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3
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1 import argparse
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2 import os
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3
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4
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5 from bioblend import galaxy
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6
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7
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8 def _parser():
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9 parser = argparse.ArgumentParser()
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10 parser.add_argument("-g", "--galaxy", help='URL of target galaxy')
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11 parser.add_argument("-p", "--password", help='Galaxy admin password')
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12 parser.add_argument("-e", "--email", help='Galaxy admin email')
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13 parser.add_argument("-a", "--key", help='Galaxy admin key', default=None)
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14 parser.add_argument("-i", "--history_path", help='Path to history gz files to be loaded')
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15 return parser
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16
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17 def main():
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18 """
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19 load a folder of histories or a single gz
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20 """
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21 args = _parser().parse_args()
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22 if args.key:
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23 gi = galaxy.GalaxyInstance(url=args.galaxy, key=args.key)
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24 else:
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25 gi = galaxy.GalaxyInstance(url=args.galaxy, email=args.email, password=args.password)
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26 hdir = args.history_path
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27 # h = gi.histories.get_most_recently_used_history()
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28 if os.path.isdir(hdir):
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29 for fp in os.listdir(hdir):
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30 hp = os.path.join(hdir,fp)
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31 if os.path.isfile(hp):
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32 x = gi.histories.import_history(file_path=hp, url=None)
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33 print('installed ',hp,'res=',x)
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34 else:
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35 x = gi.histories.import_history(file_path=hdir, url=None)
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36 print('installed',hdir,'res=',x)
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37
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38
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39 if __name__ == "__main__":
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40 main()
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41
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