Run mypy malariagen_data tests --ignore-missing-imports
  mypy malariagen_data tests --ignore-missing-imports
  shell: /usr/bin/bash -e {0}
  env:
    pythonLocation: /opt/hostedtoolcache/Python/3.12.9/x64
    PKG_CONFIG_PATH: /opt/hostedtoolcache/Python/3.12.9/x64/lib/pkgconfig
    Python_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.9/x64
    Python2_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.9/x64
    Python3_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.9/x64
    LD_LIBRARY_PATH: /opt/hostedtoolcache/Python/3.12.9/x64/lib
malariagen_data/anoph/genome_features.py:207: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anoph/genome_features.py:221: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anoph/genome_features.py:221: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anoph/genome_features.py:221: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anoph/genome_features.py:221: error: Unexpected keyword argument "tooltips" for "figure"  [call-arg]
malariagen_data/anoph/genome_features.py:222: error: Argument "title" to "figure" has incompatible type "str | Literal[False]"; expected "Title | str | None"  [arg-type]
malariagen_data/anoph/genome_features.py:310: error: "list[Axis]" has no attribute "ticker"  [attr-defined]
malariagen_data/anoph/genome_features.py:356: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anoph/genome_features.py:375: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anoph/genome_features.py:375: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anoph/genome_features.py:375: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anoph/genome_features.py:375: error: Unexpected keyword argument "tooltips" for "figure"  [call-arg]
malariagen_data/anoph/genome_features.py:376: error: Argument "title" to "figure" has incompatible type "str | bool | None"; expected "Title | str | None"  [arg-type]
malariagen_data/anoph/genome_features.py:401: error: "Sequence[Model]" has no attribute "callback"  [attr-defined]
malariagen_data/anoph/genome_features.py:510: error: "list[Grid]" has no attribute "visible"  [attr-defined]
malariagen_data/anoph/genome_features.py:513: error: "list[Axis]" has no attribute "ticker"  [attr-defined]
malariagen_data/anoph/genome_features.py:514: error: "list[Axis]" has no attribute "major_label_overrides"  [attr-defined]
malariagen_data/anoph/genome_features.py:515: error: "list[Axis]" has no attribute "axis_label"  [attr-defined]
malariagen_data/anoph/snp_data.py:1503: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anoph/snp_data.py:1518: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anoph/snp_data.py:1518: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anoph/snp_data.py:1518: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anoph/snp_data.py:1518: error: Unexpected keyword argument "tooltips" for "figure"  [call-arg]
malariagen_data/anoph/snp_data.py:1528: error: Argument "y_range" to "figure" has incompatible type "tuple[float, float]"; expected "Range"  [arg-type]
malariagen_data/anoph/snp_data.py:1533: error: "Sequence[Model]" has no attribute "name"  [attr-defined]
malariagen_data/anoph/snp_data.py:1571: error: "list[Axis]" has no attribute "ticker"  [attr-defined]
malariagen_data/anoph/snp_data.py:1574: error: "list[Axis]" has no attribute "major_label_overrides"  [attr-defined]
malariagen_data/anoph/snp_data.py:1578: error: "list[Axis]" has no attribute "axis_label"  [attr-defined]
malariagen_data/anoph/snp_data.py:1579: error: "list[Axis]" has no attribute "ticker"  [attr-defined]
malariagen_data/anoph/snp_data.py:1580: error: "list[Axis]" has no attribute "minor_tick_line_color"  [attr-defined]
malariagen_data/anoph/cnv_data.py:711: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anoph/cnv_data.py:715: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anoph/cnv_data.py:715: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anoph/cnv_data.py:715: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anoph/cnv_data.py:725: error: Argument "y_range" to "figure" has incompatible type "tuple[int, Any]"; expected "Range"  [arg-type]
malariagen_data/anoph/h12.py:804: error: "Model" has no attribute "x_range"  [attr-defined]
malariagen_data/anoph/h12.py:816: error: "Model" has no attribute "x_range"  [attr-defined]
malariagen_data/anoph/g123.py:359: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anoph/g123.py:367: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anoph/g123.py:367: error: Unexpected keyword argument "active_inspect" for "figure"  [call-arg]
malariagen_data/anoph/g123.py:367: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anoph/g123.py:367: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anoph/g123.py:368: error: Argument "title" to "figure" has incompatible type "str | bool | None"; expected "Title | str | None"  [arg-type]
