def gene(gene_name):
title = gene_name
tbl_color = {"LOW": 'success', "MODERATE": 'warning', "HIGH": 'danger'}
bcs = OrderedDict([("Gene", None), (title, None)])
result = list(wb_gene.filter((wb_gene.Name == gene_name) |
(wb_gene.sequence_name == gene_name) |
(wb_gene.locus == gene_name)).dicts().execute())
if len(result) != 1:
return render_template('404.html'), 404
gene_record = result[0]
# Retrieve variants
variants = WI.select().filter(
WI.CHROM == gene_record["CHROM"],
WI.gene_id == gene_record["Name"]).dicts().execute()
# Retrieve mappings
mapping_set = mapping.select(mapping, trait, report) \
.join(trait) \
.join(report) \
.where((gene_record["CHROM"] == mapping.chrom) &
(report.release == 0) &
(gene_record["start"] >= mapping.interval_start) &
(gene_record["end"] <= mapping.interval_end)) \
.dicts() \
.execute()
return render_template('gene.html', **locals())
def get(self, gene):
result = list(wb_gene.filter((wb_gene.Name == gene) |
(wb_gene.sequence_name == gene) |
(wb_gene.locus == gene))
.dicts()
.execute())
ordered = OrderedDict()
if len(result) == 1:
order = [x.name for x in
wb_gene._meta.sorted_fields
if x.name != "id"]
for k in order:
ordered[k] = result[0][k]
return jsonify(result)
