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wdecoster / NanoPlot

Plotting scripts for long read sequencing data
http://nanoplot.bioinf.be
MIT License
407 stars 48 forks source link

nanoplot crashes when trying to plot from summary file.. #278

Closed senidr closed 2 years ago

senidr commented 2 years ago

NanoPlot --summary ~/DATA_RUNS/001_002_L1/001_002/20211026_1244_X2_FAR61006_eeaaba85/sequencing _summary_FAR61006_c3669782.txt --loglength -o summary-plots-log-transformed

If you read this then NanoPlot 1.38.1 has crashed :-( Please try updating NanoPlot and see if that helps...

If not, please report this issue at https://github.com/wdecoster/NanoPlot/issues If you could include the log file that would be really helpful. Thanks!

Traceback (most recent call last): File "/home/uqsidris/.local/bin/NanoPlot", line 8, in sys.exit(main()) File "/home/uqsidris/.local/lib/python3.8/site-packages/nanoplot/NanoPlot.py", line 104, in main plots = make_plots(datadf, settings) File "/home/uqsidris/.local/lib/python3.8/site-packages/nanoplot/NanoPlot.py", line 161, in make_plots nanoplotter.length_plots( File "/home/uqsidris/.local/lib/python3.8/site-packages/nanoplotter/nanoplotter_main.py", line 459, in length_plots plots.append(yield_by_minimal_length_plot(array=array, File "/home/uqsidris/.local/lib/python3.8/site-packages/nanoplotter/nanoplotter_main.py", line 516, in yield_by_minimal_length_plot fig = px.scatter(df,x=df.reindex(idx)["lengths"], y=df.reindex(idx)["cumyield_gb"]) File "/home/uqsidris/.local/lib/python3.8/site-packages/plotly/express/_chart_types.py", line 52, in scatter return make_figure(args=locals(), constructor=go.Scatter) File "/home/uqsidris/.local/lib/python3.8/site-packages/plotly/express/_core.py", line 868, in make_figure trace_specs, grouped_mappings, sizeref, show_colorbar = infer_config( File "/home/uqsidris/.local/lib/python3.8/site-packages/plotly/express/_core.py", line 748, in infer_config raise ValueError( ValueError: Value of 'x' is not the name of a column in 'data_frame'. Expected one of ['lengths', 'cumyield_gb'] but received: 189422 2901 153666 4632 20030 35185 132559 6625 27589 29771 ... 38684 24803 156801 4372 128830 7036 114738 8685 125952 7360 Name: lengths, Length: 10000, dtype: uint64

wdecoster commented 2 years ago

Could you check the version of your plotly module? python -c "import plotly ; print(plotly.__version__)"