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change the default topaz path back
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relion_run_topaz/run_topaz_pick.py

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@@ -27,7 +27,7 @@
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"""VARIABLES >>>"""
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print('running ...')
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parser = argparse.ArgumentParser()
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parser.add_argument("-t", "-tpath", "--topaz_path" , type=str, default='/secondary/projects/lu/Zheng/software/conda/anaconda3/envs/topaz/bin/topaz', help = "Topaz path. Input either a direct path to a topaz executable or a directory path where topaz exists.")
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parser.add_argument("-t", "-tpath", "--topaz_path" , type=str, default='/usr/local/bin/topaz', help = "Topaz path. Input either a direct path to a topaz executable or a directory path where topaz exists.")
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parser.add_argument("-i", "--input", "--in_mics", help = "Input micrographs")
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parser.add_argument("-o", "--output", type=str, help = "Output folder (full path)")
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parser.add_argument("-d", "--device", type=int, default=0, help = "GPU/CPU devide. Non-negative numbers correspond to GPU IDs. Negative numbers correspond to CPU processing.")

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