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Move to using Plotly >= 7.0.0 #14

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Move to using Plotly >= 7.0.0 #14

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2 changes: 1 addition & 1 deletion bin/consistency-basic.py
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Original file line number Diff line number Diff line change
Expand Up @@ -59,7 +59,7 @@ def plotConsistency(
)

fig = go.Figure(data=data, layout=layout)
plotly.offline.plot(fig, filename=outfile, auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=outfile, auto_open=show)


if __name__ == "__main__":
Expand Down
2 changes: 1 addition & 1 deletion bin/consistency-heatmap.py
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Original file line number Diff line number Diff line change
Expand Up @@ -130,7 +130,7 @@ def plotConsistency(
layout = go.Layout(layoutDict)

fig = go.Figure(data=data, layout=layout)
plotly.offline.plot(fig, filename=outfile, auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=outfile, auto_open=show)


if __name__ == "__main__":
Expand Down
2 changes: 1 addition & 1 deletion bin/multiple-significant-base-frequencies.py
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Original file line number Diff line number Diff line change
Expand Up @@ -93,7 +93,7 @@ def plotScores(sampleData, outfile):

layout = go.Layout(xaxis=xaxis, yaxis=yaxis)
fig = go.Figure(data=data, layout=layout)
plotly.offline.plot(fig, filename=outfile, show_link=False)
plotly.offline.plot(fig, filename=outfile)


if __name__ == "__main__":
Expand Down
4 changes: 2 additions & 2 deletions pyproject.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"

[project]
name = "midtools"
version = "1.2.3"
version = "1.3.0"
description = "Command line scripts and Python classes for detecting multiple infections from NGS reads."
readme = "README.md"
license = "MIT"
Expand All @@ -28,7 +28,7 @@ classifiers = [
dependencies = [
"colorlover>=0.3.0",
"dark-matter>=7.1.19",
"plotly>=6.6.0",
"plotly>=7.0.0",

@imLew imLew Sep 1, 2026

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I'd still recommend using ~=, otherwise you'll have the same problem again when plotly 8 is released.

]

[project.urls]
Expand Down
16 changes: 8 additions & 8 deletions src/midtools/plotting.py
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Original file line number Diff line number Diff line change
Expand Up @@ -123,7 +123,7 @@ def plotSAM(
hovermode="closest",
)
fig = go.Figure(data=data, layout=layout)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show)


def plotAllReferencesSAM(
Expand Down Expand Up @@ -312,7 +312,7 @@ def plotAllReferencesSAM(

fig.update_layout(legend_title_text="Genotype (total reads)")

plotly.offline.plot(fig, filename=str(outfile), auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show)


def _plotSortedMaxBaseFrequencies(
Expand Down Expand Up @@ -417,7 +417,7 @@ def _plotSortedMaxBaseFrequencies(
},
)
fig = go.Figure(data=data, layout=layout)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show)
return frequencyInfo


Expand Down Expand Up @@ -516,7 +516,7 @@ def _plotBaseFrequenciesEntropy(
},
)
fig = go.Figure(data=data, layout=layout)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show)
return entropyInfo


Expand Down Expand Up @@ -602,7 +602,7 @@ def _plotBaseFrequenciesAllOffsets(
)

fig = go.Figure(data=data, layout=layout)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show)


def _plotBaseFrequencies(
Expand Down Expand Up @@ -674,7 +674,7 @@ def _plotBaseFrequencies(
)

fig = go.Figure(data=data, layout=layout)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show)


def plotBaseFrequencies(
Expand Down Expand Up @@ -843,7 +843,7 @@ def plotCoverageAndSignificantLocations(
}
)

plotly.offline.plot(fig, filename=str(outfile), auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show)


def plotConsistentComponents(
Expand Down Expand Up @@ -1125,4 +1125,4 @@ def offsetsToLocationsStr(offsets: list[int]) -> str:
)

fig = go.Figure(data=data, layout=layout)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show, show_link=False)
plotly.offline.plot(fig, filename=str(outfile), auto_open=show)
120 changes: 60 additions & 60 deletions uv.lock
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