetagrids([], labels=[""])
rax.set_rgrids([])

circhicfig._plot_raxis(outer_radius, inner_radius, outer_gdis, inner_gdis)

if True:
    ticklabels = [
            "%d~kb" % (i / 1000) for i in np.arange(0, chrom_lengths[0], 50*resolution)[:-1]]
    tickpositions=np.arange(0, chrom_lengths[0], 50*resolution)[:-1]
    print(tickpositions)
    print(ticklabels)    
    #ticklabels[0] = "ORI"
    ax = circhicfig.set_genomic_ticklabels(
        tickpositions=tickpositions,
        ticklabels=ticklabels,
        outer_radius=0.98)
    ax.tick_params(colors="0.3")


inner_radius, outer_radius = 0.62, 0.67
circhicfig.plot_bands(np.array([int(0.26*chrom_lengths[0])]), np.array([int(0.41*chrom_lengths[0])]), colors=('blue',),
                      inner_radius=inner_radius, outer_radius=outer_radius)


ax.text(-0.5,-0.25,"Ter",color='blue')

circhicfig.figure.savefig("figures/test_coli.pdf")

[NelleV]

I'll test this on thursday or friday, when I have access to OSX

[NelleV]

On my version of Matplotlib, that leads to the following message: "posx and posy should be finite values"

Seems somewhat related to matplotlib/matplotlib#11202

[NelleV]

I think that the issue is that you are trying to add text outside of the scope of the figure, which is weird for this kind of polar plot (it's in the empty donut hole). The fact that matplotlib doesn't raise an error but only raises a warning makes it very hard to debug… in order to exactly check what is going on, I would have to install a development version of Matplotlib and edit the code in order to add a breakpoint.