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save visualization data
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src/gsMap/visualize.py

Lines changed: 4 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -116,13 +116,14 @@ def run_Visualize(config: VisualizeConfig):
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output_dir.mkdir(parents=True, exist_ok=True, mode=0o755)
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output_file_html = output_dir / f'{config.sample_name}_{config.trait_name}.html'
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output_file_pdf = output_dir / f'{config.sample_name}_{config.trait_name}.pdf'
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output_file_csv = output_dir / f'{config.sample_name}_{config.trait_name}.csv'
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fig.write_html(str(output_file_html))
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fig.write_image(str(output_file_pdf))
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space_coord_concat.to_csv(str(output_file_csv))
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print(
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f'------The visualization result is saved in a html file: {output_file_html} which can interactively viewed in a web browser and a pdf file: {output_file_pdf}.')
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print(f'------The visualization result is saved in a html file: {output_file_html} which can interactively viewed in a web browser and a pdf file: {output_file_pdf}.')
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print(f'------The visualization data is saved in a csv file: {output_file_csv}.')
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if __name__ == '__main__':
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TEST = True

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