def test_write_html(self):
"""Reporter: can write to a HTML file
"""
self._make_working_dir()
reporter = Reporter()
reporter.add("This is a Test",title=True)
reporter.add("Lorem ipsum")
reporter.add("Column1\tColumn2",heading=True)
reporter.add("1\t2")
reporter.add("3\t4")
reporter.add("Lorem more ipsum")
report_html = os.path.join(self.wd,"report.html")
reporter.write_html(report_html,
title="Test Document",
no_styles=True)
self.assertTrue(os.path.isfile(report_html))
expected_contents = """<html>
<head>
<title>Test Document</title>
</head>
<body>
<h1>Test Document</h1>
<div id='toc'>
<h2>Contents</h2>
<ul><li><a href='#This_is_a_Test'>This is a Test</a></li></ul>
</div>
<div id='This_is_a_Test'>
<h2>This is a Test</h2>
<p>Lorem ipsum</p>
</div>
<div>
<table>
<tr><th>Column1</th><th>Column2</th></tr>
<tr><td>1</td><td>2</td></tr>
<tr><td>3</td><td>4</td></tr>
</table>
</div>
<div>
<p>Lorem more ipsum</p>
</div></body>
</html>
"""
for expected,actual in zip(expected_contents.split('\n'),
open(report_html,'r').read().split('\n')):
self.assertEqual(expected,actual)
mismatches=opts.mismatches,
reporter=reporter)
else:
for lane in lanes:
if lane not in counts.lanes:
logging.error("Requested analysis for lane %d but "
"only have counts for lanes %s" %
(lane,
','.join([str(l) for l in counts.lanes])))
sys.exit(1)
report_barcodes(counts,
lane=lane,
cutoff=cutoff,
sample_sheet=opts.sample_sheet,
mismatches=opts.mismatches,
reporter=reporter)
if opts.report_file is not None:
print "Writing report to %s" % opts.report_file
reporter.write(filen=opts.report_file)
else:
reporter.write()
if opts.xls_file is not None:
print "Writing XLS to %s" % opts.xls_file
reporter.write_xls(opts.xls_file)
if opts.html_file is not None:
print "Writing HTML to %s" % opts.html_file
reporter.write_html(opts.html_file)
# Output counts if requested
if opts.counts_file_out is not None:
counts.write(opts.counts_file_out)
