created CDM version 4 Oracle ctl files and batch file

Version4/Oracle/VocabImport/OMOP CDM vocabulary load - Oracle.bat

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+/*********************************************************************************
+# Copyright 2015 Observational Health Data Sciences and Informatics
+#
+# 
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+# 
+#     http://www.apache.org/licenses/LICENSE-2.0
+# 
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.4
+********************************************************************************/
+
+/************************
+
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+ #     # #     # #     # #          #       #     # #     #    #    #     #         # 
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+                                                                              
+
+script to load the Vocabulary related tables in the OMOP common data model, version 4.5 for Oracle database
+
+last revised: 19 Mar 2015
+
+author:  Lee Evans
+
+Notes
+
+1) This script assumes the CDM version 4.5 vocabulary zip file has been unzipped into the "C:\CDM" directory. 
+2) If you unzipped your CDM version 4.5 vocabulary files into a different directory then replace all file paths below, with your directory path.
+3) If you have existing data in your CDM vocabulary tables then backup that data (if needed) and truncate those tables before loading
+
+
+*************************/
+
+sqlldr CDM/<password> CONTROL=CONCEPT.ctl LOG=C:\CDM\CONCEPT.log BAD=C:\CDM\CONCEPT.bad  
+sqlldr CDM/<password> CONTROL=CONCEPT_ANCESTOR.ctl LOG=C:\CDM\CONCEPT_ANCESTOR.log BAD=C:\CDM\CONCEPT_ANCESTOR.bad  
+sqlldr CDM/<password> CONTROL=CONCEPT_RELATIONSHIP.ctl LOG=C:\CDM\CONCEPT_RELATIONSHIP.log BAD=C:\CDM\CONCEPT_RELATIONSHIP.bad
+sqlldr CDM/<password> CONTROL=CONCEPT_SYNONYM.ctl LOG=C:\CDM\CONCEPT_SYNONYM.log BAD=C:\CDM\CONCEPT_SYNONYM.bad
+sqlldr CDM/<password> CONTROL=DRUG_STRENGTH.ctl LOG=C:\CDM\DRUG_STRENGTH.log BAD=C:\CDM\DRUG_STRENGTH.bad
+sqlldr CDM/<password> CONTROL=RELATIONSHIP.ctl LOG=C:\CDM\RELATIONSHIP.log BAD=C:\CDM\RELATIONSHIP.bad
+sqlldr CDM/<password> CONTROL=VOCABULARY.ctl LOG=C:\CDM\VOCABULARY.log BAD=C:\CDM\VOCABULARY.bad 
+sqlldr CDM/<password> CONTROL=SOURCE_TO_CONCEPT_MAP.ctl LOG=C:\CDM\SOURCE_TO_CONCEPT_MAP.log BAD=C:\CDM\SOURCE_TO_CONCEPT_MAP.bad 

Version4/Oracle/VocabImport/concept.ctl

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+options (skip=1)
+load data
+infile concept.csv 
+into table concept
+replace
+fields terminated by '\t'
+trailing nullcols
+(
+  concept_id,
+  concept_name,
+  concept_level,
+  concept_class,
+  vocabulary_id,
+  concept_code,
+  valid_start_date DATE 'YYYYMMDD',
+  valid_end_date DATE 'YYYYMMDD',
+  invalid_reason
+)

Version4/Oracle/VocabImport/concept_ancestor.ctl

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+options (skip=1)
+load data
+infile concept_ancestor.csv 
+into table concept_ancestor
+replace
+fields terminated by '\t'
+trailing nullcols
+(
+  ancestor_concept_id,
+  descendant_concept_id,
+  min_levels_of_separation,
+  max_levels_of_separation	
+)

Version4/Oracle/VocabImport/concept_relationship.ctl

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+options (skip=1)
+load data
+infile concept_relationship.csv 
+into table concept_relationship
+replace
+fields terminated by '\t'
+trailing nullcols
+(
+  concept_id_1,
+  concept_id_2,
+  relationship_id,
+  valid_start_date DATE 'YYYYMMDD',
+  valid_end_date DATE 'YYYYMMDD',
+  invalid_reason
+)

Version4/Oracle/VocabImport/concept_synonym.ctl

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+options (skip=1)
+load data
+infile concept_synonym.csv 
+into table concept_synonym
+replace
+fields terminated by '\t'
+trailing nullcols
+(
+  concept_synonym_id,
+  concept_id,
+  concept_synonym_name CHAR(1000)
+)

Version4/Oracle/VocabImport/drug_strength.ctl

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+options (skip=1)
+load data
+infile drug_strength.csv 
+into table drug_strength
+replace
+fields terminated by '\t'
+trailing nullcols
+(
+  drug_concept_id,
+  ingredient_concept_id,
+  amount_value,
+  amount_unit,
+  concentration_value,
+  concentration_enum_unit,
+  concentration_denom_unit,
+  valid_start_date DATE 'YYYYMMDD',
+  valid_end_date DATE 'YYYYMMDD',
+  invalid_reason
+)

Version4/Oracle/VocabImport/relationship.ctl

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+options (skip=1)
+load data
+infile relationship.csv 
+into table relationship
+replace
+fields terminated by '\t'
+trailing nullcols
+(
+  relationship_id,
+  relationship_name,
+  is_hierarchical,
+  defines_ancestry,
+  reverse_relationship
+)

Version4/Oracle/VocabImport/source_to_concept_map.ctl

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+options (skip=1)
+load data
+infile source_to_concept_map.csv 
+into table source_to_concept_map
+replace
+fields terminated by '\t'
+trailing nullcols
+(
+  source_code,
+  source_vocabulary_id,
+  source_code_description,
+  target_concept_id,
+  target_vocabulary_id,
+  mapping_type,
+  primary_map,
+  valid_start_date DATE 'YYYYMMDD',
+  valid_end_date DATE 'YYYYMMDD',
+  invalid_reason
+)

Version4/Oracle/VocabImport/vocabulary.ctl

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+options (skip=1)
+load data
+infile vocabulary.csv 
+into table vocabulary
+replace
+fields terminated by '\t'
+trailing nullcols
+(
+  vocabulary_id,
+  vocabulary_name
+)