def samples():
"""List all samples."""
per_page = current_app.config['ITEMS_PER_PAGE']
page = int(request.args.get('page', 1))
query = request.args.get('query')
sample_q = db.samples(query_str=query)
if sample_q.count() == 1:
# send the user directly to the sample details
sample_obj = sample_q.first()
return redirect(url_for('.sample', sample_id=sample_obj.id))
else:
page = sample_q.paginate(page, per_page=per_page)
return render_template('samples.html', page=page, query=query)
def dashboard():
"""Show details for a case."""
tot_samples = db.samples().count()
sequenced = db.samples(sequenced=True).count()
delivered = db.samples(delivered=True).count()
invoiced = db.samples(invoiced=True).count()
archived = db.samples(archived=True).count()
genotyped = db.samples(genotyped=True).count()
percents = dict(
sequenced=(sequenced / tot_samples * 100),
delivered=(delivered / tot_samples * 100),
invoiced=(invoiced / tot_samples * 100),
archived=(archived / tot_samples * 100),
genotyped=(genotyped / tot_samples * 100),
)
failed = db.samples(maf_fail=True)
to_rerun = db.cases(rerun=True)
to_research = db.cases(research=True)
return render_template('dashboard.html', samples=tot_samples,
percents=percents, failed=failed, reruns=to_rerun,
research=to_research)