dm.update(r, k, th)
def flush(dm):
print "saving ...\n"
dm.save()
def jump(current, limit):
return current + random.randint(1, limit)
p = Parameter("dsbuilder.")
path = p._("contigs_path")
sim_threshold = p.f("sim_threshold")
k = p.i("k")
css = p.i("contigs_sample_size")
rss = p.i("reads_sample_size")
rrj = p.i("reads_random_jump")
save_frequency = p.i("save_frequency")
out_path = p._("out_path")
dm = DataManager(path, out_path, css)
print "processing {0} contigs and {1} reads".format(css, rss)
#receive reads stream
count = 0
pos = 0
random_pos = jump(pos, rrj)
step = (mxs - mns) / 10
data = ''.join(
['<tr><td>{:.2f}</td></tr>'.format(mns + i * step) for i in range(10)])
return '<table height="500">{}</table>'.format(data)
def html(columns, minscore, maxscore, size, p):
templ = open('template/heatmap.html').read()
templ = templ.replace('_DS_TITLE_DS_', title(p))
templ = templ.replace('_DS_HEATMAP_DS_',
heatmap(columns, minscore, maxscore, size))
templ = templ.replace('_DS_COLOR_SCALE_DS_', colorscale(size))
templ = templ.replace('_DS_SCORE_SCALE_DS_',
scorescale(minscore, maxscore, size))
return templ
p = Parameter()
minscore = p.f('project.wizard.heatmap.min')
maxscore = p.f('project.wizard.heatmap.max')
size = p.i('project.wizard.heatmap.size')
next(sys.stdin).strip('\n').split('\t') #skip min,max from input
columns = next(sys.stdin).strip('\n').split('\t')
print(html(columns, minscore, maxscore, size, p))
