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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,86 @@ | ||
| #!/usr/bin/env python | ||
| # coding: utf-8 | ||
| """ | ||
| Make latex file for supplementary figures | ||
| """ | ||
|
|
||
| import os | ||
| import argparse | ||
| import pandas | ||
| from narps import Narps | ||
|
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||
| preamble = '''\\documentclass[10pt]{article} | ||
| \\usepackage[margin=1in]{geometry} | ||
| \\geometry{letterpaper} | ||
| \\usepackage{graphicx} | ||
| \\usepackage{amssymb} | ||
| \\usepackage{epstopdf} | ||
| \\usepackage{caption} | ||
| \\title{Supplementary Figures} | ||
| \\author{Botvinick-Nezer et al.} | ||
| \\begin{document} | ||
| ''' | ||
|
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| finale = '\\end{document}\n' | ||
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| def make_supp_figure_file(narps, figheight=8): | ||
| narps.dirs.get_output_dir('SupplementaryMaterials', base='figures') | ||
| # load supp figure info | ||
| latex = preamble | ||
| info = pandas.read_csv('SuppFiguresInfo.tsv', sep='\t') | ||
| for i in range(info.shape[0]): | ||
| caption = info.loc[i, 'Caption'].replace( | ||
| '#', '\\#').replace('%', '\\%') | ||
| imgfile = os.path.join( | ||
| narps.basedir, | ||
| info.loc[i, 'File'] | ||
| ) | ||
| latex += '\\begin{figure}[htbp]\n' | ||
| latex += '\\begin{center}\n' | ||
| latex += '\\includegraphics[height=%din]{%s}\n' % ( | ||
| info.loc[i, 'Height'], imgfile) | ||
| latex += '\\caption*{Supplementary Figure %d: %s}\n' % ( | ||
| info.loc[i, 'Number'], | ||
| caption) | ||
| latex += '\\end{center}\n' | ||
| latex += '\\end{figure}\n' | ||
| latex += '\\newpage\n\n' | ||
|
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| latex += finale | ||
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| outfile = os.path.join( | ||
| narps.dirs.dirs['SupplementaryMaterials'], | ||
| 'SupplementaryFigures.tex' | ||
| ) | ||
| with open(outfile, 'w') as f: | ||
| f.write(latex) | ||
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| if __name__ == "__main__": | ||
|
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| # parse arguments | ||
| parser = argparse.ArgumentParser( | ||
| description='Make latex file for supplementary figures') | ||
| parser.add_argument('-b', '--basedir', | ||
| help='base directory') | ||
| parser.add_argument('-t', '--test', | ||
| action='store_true', | ||
| help='use testing mode (no processing)') | ||
| args = parser.parse_args() | ||
|
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| # set up base directory | ||
| if args.basedir is not None: | ||
| basedir = args.basedir | ||
| elif 'NARPS_BASEDIR' in os.environ: | ||
| basedir = os.environ['NARPS_BASEDIR'] | ||
| print("using basedir specified in NARPS_BASEDIR") | ||
| else: | ||
| basedir = '/data' | ||
| print("using default basedir:", basedir) | ||
|
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| narps = Narps(basedir) | ||
|
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| if not args.test: | ||
| make_supp_figure_file(narps) |
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