New in networkx 2.5, released on 22 August 2020, is that extra keywords are no longer accepted in draw_network_nodes().
As far as I can tell from the networkx 2.4 source code, the extra keywords were never used, so removing 'font_family' from the call to draw_network_nodes() should result in no change in behavior.
Full output:
(dev) λ make html
Running Sphinx v3.5.4
making output directory... done
Removed old sources at: C:\Users\Ryan\Documents\NWB\hdmf-common-schema\docs\source\_format_auto_docs
Generating output directory: C:\Users\Ryan\Documents\NWB\hdmf-common-schema\docs\source\_format_auto_docs
SORTING TYPES INTO SECTIONS
---------------------------
Base data types
base data types
['Data', 'Container', 'SimpleMultiContainer']
Table data types
data types for a column-based table
['VectorData', 'VectorIndex', 'ElementIdentifiers', 'DynamicTableRegion', 'DynamicTable', 'AlignedDynamicTable
']
Sparse data types
data types for different types of sparse matrices
['CSRMatrix']
RENDERING TYPE HIERARCHY
------------------------
Container
CSRMatrix
DynamicTable
AlignedDynamicTable
SimpleMultiContainer
Data
ElementIdentifiers
VectorData
DynamicTableRegion
VectorIndex
RENDERING NAMESPACE SPECIFICATION
---------------------------------
hdmf-common-- WRITE NAMESPACE DESCRIPTION DOC OK.
hdmf-common-- WRITE NAMESPACE SOURCE DOC OK.
RENDERING TYPE SPECIFICATIONS
------------------------------
BUILDING Data
Data-- SKIPPED RENDER HIERARCHY. TWO OR FEWER NODES.
Data-- WRITE DESCRIPTION DOC OK.
Data-- WRITE SOURCE DOC OK.
BUILDING Container
Container-- SKIPPED RENDER HIERARCHY. TWO OR FEWER NODES.
Container-- WRITE DESCRIPTION DOC OK.
Container-- WRITE SOURCE DOC OK.
BUILDING SimpleMultiContainer
SimpleMultiContainer-- RENDER HIERARCHY FAILED: Traceback (most recent call last):
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\generate_format_docs.py", line 268, in r
ender_data_type_section
fig = temp_graph.draw(show_plot=False, # noqa F841
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 343, in draw
return self.draw_graph(graph=self.graph, pos=self.pos, data=self.data, **kwargs)
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 682, in draw_g
raph
nx.draw_networkx_nodes(graph, pos,
TypeError: draw_networkx_nodes() got an unexpected keyword argument 'font_family'
SimpleMultiContainer-- WRITE DESCRIPTION DOC OK.
SimpleMultiContainer-- WRITE SOURCE DOC OK.
BUILDING VectorData
VectorData-- SKIPPED RENDER HIERARCHY. TWO OR FEWER NODES.
VectorData-- WRITE DESCRIPTION DOC OK.
VectorData-- WRITE SOURCE DOC OK.
BUILDING VectorIndex
VectorIndex-- SKIPPED RENDER HIERARCHY. TWO OR FEWER NODES.
VectorIndex-- WRITE DESCRIPTION DOC OK.
VectorIndex-- WRITE SOURCE DOC OK.
BUILDING ElementIdentifiers
ElementIdentifiers-- SKIPPED RENDER HIERARCHY. TWO OR FEWER NODES.
ElementIdentifiers-- WRITE DESCRIPTION DOC OK.
ElementIdentifiers-- WRITE SOURCE DOC OK.
BUILDING DynamicTableRegion
DynamicTableRegion-- RENDER HIERARCHY FAILED: Traceback (most recent call last):
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\generate_format_docs.py", line 268, in r
ender_data_type_section
fig = temp_graph.draw(show_plot=False, # noqa F841
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 343, in draw
return self.draw_graph(graph=self.graph, pos=self.pos, data=self.data, **kwargs)
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 682, in draw_g
raph
nx.draw_networkx_nodes(graph, pos,
TypeError: draw_networkx_nodes() got an unexpected keyword argument 'font_family'
DynamicTableRegion-- WRITE DESCRIPTION DOC OK.
