AttributeError: 'KEGGpathway' object has no attribute 'node'

[kpj]

Executing

import KEGGutils as kg
pathway = kg.KEGGpathway(pathway_id='hsa05224')

yields the error AttributeError: 'KEGGpathway' object has no attribute 'node'.

This can be fixed by editing "KEGGutils/KEGGpathway.py":

# line 164
self.pos.update({n: self.node[n]["xy"]})
# to
self.pos.update({n: self.nodes[n]["xy"]})

# line 484
"nodes": (self.node[e1]["name"], self.node[e2]["name"]),
# to
"nodes": (self.nodes[e1]["name"], self.nodes[e2]["name"]),

[filippocastelli]

@kpj thanks for the contribution! last commit should fix the issue

[filippocastelli]

@kpj the suggested fix causes tests to fail

FAILED tests/test_kegggraph.py::KEGGLinkGraphTests::test_kegglinkgraph_get_nodes_by_nodetype_islist
 
FAILED tests/test_kegggraph.py::KEGGLinkGraphTests::test_kegglinkgraph_projection_has_edges
 
FAILED tests/test_keggutils.py::KEGGutilsTest::test_get_nodes_by_nodetype - A...
 
FAILED tests/test_keggutils.py::KEGGutilsTest::test_get_nodes_by_nodetype_correct_nodetype_dict
 
=================== 4 failed, 24 passed, 1 warning in 16.36s ===================

I'm currently investigating on the matter.
(bro I haven't touched this code since like forever)

[kpj]

This is amazing, thank you so much!

[filippocastelli]

you're welcome, I'm happy to know this tool is useful for someone enough to open an issue.
have a nice day!