Change seeds in other projects that use PR, RT and INT (issue #285).

Also remove unused region references.
cfe-lab · Jul 21, 2016 · d18538e · d18538e
1 parent ece5fdd
commit d18538e
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Showing 3 changed files with 4,547 additions and 13,663 deletions.
diff --git a/micall/monitor/projects_dump.py b/micall/monitor/projects_dump.py
@@ -58,6 +58,7 @@ def dump_json(json_object, filename):
 
 def main():
     dump = {}
+    used_regions = set()
     with qai_helper.Session() as session:
         session.login(settings.qai_project_path,
                       settings.qai_project_user,
@@ -71,10 +72,16 @@ def main():
             retries=0)
         for project in dump['projects'].itervalues():
             project['regions'].sort()
+            for region in project['regions']:
+                used_regions.add(region['coordinate_region'])
+                used_regions.update(region['seed_region_names'])
         errors = dump['projects'].get('errors')
         if errors:
             raise StandardError('\n'.join(errors))
         check_key_positions(dump['projects'], sys.stdout)
+    dump['regions'] = {key: value
+                       for key, value in dump['regions'].iteritems()
+                       if key in used_regions}
 
     dump_scoring = deepcopy(dump)
     for project in dump['projects'].itervalues():

diff --git a/micall/project_scoring.json b/micall/project_scoring.json
@@ -2528,7 +2528,7 @@
           "min_coverage2": 50,
           "min_coverage3": 100,
           "seed_region_names": [
-            "INT-seed"
+            "HIV1B-pol-seed"
           ]
         }
       ]
@@ -2993,7 +2993,7 @@
           "min_coverage2": 50,
           "min_coverage3": 100,
           "seed_region_names": [
-            "RT-seed"
+            "HIV1B-pol-seed"
           ]
         }
       ]
@@ -3074,7 +3074,7 @@
           "min_coverage2": 50,
           "min_coverage3": 100,
           "seed_region_names": [
-            "PR-seed"
+            "HIV1B-pol-seed"
           ]
         },
         {
@@ -3206,7 +3206,7 @@
           "min_coverage2": 50,
           "min_coverage3": 100,
           "seed_region_names": [
-            "RT-seed"
+            "HIV1B-pol-seed"
           ]
         }
       ]
@@ -3343,7 +3343,7 @@
           "min_coverage2": 50,
           "min_coverage3": 100,
           "seed_region_names": [
-            "RT-seed"
+            "HIV1B-pol-seed"
           ]
         }
       ]