Update tests fix

Fix migration init_db 'id'
Handle app context when needed
Fix conftest fixtures
Rearrange test Dockerfiles
Hide DeprecationWarning during pytest execution
Upgrade all python packages

migrations/env.py

@@ -1,8 +1,13 @@
 from __future__ import with_statement
-from alembic import context
-from sqlalchemy import engine_from_config, pool
-from logging.config import fileConfig
+
 import logging
+from logging.config import fileConfig
+
+from sqlalchemy import engine_from_config
+from sqlalchemy import pool
+from flask import current_app
+
+from alembic import context
 
 # this is the Alembic Config object, which provides
 # access to the values within the .ini file in use.
@@ -17,9 +22,9 @@ logger = logging.getLogger('alembic.env')
 # for 'autogenerate' support
 # from myapp import mymodel
 # target_metadata = mymodel.Base.metadata
-from flask import current_app
-config.set_main_option('sqlalchemy.url',
-                       current_app.config.get('SQLALCHEMY_DATABASE_URI').replace("%","%%"))
+config.set_main_option(
+    'sqlalchemy.url',
+    str(current_app.extensions['migrate'].db.engine.url).replace('%', '%%'))
 target_metadata = current_app.extensions['migrate'].db.metadata
 
 # other values from the config, defined by the needs of env.py,
@@ -41,7 +46,9 @@ def run_migrations_offline():
 
     """
     url = config.get_main_option("sqlalchemy.url")
-    context.configure(url=url)
+    context.configure(
+        url=url, target_metadata=target_metadata, literal_binds=True
+    )
 
     with context.begin_transaction():
         context.run_migrations()
@@ -65,22 +72,23 @@ def run_migrations_online():
                 directives[:] = []
                 logger.info('No changes in schema detected.')
 
-    engine = engine_from_config(config.get_section(config.config_ini_section),
-                                prefix='sqlalchemy.',
-                                poolclass=pool.NullPool)
+    connectable = engine_from_config(
+        config.get_section(config.config_ini_section),
+        prefix='sqlalchemy.',
+        poolclass=pool.NullPool,
+    )
 
-    connection = engine.connect()
-    context.configure(connection=connection,
-                      target_metadata=target_metadata,
-                      process_revision_directives=process_revision_directives,
-                      render_as_batch=config.get_main_option('sqlalchemy.url').startswith('sqlite:'),
-                      **current_app.extensions['migrate'].configure_args)
+    with connectable.connect() as connection:
+        context.configure(
+            connection=connection,
+            target_metadata=target_metadata,
+            process_revision_directives=process_revision_directives,
+            **current_app.extensions['migrate'].configure_args
+        )
 
-    try:
         with context.begin_transaction():
             context.run_migrations()
-    finally:
-        connection.close()
+
 
 if context.is_offline_mode():
     run_migrations_offline()

migrations/versions/787bdba9e147_init_db.py

@@ -56,9 +56,9 @@ def seed_data():
 
     op.bulk_insert(template_table,
         [
-            {id: 1, 'name': 'basic_template_1', 'description': 'Basic Template #1'},
-            {id: 2, 'name': 'basic_template_2', 'description': 'Basic Template #2'},
-            {id: 3, 'name': 'basic_template_3', 'description': 'Basic Template #3'}
+            {'id': 1, 'name': 'basic_template_1', 'description': 'Basic Template #1'},
+            {'id': 2, 'name': 'basic_template_2', 'description': 'Basic Template #2'},
+            {'id': 3, 'name': 'basic_template_3', 'description': 'Basic Template #3'}
         ]
     )