From 9d4717384aaa1adf0ce4b717dd5be806a1ba1a5d Mon Sep 17 00:00:00 2001
From: zsloan
Date: Thu, 15 Aug 2019 17:29:01 -0500
Subject: LOD searches should now also work

---
 wqflask/wqflask/do_search.py      | 31 ++++++++++++++++++++++++-------
 wqflask/wqflask/search_results.py |  1 +
 2 files changed, 25 insertions(+), 7 deletions(-)

diff --git a/wqflask/wqflask/do_search.py b/wqflask/wqflask/do_search.py
index c4c303fe..2eac4bb3 100644
--- a/wqflask/wqflask/do_search.py
+++ b/wqflask/wqflask/do_search.py
@@ -22,12 +22,13 @@ class DoSearch(object):
     # Used to translate search phrases into classes
     search_types = dict()
 
-    def __init__(self, search_term, search_operator=None, dataset=None):
+    def __init__(self, search_term, search_operator=None, dataset=None, search_type=None):
         self.search_term = search_term
         # Make sure search_operator is something we expect
         assert search_operator in (None, "=", "<", ">", "<=", ">="), "Bad search operator"
         self.search_operator = search_operator
         self.dataset = dataset
+        self.search_type = search_type
 
         if self.dataset:
             logger.debug("self.dataset is boo: ", type(self.dataset), pf(self.dataset))
@@ -444,7 +445,8 @@ class LrsSearch(DoSearch):
 
     """
 
-    DoSearch.search_types['LRS'] = 'LrsSearch'
+    for search_key in ('LRS', 'LOD'):
+        DoSearch.search_types[search_key] = "LrsSearch"
 
     def get_from_clause(self):
         #If the user typed, for example "Chr4", the "Chr" substring needs to be removed so that all search elements can be converted to floats
@@ -465,6 +467,9 @@ class LrsSearch(DoSearch):
         if self.search_operator == "=":
             assert isinstance(self.search_term, (list, tuple))
             lrs_min, lrs_max = self.search_term[:2]
+            if self.search_type == "LOD":
+                lrs_min = lrs_min*4.61
+                lrs_max = lrs_max*4.61
 
             where_clause = """ %sXRef.LRS > %s and
                              %sXRef.LRS < %s """ % self.mescape(self.dataset.type,
@@ -489,6 +494,10 @@ class LrsSearch(DoSearch):
         else:
             # Deal with >, <, >=, and <=
             logger.debug("self.search_term is:", self.search_term)
+            lrs_val = self.search_term[0]
+            if self.search_type == "LOD":
+                lrs_val = lrs_val*4.61
+
             where_clause = """ %sXRef.LRS %s %s """ % self.mescape(self.dataset.type,
                                                                         self.search_operator,
                                                                         self.search_term[0])
@@ -505,9 +514,11 @@ class LrsSearch(DoSearch):
 
         return self.execute(self.query)
 
+
 class MrnaLrsSearch(LrsSearch, MrnaAssaySearch):
 
-    DoSearch.search_types['ProbeSet_LRS'] = 'MrnaLrsSearch'
+    for search_key in ('LRS', 'LOD'):
+        DoSearch.search_types['ProbeSet_' + search_key] = "MrnaLrsSearch"
 
     def run(self):
 
@@ -520,7 +531,8 @@ class MrnaLrsSearch(LrsSearch, MrnaAssaySearch):
 
 class PhenotypeLrsSearch(LrsSearch, PhenotypeSearch):
 
-    DoSearch.search_types['Publish_LRS'] = 'PhenotypeLrsSearch'
+    for search_key in ('LRS', 'LOD'):
+        DoSearch.search_types['Publish_' + search_key] = "PhenotypeLrsSearch"
 
     def run(self):
 
@@ -532,7 +544,6 @@ class PhenotypeLrsSearch(LrsSearch, PhenotypeSearch):
         return self.execute(self.query)
 
 
-
 class CisTransLrsSearch(DoSearch):
 
     def get_from_clause(self):
@@ -557,6 +568,10 @@ class CisTransLrsSearch(DoSearch):
             else:
                 SomeError
 
+            if self.search_type == "CISLOD" or self.search_type == "TRANSLOD":
+                lrs_min = lrs_min * 4.61
+                lrs_max = lrs_max * 4.61
+
             sub_clause = """ %sXRef.LRS > %s and
                 %sXRef.LRS < %s  and """  % (
                     escape(self.dataset.type),
@@ -619,7 +634,8 @@ class CisLrsSearch(CisTransLrsSearch, MrnaAssaySearch):
 
     """
 
-    DoSearch.search_types['ProbeSet_CISLRS'] = 'CisLrsSearch'
+    for search_key in ('LRS', 'LOD'):
+        DoSearch.search_types['ProbeSet_CIS'+search_key] = "CisLrsSearch"
 
     def get_where_clause(self):
         return CisTransLrsSearch.get_where_clause(self, "cis")
@@ -648,7 +664,8 @@ class TransLrsSearch(CisTransLrsSearch, MrnaAssaySearch):
 
     """
 
-    DoSearch.search_types['ProbeSet_TRANSLRS'] = 'TransLrsSearch'
+    for search_key in ('LRS', 'LOD'):
+        DoSearch.search_types['ProbeSet_TRANS'+search_key] = "TransLrsSearch"
 
     def get_where_clause(self):
         return CisTransLrsSearch.get_where_clause(self, "trans")
diff --git a/wqflask/wqflask/search_results.py b/wqflask/wqflask/search_results.py
index e74fef80..be06b390 100644
--- a/wqflask/wqflask/search_results.py
+++ b/wqflask/wqflask/search_results.py
@@ -228,6 +228,7 @@ views.py).
             the_search = search_class(search_term,
                                     search_operator,
                                     self.dataset,
+                                    search_type['key']
                                     )
             return the_search
         else:
-- 
cgit v1.2.3