I want to reproduce the examples in the code tutorial, but the following problem occurs. Is it due to version inconsistency?

[xzt199610]

ov.utils.download_pathway_database()

pathway_dict=ov.utils.geneset_prepare('genesets/WikiPathways_2019_Mouse.txt',organism='Mouse')

rnk=dds.ranking2gsea()

gsea_obj=ov.bulk.pyGSEA(rnk,pathway_dict)
enrich_res=gsea_obj.enrichment()

gsea_obj.enrich_res.head()
gsea_obj.plot_enrichment(num=10,node_size=[10,20,30],
cax_fontsize=12,
fig_title='Wiki Pathway Enrichment',fig_xlabel='Fractions of genes',
figsize=(4,4),cmap='YlGnBu',
text_knock=2,text_maxsize=30,
cax_loc=[2.5, 0.45, 0.5, 0.02]
)

gsea_obj.enrich_res.index[:5] # 获取行标签的前5个索引

p2 = gsea_obj.plot_gsea(term_num=1,
gene_set_title='Matrix Metalloproteinases',
figsize=(3,4),
cmap='RdBu_r',
title_fontsize=14,
title_y=0.95)

---

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/ / / / __ `__ / / / | / / _ / / / _ \
/ // / / / / / / / / | |/ / / / ( ) /
_// // ///_/ |/_// /___/___/
Version: 1.6.8, Tutorials: https://omicverse.readthedocs.io/
Traceback (most recent call last):
File "/home/shuaiyongzhang/anaconda3/lib/python3.11/site-packages/IPython/core/interactiveshell.py", line 3553, in run_code
exec(code_obj, self.user_global_ns, self.user_ns)
File "", line 24, in
p2 = gsea_obj.plot_gsea(term_num=1,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/shuaiyongzhang/anaconda3/lib/python3.11/site-packages/omicverse/bulk/_Enrichment.py", line 422, in plot_gsea
g = GSEAPlot(
^^^^^^^^^
TypeError: GSEAPlot.init() missing 2 required positional arguments: 'tag' and 'runes'

[GhostInTheShellwjc]

Downgrading your gseapy to 0.10.8 may help.However，I really hope if the newest gseapy would join in the next version of omicverse.

[xzt199610]

@GhostInTheShellwjc Thanks a lot for your answering, it works well.

[Starlitnightly]

Downgrading your gseapy to 0.10.8 may help.However，I really hope if the newest gseapy would join in the next version of omicverse.

Thanks for your advice, it will be updated in the next version