def edit(self, id):
"""
Edits an assay.
"""
assay_q = Session.query(Assay)
assay = assay_q.filter_by(id=id).first()
dye_field = fl.assay_dye_field(assay.dye)
quencher_field = fl.assay_quencher_field(assay.quencher)
secondary_structure = fl.tertiary_field(assay.secondary_structure)
if assay is None:
abort(404)
else:
c.assay = assay
owner_field = fl.person_field(c.assay.owner_id)
c.form = h.LiteralFormSelectPatch(
value={
"dye": dye_field["value"],
"quencher": quencher_field["value"],
"owner_id": unicode(owner_field["value"]),
"secondary_structure": secondary_structure["value"],
},
option={
"chromosome": [("", "--")] + [(chr, chr) for chr in Chromosome.chrom_list],
"owner_id": owner_field["options"],
"dye": dye_field["options"],
"quencher": quencher_field["options"],
"secondary_structure": secondary_structure["options"],
},
)
values = {
"name": assay.name,
"gene": assay.gene,
"owner_id": unicode(assay.owner_id),
"primer_fwd": assay.primer_fwd,
"primer_rev": assay.primer_rev,
"chromosome": assay.chromosome,
"probe_pos": assay.probe_pos,
"probe_seq": assay.probe_seq,
"dye": assay.dye,
"quencher": assay.quencher,
"secondary_structure": secondary_structure["value"],
"amplicon_width": assay.amplicon_width,
"snp_rsid": assay.snp_rsid,
"notes": assay.notes,
"reference_source": assay.reference_source,
"optimal_anneal_temp": assay.optimal_anneal_temp,
}
if assay.assay_type == Assay.TYPE_LOCATION:
c.selectedTab = 1
elif assay.assay_type == Assay.TYPE_SNP:
c.selectedTab = 2
else:
c.selectedTab = 0
return htmlfill.render(render("/assay/edit.html"), values)
def new(self):
dye_field = fl.assay_dye_field()
quencher_field = fl.assay_quencher_field()
owner_field = fl.person_field()
secondary_structure = fl.tertiary_field()
c.form = h.LiteralFormSelectPatch(
value={
"dye": dye_field["value"],
"quencher": quencher_field["value"],
"owner_id": owner_field["value"],
"secondary_structure": secondary_structure["value"],
},
option={
"chromosome": [("", "--")] + [(chr, chr) for chr in Chromosome.chrom_list],
"owner_id": [("", "--")] + owner_field["options"],
"dye": dye_field["options"],
"quencher": quencher_field["options"],
"secondary_structure": secondary_structure["options"],
},
)
return render("/assay/new.html")