malariagen_data/anoph/g123.py:386: error: Argument "y_range" to "figure" has incompatible type "tuple[int, int]"; expected "Range"  [arg-type]
malariagen_data/anoph/g123.py:402: error: "list[Axis]" has no attribute "axis_label"  [attr-defined]
malariagen_data/anoph/g123.py:403: error: "list[Axis]" has no attribute "ticker"  [attr-defined]
malariagen_data/anoph/g123.py:556: error: Unexpected keyword argument "x_axis_type" for "figure"  [call-arg]
malariagen_data/anoph/g123.py:557: error: Argument "title" to "figure" has incompatible type "str | bool | None"; expected "Title | str | None"  [arg-type]
malariagen_data/anoph/g123.py:590: error: "list[Axis]" has no attribute "ticker"  [attr-defined]
malariagen_data/anoph/fst.py:211: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anoph/fst.py:219: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anoph/fst.py:219: error: Unexpected keyword argument "active_inspect" for "figure"  [call-arg]
malariagen_data/anoph/fst.py:219: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anoph/fst.py:219: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anoph/fst.py:220: error: Argument "title" to "figure" has incompatible type "str | bool"; expected "Title | str | None"  [arg-type]
malariagen_data/anoph/fst.py:238: error: Argument "y_range" to "figure" has incompatible type "tuple[int, int]"; expected "Range"  [arg-type]
malariagen_data/anoph/fst.py:254: error: "list[Axis]" has no attribute "axis_label"  [attr-defined]
malariagen_data/anoph/fst.py:255: error: "list[Axis]" has no attribute "ticker"  [attr-defined]
malariagen_data/anopheles.py:294: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anopheles.py:300: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anopheles.py:300: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anopheles.py:300: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anopheles.py:310: error: Argument "y_range" to "figure" has incompatible type "tuple[int, Any]"; expected "Range"  [arg-type]
malariagen_data/anopheles.py:328: error: "list[Axis]" has no attribute "axis_label"  [attr-defined]
malariagen_data/anopheles.py:633: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anopheles.py:646: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anopheles.py:646: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anopheles.py:646: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anopheles.py:647: error: Argument "title" to "figure" has incompatible type "str | bool | None"; expected "Title | str | None"  [arg-type]
malariagen_data/anopheles.py:680: error: "list[Grid]" has no attribute "visible"  [attr-defined]
malariagen_data/anopheles.py:681: error: "list[Axis]" has no attribute "ticker"  [attr-defined]
malariagen_data/anopheles.py:682: error: "list[Axis]" has no attribute "axis_label"  [attr-defined]
malariagen_data/anopheles.py:1517: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anopheles.py:1525: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anopheles.py:1525: error: Unexpected keyword argument "active_inspect" for "figure"  [call-arg]
malariagen_data/anopheles.py:1525: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anopheles.py:1525: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anopheles.py:1526: error: Argument "title" to "figure" has incompatible type "str | bool | None"; expected "Title | str | None"  [arg-type]
malariagen_data/anopheles.py:1571: error: Unexpected keyword argument "size" for "circle" of "GlyphAPI"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/plotting/glyph_api.pyi:547: note: "circle" of "GlyphAPI" defined here
malariagen_data/anopheles.py:1581: error: "list[Axis]" has no attribute "axis_label"  [attr-defined]
malariagen_data/anopheles.py:2047: error: Unexpected keyword argument "bounds" for "Range1d"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/models/ranges.pyi:53: note: "Range1d" defined here
malariagen_data/anopheles.py:2058: error: Unexpected keyword argument "tools" for "figure"  [call-arg]
malariagen_data/anopheles.py:2058: error: Unexpected keyword argument "active_inspect" for "figure"  [call-arg]
malariagen_data/anopheles.py:2058: error: Unexpected keyword argument "active_scroll" for "figure"  [call-arg]
malariagen_data/anopheles.py:2058: error: Unexpected keyword argument "active_drag" for "figure"  [call-arg]
malariagen_data/anopheles.py:2059: error: Argument "title" to "figure" has incompatible type "str | bool"; expected "Title | str | None"  [arg-type]
malariagen_data/anopheles.py:2103: error: Unexpected keyword argument "size" for "circle" of "GlyphAPI"  [call-arg]
/opt/hostedtoolcache/Python/3.12.9/x64/lib/python3.12/site-packages/bokeh/plotting/glyph_api.pyi:547: note: "circle" of "GlyphAPI" defined here
malariagen_data/anopheles.py:2113: error: "list[Axis]" has no attribute "axis_label"  [attr-defined]
Found 133 errors in 8 files (checked 94 source files)
Error: Process completed with exit code 1.