def index(self, organism=None, db_version=None):
global results_dir, uploads_dir, sett
if not organism: organism = sett["default_organism"]
if DEBUG_MODE or not organism in self._index_html:
tmpl = lookup.get_template("master.mako")
paths = PathNode()
paths.name = "Root"
[html_dbversion, db_version
] = grsnp_path.get_database_versions_html(sett["data_dir"],
db_version)
paths.organisms = self.get_org(db_version)
# Check if the organism actually exists in the current database.
# If it is not, select the default organism
if not organism in paths.organisms:
organism = sett["default_organism"]
custom_dir = os.path.join(
os.path.split(sett["data_dir"][db_version])[0], "custom_data")
# Use mako to render index.html
body = lookup.get_template("index.mako").render(
paths=paths,
default_background=paths.get_backgrounds_combo(
organism, custom_dir),
custom_gfs=paths.get_custom_gfs(organism, custom_dir),
demo_snps=paths.get_custom_fois(organism, custom_dir),
data_dir=os.path.join(sett["data_dir"][db_version], organism),
default_organism=organism,
database_versions=html_dbversion,
pct_scores=paths.get_scores(
os.path.split(sett["data_dir"][db_version])[0]))
script = lookup.get_template("index.js").render(
default_organism=organism)
self._index_html[organism] = tmpl.render(body=body, script=script)
return self._index_html[organism]
def index(self,organism=None,db_version=None):
if not organism: organism = sett["default_organism"]
if DEBUG_MODE or not organism in self._index_html:
tmpl = lookup.get_template("master.mako")
paths = PathNode()
paths.name = "Root"
[html_dbversion, db_version] = grsnp_path.get_database_versions_html(sett["data_dir"],db_version)
paths.organisms = self.get_org(db_version)
# Check if the organism actually exists in the current database.
# If it is not, select the default organism
if not organism in paths.organisms:
organism = sett["default_organism"]
custom_dir = os.path.join(os.path.split(sett["data_dir"][db_version])[0],"custom_data")
# Use mako to render index.html
body = lookup.get_template("index.mako").render(paths=paths,default_background=paths.get_backgrounds_combo(organism,custom_dir),
custom_gfs=paths.get_custom_gfs(organism,custom_dir),demo_snps=paths.get_custom_fois(organism,custom_dir),
data_dir=os.path.join(sett["data_dir"][db_version],organism),default_organism=organism,
database_versions=html_dbversion,pct_scores=paths.get_scores(os.path.split(sett["data_dir"][db_version])[0]))
script = lookup.get_template("index.js").render(default_organism=organism)
self._index_html[organism] = tmpl.render(body=body,script=script)
return self._index_html[organism]
