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annotate gaiac_time_series/gaiac_time_series.py @ 3:1f9e67edde6a draft default tip

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planemo upload for repository https://github.com/jaidevjoshi83/gaiac commit e9587f93346c7b55e1be00bad5844bf2db3ed03d-dirty
author jay
date Thu, 10 Jul 2025 19:42:02 +0000
parents 287d6cc86582
children
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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1 import numpy as np
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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2 import pandas as pd
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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3 import matplotlib.pyplot as plt
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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4 import seaborn as sns
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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5 import argparse
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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6 #%matplotlib inline
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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8 def timeseries(infile,clm_list_y, custom_legend_label, outfile, plottitle,fig_height, fig_width, clm_lab_y, clm_lab_x):
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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10 df=pd.read_csv(infile, sep="\t")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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12 cl = df.columns.tolist()
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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14 clms = [cl[int(x)-1] for x in clm_list_y.split(',')]
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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16 if custom_legend_label != None:
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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17 labels = custom_legend_label.split(',')
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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18 else:
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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19 labels = clms
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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21 g=(df[clms].plot(figsize=(int(fig_height),int(fig_width))))
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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22 g.set(ylabel=clm_lab_y, xlabel=clm_lab_x)
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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23 plt.legend(labels, ncol=2, loc='upper right',prop={'size': 6})
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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24 plt.savefig(outfile,dpi=300,bbox_inches="tight")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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27 if __name__=="__main__":
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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29 parser = argparse.ArgumentParser()
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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30 parser.add_argument("-I", "--infile", required=True, default=None, help="Input data file in TSV format.")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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31 parser.add_argument("-C", "--column_list_y", required=False, default=False, help="Comma-separated list of column names for Y-axis data.")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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32 parser.add_argument("-L", "--custom_legend_name", required=False, default=None, help="Custom legend names as a comma-separated list (optional).")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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33 parser.add_argument("-O", "--output", required=False, default='Out.png', help="Filename for the output plot image (default: 'Out.png').")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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34 parser.add_argument("-T", "--title", required=False, default='Time Series plot', help="Title of the plot (default: 'Time Series plot').")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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35 parser.add_argument("-H", "--height", required=False, default='14', help="Height of the figure in inches (default: 14).")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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36 parser.add_argument("-W", "--width", required=False, default='12', help="Width of the figure in inches (default: 12).")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
jay
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37 parser.add_argument("-Y", "--ylab", required=False, default='Y label', help="Label for the Y-axis (default: 'Y label').")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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38 parser.add_argument("-X", "--xlab", required=False, default='X label(time)', help="Label for the X-axis (default: 'X label(time)').")
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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40 args = parser.parse_args()
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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42 timeseries(args.infile, args.column_list_y, args.custom_legend_name, args.output, args.title, args.width, args.height, args.ylab, args.xlab)
287d6cc86582 planemo upload for repository https://github.com/jaidevjoshi83/gaiac.git commit c29a769ed165f313a6410925be24f776652a9663-dirty
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45 #plt.show()