ValueError("Invalid RGBA argument: {!r}".format(orig_c))

[Ninomoriaty]

Hello, it seems that there is a problem about the arguments related to matplotlib-v.2.2.3.

I am attempting to test the E1 example with SCHISM-v.1.1.2. After modifying the absolute path in E1.yaml. I run the following command as Usage Examples manual:

$ runSchism analyze --config E1.yaml

but it returns warnings:

  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/bin/runSchism", line 155, in <module>
    main()
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/bin/runSchism", line 152, in main
    args.func(args)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/bin/runSchism", line 137, in run_schism
    plot_mut_clust_cellularity(args)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/SCHISM/visualize.py", line 530, in plot_mut_clust_cellularity
    alpha = 0.5)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/__init__.py", line 1867, in inner
    return func(ax, *args, **kwargs)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/axes/_axes.py", line 5165, in fill_between
    collection = mcoll.PolyCollection(polys, **kwargs)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/collections.py", line 961, in __init__
    Collection.__init__(self, **kwargs)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/collections.py", line 170, in __init__
    self.update(kwargs)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/artist.py", line 888, in update
    for k, v in props.items()]
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/artist.py", line 882, in _update_property
    return func(v)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/collections.py", line 677, in set_color
    self.set_facecolor(c)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/collections.py", line 705, in set_facecolor
    self._set_facecolor(c)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/collections.py", line 690, in _set_facecolor
    self._facecolors = mcolors.to_rgba_array(c, self._alpha)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/colors.py", line 267, in to_rgba_array
    result[i] = to_rgba(cc, alpha)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/colors.py", line 168, in to_rgba
    rgba = _to_rgba_no_colorcycle(c, alpha)
  File "/home/ninomoriaty/anaconda3/envs/EvolCancer/lib/python2.7/site-packages/matplotlib/colors.py", line 212, in _to_rgba_no_colorcycle
    raise ValueError("Invalid RGBA argument: {!r}".format(orig_c))
ValueError: Invalid RGBA argument: 'f'

And it returns the following output documents : 0_E1_result.cluster.cellularity, 0_E1_result.HT.cpov, 0_E1_result.HT.cpov.pdf, 0_E1_result.HT.pov, 0_E1_result.HT.pvalues, 0_E1_result.mutation.cellularity.

It seems that the problem is caused by the arguments which conflict with matplotlib-2.2.3. But I am not sure about how to deal with it. And that is why I am writing an issue for some recommendation and advice.