diff options
Diffstat (limited to 'wqflask')
-rw-r--r-- | wqflask/base/data_set.py | 62 |
1 files changed, 59 insertions, 3 deletions
diff --git a/wqflask/base/data_set.py b/wqflask/base/data_set.py index ebf3f021..fae62875 100644 --- a/wqflask/base/data_set.py +++ b/wqflask/base/data_set.py @@ -67,7 +67,6 @@ DS_NAME_MAP = {} def create_dataset(dataset_name, rebuild=True, dataset_type = None, get_samplelist = True, group_name = None): if not dataset_type: dataset_type = Dataset_Getter(dataset_name) - logger.debug("dataset_type", dataset_type) dataset_ob = DS_NAME_MAP[dataset_type] dataset_class = globals()[dataset_ob] @@ -96,7 +95,6 @@ Publish or ProbeSet. E.g. self.datasets = {} if rebuild: #ZS: May make this the only option data = json.loads(requests.get("http://gn2.genenetwork.org/api/v_pre1/gen_dropdown").content) - logger.debug("THE DATA:", data) #data = gen_menu.gen_dropdown_json() else: file_name = "wqflask/static/new/javascript/dataset_menu_structure.json" @@ -120,7 +118,65 @@ Publish or ProbeSet. E.g. logger.debugf(5, "datasets",self.datasets) def __call__(self, name): - return self.datasets[name] + if name not in self.datasets: + mrna_expr_query = """ + SELECT + ProbeSetFreeze.Id + FROM + ProbeSetFreeze + WHERE + ProbeSetFreeze.Name = "{0}" + """.format(name) + + results = g.db.execute(geno_query).fetchall() + if len(results): + self.datasets[name] = "ProbeSet" + return self.datasets[name] + + group_name = name.replace("Publish", "") + + pheno_query = """SELECT InfoFiles.GN_AccesionId + FROM InfoFiles, PublishFreeze, InbredSet + WHERE InbredSet.Name = '{0}' AND + PublishFreeze.InbredSetId = InbredSet.Id AND + InfoFiles.InfoPageName = PublishFreeze.Name""".format(group_name) + + results = g.db.execute(pheno_query).fetchall() + if len(results): + self.datasets[name] = "Publish" + return self.datasets[name] + + #ZS: For when there isn't an InfoFiles ID; not sure if this and the preceding query are both necessary + other_pheno_query = """SELECT PublishFreeze.Name + FROM PublishFreeze, InbredSet + WHERE InbredSet.Name = '{}' AND + PublishFreeze.InbredSetId = InbredSet.Id""".format(group_name) + + results = g.db.execute(other_pheno_query).fetchall() + if len(results): + self.datasets[name] = "Publish" + return self.datasets[name] + + geno_query = """ + SELECT + GenoFreezeId + FROM + GenoFreeze + WHERE + GenoFreeze.Name = "{0}" + {1} + """.format(name) + + results = g.db.execute(geno_query).fetchall() + if len(results): + self.datasets[name] = "Geno" + return self.datasets[name] + + #ZS: It shouldn't ever reach this + return None + + else: + return self.datasets[name] # Do the intensive work at startup one time only Dataset_Getter = Dataset_Types() |