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Change assert to warning in visuz.py #63

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Change assert to warning in visuz.py #63

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23 changes: 12 additions & 11 deletions bioinfokit/visuz.py
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Original file line number Diff line number Diff line change
Expand Up @@ -155,16 +155,16 @@ def volcano(df="dataframe", lfc=None, pv=None, lfc_thr=(1, 1), pv_thr=(0.05, 0.0
# plot
assign_values = {col: i for i, col in enumerate(color)}
color_result_num = [assign_values[i] for i in df['color_add_axy']]
assert len(set(color_result_num)) == 3, \
'either significant or non-significant genes are missing; try to change lfc_thr or pv_thr to include ' \
'both significant and non-significant genes'
if len(set(color_result_num)) != 3:
warnings.warn('either significant or non-significant genes are missing; try to change lfc_thr or pv_thr to '
'include both significant and non-significant genes')
if theme == 'dark':
general.dark_bg()
plt.subplots(figsize=dim)
if plotlegend:
s = plt.scatter(df[lfc], df['logpv_add_axy'], c=color_result_num, cmap=ListedColormap(color), alpha=valpha,
s=dotsize, marker=markerdot)
assert len(legendlabels) == 3, 'legendlabels must be size of 3'
# assert len(legendlabels) == 3, 'legendlabels must be size of 3'
plt.legend(handles=s.legend_elements()[0], labels=legendlabels, loc=legendpos, bbox_to_anchor=legendanchor)
else:
plt.scatter(df[lfc], df['logpv_add_axy'], c=color_result_num, cmap=ListedColormap(color), alpha=valpha,
Expand Down Expand Up @@ -207,15 +207,16 @@ def involcano(df="dataframe", lfc="logFC", pv="p_values", lfc_thr=(1, 1), pv_thr
# plot
assign_values = {col: i for i, col in enumerate(color)}
color_result_num = [assign_values[i] for i in df['color_add_axy']]
assert len(set(color_result_num)) == 3, 'either significant or non-significant genes are missing; try to change lfc_thr or ' \
'pv_thr to include both significant and non-significant genes'
if len(set(color_result_num)) != 3:
warnings.warn('either significant or non-significant genes are missing; try to change lfc_thr or pv_thr to '
'include both significant and non-significant genes')
if theme == 'dark':
general.dark_bg()
plt.subplots(figsize=dim)
if plotlegend:
s = plt.scatter(df[lfc], df['logpv_add_axy'], c=color_result_num, cmap=ListedColormap(color), alpha=valpha,
s=dotsize, marker=markerdot)
assert len(legendlabels) == 3, 'legendlabels must be size of 3'
# assert len(legendlabels) == 3, 'legendlabels must be size of 3'
plt.legend(handles=s.legend_elements()[0], labels=legendlabels, loc=legendpos,
bbox_to_anchor=legendanchor)
else:
Expand Down Expand Up @@ -270,16 +271,16 @@ def ma(df="dataframe", lfc=None, ct_count=None, st_count=None, basemean=None, pv
# plot
assign_values = {col: i for i, col in enumerate(color)}
color_result_num = [assign_values[i] for i in df['color_add_axy']]
assert len(
set(color_result_num)) == 3, 'either significant or non-significant genes are missing; try to change lfc_thr' \
' to include both significant and non-significant genes'
if len(set(color_result_num)) != 3:
warnings.warn('either significant or non-significant genes are missing; try to change lfc_thr or pv_thr to '
'include both significant and non-significant genes')
if theme:
General.style_bg(theme)
plt.subplots(figsize=dim)
if plotlegend:
s = plt.scatter(df['A_add_axy'], df[lfc], c=color_result_num, cmap=ListedColormap(color),
alpha=valpha, s=dotsize, marker=markerdot)
assert len(legendlabels) == 3, 'legendlabels must be size of 3'
# assert len(legendlabels) == 3, 'legendlabels must be size of 3'
plt.legend(handles=s.legend_elements()[0], labels=legendlabels, loc=legendpos,
bbox_to_anchor=legendanchor)
else:
Expand Down