DynamicTableRegion-- WRITE SOURCE DOC OK.
BUILDING DynamicTable
DynamicTable-- RENDER HIERARCHY FAILED: Traceback (most recent call last):
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\generate_format_docs.py", line 268, in r
ender_data_type_section
fig = temp_graph.draw(show_plot=False, # noqa F841
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 343, in draw
return self.draw_graph(graph=self.graph, pos=self.pos, data=self.data, **kwargs)
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 682, in draw_g
raph
nx.draw_networkx_nodes(graph, pos,
TypeError: draw_networkx_nodes() got an unexpected keyword argument 'font_family'
DynamicTable-- WRITE DESCRIPTION DOC OK.
DynamicTable-- WRITE SOURCE DOC OK.
BUILDING AlignedDynamicTable
AlignedDynamicTable-- RENDER HIERARCHY FAILED: Traceback (most recent call last):
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\generate_format_docs.py", line 268, in r
ender_data_type_section
fig = temp_graph.draw(show_plot=False, # noqa F841
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 343, in draw
return self.draw_graph(graph=self.graph, pos=self.pos, data=self.data, **kwargs)
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 682, in draw_g
raph
nx.draw_networkx_nodes(graph, pos,
TypeError: draw_networkx_nodes() got an unexpected keyword argument 'font_family'
AlignedDynamicTable-- WRITE DESCRIPTION DOC OK.
AlignedDynamicTable-- WRITE SOURCE DOC OK.
BUILDING CSRMatrix
CSRMatrix-- RENDER HIERARCHY FAILED: Traceback (most recent call last):
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\generate_format_docs.py", line 268, in r
ender_data_type_section
fig = temp_graph.draw(show_plot=False, # noqa F841
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 343, in draw
return self.draw_graph(graph=self.graph, pos=self.pos, data=self.data, **kwargs)
File "c:\users\ryan\miniconda3\envs\dev\lib\site-packages\hdmf_docutils\doctools\render.py", line 682, in draw_g
raph
nx.draw_networkx_nodes(graph, pos,
TypeError: draw_networkx_nodes() got an unexpected keyword argument 'font_family'
CSRMatrix-- WRITE DESCRIPTION DOC OK.
CSRMatrix-- WRITE SOURCE DOC OK.
Write C:\Users\Ryan\Documents\NWB\hdmf-common-schema\docs\source\_format_auto_docs\format_spec_doc.inc
Write C:\Users\Ryan\Documents\NWB\hdmf-common-schema\docs\source\_format_auto_docs\format_spec_sources.inc
Write C:\Users\Ryan\Documents\NWB\hdmf-common-schema\docs\source\_format_auto_docs\format_spec_main.inc
building [mo]: targets for 0 po files that are out of date
building [html]: targets for 6 source files that are out of date
updating environment: [new config] 6 added, 0 changed, 0 removed
reading sources... [100%] software_process
looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
writing output... [100%] software_process
generating indices... genindex done
writing additional pages... search done
copying images... [100%] figures/ragged-array.png
copying static files... done
copying extra files... done
dumping search index in English (code: en)... done
dumping object inventory... done
build succeeded.
The HTML pages are in _build\html.
Build finished. The HTML pages are in _build/html.
When generating HDMF Common documentation, I get the following error:
Networkx docs for
draw_network_nodes()says that 'font_family' is not a keyword argument. https://networkx.org/documentation/stable/reference/generated/networkx.drawing.nx_pylab.draw_networkx_nodes.htmlNew in networkx 2.5, released on 22 August 2020, is that extra keywords are no longer accepted in
draw_network_nodes().As far as I can tell from the networkx 2.4 source code, the extra keywords were never used, so removing 'font_family' from the call to
draw_network_nodes()should result in no change in behavior.Full output: