diff --git a/dataduct/etl/etl_pipeline.py b/dataduct/etl/etl_pipeline.py
index 67a1c5b..32b62fc 100644
--- a/dataduct/etl/etl_pipeline.py
+++ b/dataduct/etl/etl_pipeline.py
@@ -294,17 +294,11 @@ def emr_cluster(self):
             # Process the boostrap input
             bootstrap = self.emr_cluster_config.get('bootstrap', None)
             if bootstrap:
-                if isinstance(bootstrap, dict):
-                    # If bootstrap script is not a path to local file
-                    param_type = bootstrap['type']
-                    bootstrap = bootstrap['value']
-                else:
-                    # Default the type to path of a local file
-                    param_type = 'path'
-
-                if param_type == 'path':
-                    bootstrap = S3File(path=bootstrap)
+                if 'string' in bootstrap:
+                    bootstrap = bootstrap['string']
+                elif 'script' in bootstrap:
                     # Set the S3 Path for the bootstrap script
+                    bootstrap = S3File(path=bootstrap)
                     bootstrap.s3_path = self.s3_source_dir
                 self.emr_cluster_config['bootstrap'] = bootstrap
 
diff --git a/dataduct/steps/count_check.py b/dataduct/steps/count_check.py
index 7a792b7..1977a05 100644
--- a/dataduct/steps/count_check.py
+++ b/dataduct/steps/count_check.py
@@ -23,7 +23,7 @@ class CountCheckStep(QATransformStep):
     def __init__(self, id, source_host, source_sql=None, source_table_name=None,
                  destination_table_name=None, destination_table_definition=None,
                  destination_sql=None, tolerance=1.0, script_arguments=None,
-                 log_to_s3=False, script=None, **kwargs):
+                 log_to_s3=False, script=None, source_count_sql=None, **kwargs):
         """Constructor for the CountCheckStep class
 
         Args:
@@ -37,9 +37,9 @@ def __init__(self, id, source_host, source_sql=None, source_table_name=None,
             raise ETLInputError(
                 'One of dest table name/schema or dest sql needed')
 
-        if not exactly_one(source_sql, source_table_name):
+        if not exactly_one(source_sql, source_table_name, source_count_sql):
             raise ETLInputError(
-                'One of source table name or source sql needed')
+                'One of source table name or source sql or source count needed')
 
         if script_arguments is None:
             script_arguments = list()
@@ -55,7 +55,7 @@ def __init__(self, id, source_host, source_sql=None, source_table_name=None,
             destination_table_name, destination_sql)
 
         src_sql = self.convert_source_to_count_sql(
-            source_table_name, source_sql)
+            source_table_name, source_sql, source_count_sql)
 
         script_arguments.extend([
             '--tolerance=%s' % str(tolerance),
@@ -89,11 +89,14 @@ def convert_destination_to_count_sql(destination_table_name=None,
 
     @staticmethod
     def convert_source_to_count_sql(source_table_name=None,
-                                    source_sql=None):
+                                    source_sql=None,
+                                    source_count_sql=None):
         """Convert the source query into generic structure to compare
         """
         if source_table_name is not None:
             source_sql = "SELECT COUNT(1) FROM %s" % source_table_name
+        elif source_count_sql is not None:
+            source_sql = source_count_sql
         else:
             origin_sql = SqlStatement(source_sql)
             source_sql = "SELECT COUNT(1) FROM (%s)a" % origin_sql.sql()
diff --git a/dataduct/steps/transform.py b/dataduct/steps/transform.py
index 832516b..5537fce 100644
--- a/dataduct/steps/transform.py
+++ b/dataduct/steps/transform.py
@@ -99,6 +99,7 @@ def __init__(self,
         else:
             self._output = base_output_node
 
+        logger.debug('Script Arguments:')
         logger.debug(script_arguments)
 
         self.create_pipeline_object(