def test_make_html_file(self):
"""The HTML file is stored in the correct location"""
# Generate the PCoA output directory
pcoa_dir = get_tmp_filename(tmp_dir=self.tmp_dir, suffix='')
self._create_pcoa_output_structure(pcoa_dir)
# Add the PCoA output to the cleaning paths
self._dirs_to_clean_up = [pcoa_dir]
# Perform the test
html_fp = get_tmp_filename(tmp_dir=self.tmp_dir, suffix='.html')
make_html_file(pcoa_dir, html_fp)
self.assertTrue(exists(html_fp))
from qiime.util import parse_command_line_parameters, make_option
from fastunifrac.make_pcoa_html import make_html_file
script_info = {}
script_info['brief_description'] = """Generates a html file which shows the\
PCoA results."""
script_info['script_description'] = """ Generates a html file which shows the\
PCoA results."""
script_info['script_usage'] = [
("Example", "Generates a html file named 'index.html' with the PCoA " +
"results stored under the folder 'pcoa_output_dir'",
"%prog -d pcoa_output_dir -o index.html")
]
script_info['output_description'] = ""
script_info['required_options'] = [
make_option('-o', '--output_html_fp', type="new_filepath",
help='Html filepath'),
make_option('-d', '--pcoa_output_directory', type="existing_dirpath",
help='Directory which contains the PCoA results')
]
script_info['optional_options'] = []
script_info['version'] = __version__
if __name__ == '__main__':
option_parser, opts, args = parse_command_line_parameters(**script_info)
html_fp = opts.output_html_fp
pcoa_dir = opts.pcoa_output_directory
make_html_file(pcoa_dir, html_fp)
script_info = {}
script_info['brief_description'] = """Generates a html file which shows the\
PCoA results."""
script_info['script_description'] = """ Generates a html file which shows the\
PCoA results."""
script_info['script_usage'] = [
("Example", "Generates a html file named 'index.html' with the PCoA " +
"results stored under the folder 'pcoa_output_dir'",
"%prog -d pcoa_output_dir -o index.html")
]
script_info['output_description'] = ""
script_info['required_options'] = [
make_option('-o',
'--output_html_fp',
type="new_filepath",
help='Html filepath'),
make_option('-d',
'--pcoa_output_directory',
type="existing_dirpath",
help='Directory which contains the PCoA results')
]
script_info['optional_options'] = []
script_info['version'] = __version__
if __name__ == '__main__':
option_parser, opts, args = parse_command_line_parameters(**script_info)
html_fp = opts.output_html_fp
pcoa_dir = opts.pcoa_output_directory
make_html_file(pcoa_dir, html_fp)