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Changeset 289

Timestamp:

01/31/08 18:43:05 (10 months ago)

Author:

Message:

added simple site soring system.

Files:

r288	r289
10	10	from canal.motif import utils
11	11	from canal.motif.analyze import AnalyzeSequenceHandler
	12	from canal.motif.score_sites import ScoreSitesHandler
12	13
13	14	from pages import _q_index, set_DNA_bias
…	…
25	26	from cartwheel.website.RawPWMMotif import RawPWMMotif
26	27
27		_q_exports = ['delete', 'edit', 'go_analyze', 'set_DNA_bias',
	28	_q_exports = ['delete', 'edit', 'go_analyze', 'go_score', 'set_DNA_bias',
28	29	'add_iupac_motif',
29	30	'build_pwm_from_list',
…	…
68	69	return request.redirect('./analyze%s' % (seq_id,))
69	70
	71	def go_score(request):
	72	"""
	73	Redirect to the sequence analysis handler.
	74	"""
	75	motif_id = request.form['motif']
	76	return request.redirect('./score%s' % (motif_id,))
	77
70	78	def _q_lookup(request, component):
71	79	if component.startswith('analyze'):
…	…
76	84
77	85	return AnalyzeSequenceHandler(sequence)
	86
	87	elif component.startswith('score'):
	88	motif_id = int(component[len('score'):])
	89
	90	m = cartwheel.website.get_object_manager()
	91	motif = m.load(motif_id)
	92
	93	return ScoreSitesHandler(motif)
78	94
79	95	####

r288	r289
86	86	(To analyze a sequence with motifs, you must first <a href='../sequences/'>enter some sequences</a>)
87	87	"""
88
	88
	89	matrix_motifs = [ m for m in motifs if hasattr(m, 'make_pwm') ]
	90
	91	if matrix_motifs:
	92	"""
	93	<form method="POST" action="go_score">
	94	<b>Score sites with a matrix motif:</b> <select name='motif'>
	95	"""
	96
	97	for m in matrix_motifs:
	98	"""
	99	<option value='%d'> %s
	100	""" % (m.id, m.name,)
	101
	102	"""
	103	</select>
	104	<input type='submit' value='score sites'>
	105	</form>
	106	"""
	107
89	108	"""
90	109	<b>Other actions:</b> <ul>