Thanks to visit codestin.com
Credit goes to github.com

Skip to content

Animate MAGIC error #214

@JLTrincado

Description

@JLTrincado

Dear authors,

I'm using this amazing package in python (MAGIC version 3.0.0). When running animate_magic method, I encounter the following error:

magic.plot.animate_magic(data, gene_x='CXCR3', gene_y='IL2RB', operator=magic_op, t_max=12)

IndexError: only integers, slices (`:`), ellipsis (`...`), numpy.newaxis (`None`) and integer or boolean arrays are valid indices
---------------------------------------------------------------------------
IndexError                                Traceback (most recent call last)
<command-877177666815040> in <module>
      1 # make the font size bigger
      2 plt.rc('font', size=16)
----> 3 magic.plot.animate_magic(data, gene_x='CXCR3', gene_y='IL2RB', operator=magic_op, t_max=12)

/databricks/python/lib/python3.8/site-packages/magic/plot.py in animate_magic(data, gene_x, gene_y, gene_color, t_max, delay, operator, filename, ax, figsize, s, cmap, interval, dpi, ipython_html, verbose, **kwargs)
    129     data_magic = scprep.utils.toarray(data_magic)
    130     c = data_magic[gene_color] if gene_color is not None else None
--> 131     sc = ax.scatter(data_magic[gene_x], data_magic[gene_y], c=c, cmap=cmap)
    132     ax.set_title("t = 0")
    133     ax.set_xlabel(gene_x)

IndexError: only integers, slices (`:`), ellipsis (`...`), numpy.newaxis (`None`) and integer or boolean arrays are valid indices

Is there any deprecation that could be affecting this method?

Thanks for your help,

Juanlu.

Metadata

Metadata

Assignees

No one assigned

    Labels

    Type

    No type

    Projects

    No projects

    Milestone

    No milestone

    Relationships

    None yet

    Development

    No branches or pull requests

    Issue actions