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Standardize and improve format across models
Across all models, files are redistributed into table directories, field-type-specific attributes are added where needed, some field attributes are tweaked based on generated-DDL testing, one i2b2_pedsnet reference is tweaked based on generated-DDL testing, the i2b2_pedsnet model is moved to the base directory, and model version numbers are standardized to [0-9].[0-9].[0-9] format. Fixes #125 Fixes #126 Signed-off-by: Aaron Browne <aaron0browne@gmail.com>
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Aaron Browne
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Feb 5, 2016
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,10 @@ | ||
| model,version,table,field,required,ref_table,ref_field,description | ||
| i2b2,1.7.0,concept_dimension,concept_blob,No,,, | ||
| i2b2,1.7.0,concept_dimension,concept_cd,No,,, | ||
| i2b2,1.7.0,concept_dimension,concept_path,Yes,,, | ||
| i2b2,1.7.0,concept_dimension,download_date,No,,, | ||
| i2b2,1.7.0,concept_dimension,import_date,No,,, | ||
| i2b2,1.7.0,concept_dimension,name_char,No,,, | ||
| i2b2,1.7.0,concept_dimension,sourcesystem_cd,No,,, | ||
| i2b2,1.7.0,concept_dimension,update_date,No,,, | ||
| i2b2,1.7.0,concept_dimension,upload_id,No,,, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,10 @@ | ||
| model,version,table,field,type,length,precision,scale,default | ||
| i2b2,1.7.0,concept_dimension,concept_blob,string,256,,, | ||
| i2b2,1.7.0,concept_dimension,concept_cd,string,50,,, | ||
| i2b2,1.7.0,concept_dimension,concept_path,string,700,,, | ||
| i2b2,1.7.0,concept_dimension,download_date,datetime,,,, | ||
| i2b2,1.7.0,concept_dimension,import_date,datetime,,,, | ||
| i2b2,1.7.0,concept_dimension,name_char,string,2000,,, | ||
| i2b2,1.7.0,concept_dimension,sourcesystem_cd,string,50,,, | ||
| i2b2,1.7.0,concept_dimension,update_date,datetime,,,, | ||
| i2b2,1.7.0,concept_dimension,upload_id,number,,38,5, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,26 @@ | ||
| model,version,table,field,required,ref_table,ref_field,description | ||
| i2b2,1.7.0,i2b2,c_basecode,No,,, | ||
| i2b2,1.7.0,i2b2,c_columndatatype,No,,, | ||
| i2b2,1.7.0,i2b2,c_columnname,No,,, | ||
| i2b2,1.7.0,i2b2,c_comment,No,,, | ||
| i2b2,1.7.0,i2b2,c_dimcode,No,,, | ||
| i2b2,1.7.0,i2b2,c_facttablecolumn,No,,, | ||
| i2b2,1.7.0,i2b2,c_fullname,No,,, | ||
| i2b2,1.7.0,i2b2,c_hlevel,No,,, | ||
| i2b2,1.7.0,i2b2,c_metadataxml,No,,, | ||
| i2b2,1.7.0,i2b2,c_name,No,,, | ||
| i2b2,1.7.0,i2b2,c_operator,No,,, | ||
| i2b2,1.7.0,i2b2,c_path,No,,, | ||
| i2b2,1.7.0,i2b2,c_symbol,No,,, | ||
| i2b2,1.7.0,i2b2,c_synonym_cd,No,,, | ||
| i2b2,1.7.0,i2b2,c_tablename,No,,, | ||
| i2b2,1.7.0,i2b2,c_tooltip,No,,, | ||
| i2b2,1.7.0,i2b2,c_totalnum,No,,, | ||
| i2b2,1.7.0,i2b2,c_visualattributes,No,,, | ||
| i2b2,1.7.0,i2b2,download_date,No,,, | ||
| i2b2,1.7.0,i2b2,import_date,No,,, | ||
| i2b2,1.7.0,i2b2,m_applied_path,No,,, | ||
| i2b2,1.7.0,i2b2,m_exclusion_cd,No,,, | ||
| i2b2,1.7.0,i2b2,sourcesystem_cd,No,,, | ||
| i2b2,1.7.0,i2b2,update_date,No,,, | ||
| i2b2,1.7.0,i2b2,valuetype_cd,No,,, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,26 @@ | ||
| model,version,table,field,type,length,precision,scale,default | ||
| i2b2,1.7.0,i2b2,c_basecode,string,50,,, | ||
| i2b2,1.7.0,i2b2,c_columndatatype,string,50,,, | ||
| i2b2,1.7.0,i2b2,c_columnname,string,50,,, | ||
| i2b2,1.7.0,i2b2,c_comment,string,256,,, | ||
| i2b2,1.7.0,i2b2,c_dimcode,string,700,,, | ||
| i2b2,1.7.0,i2b2,c_facttablecolumn,string,950,,, | ||
| i2b2,1.7.0,i2b2,c_fullname,string,700,,, | ||
| i2b2,1.7.0,i2b2,c_hlevel,number,,22,5, | ||
| i2b2,1.7.0,i2b2,c_metadataxml,string,256,,, | ||
| i2b2,1.7.0,i2b2,c_name,string,700,,, | ||
| i2b2,1.7.0,i2b2,c_operator,string,10,,, | ||
| i2b2,1.7.0,i2b2,c_path,string,700,,, | ||
| i2b2,1.7.0,i2b2,c_symbol,string,50,,, | ||
| i2b2,1.7.0,i2b2,c_synonym_cd,string,1,,, | ||
| i2b2,1.7.0,i2b2,c_tablename,string,50,,, | ||
| i2b2,1.7.0,i2b2,c_tooltip,string,900,,, | ||
| i2b2,1.7.0,i2b2,c_totalnum,number,,22,5, | ||
| i2b2,1.7.0,i2b2,c_visualattributes,string,3,,, | ||
| i2b2,1.7.0,i2b2,download_date,datetime,,,, | ||
| i2b2,1.7.0,i2b2,import_date,datetime,,,, | ||
| i2b2,1.7.0,i2b2,m_applied_path,string,700,,, | ||
| i2b2,1.7.0,i2b2,m_exclusion_cd,string,25,,, | ||
| i2b2,1.7.0,i2b2,sourcesystem_cd,string,50,,, | ||
| i2b2,1.7.0,i2b2,update_date,datetime,,,, | ||
| i2b2,1.7.0,i2b2,valuetype_cd,string,50,,, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,2 @@ | ||
| model,version,release_level,release_serial,label,url,description | ||
| i2b2,1.7.0,beta,2,i2b2,http://i2b2.org, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,23 @@ | ||
| model,version,table,field,required,ref_table,ref_field,description | ||
| i2b2,1.7.0,observation_fact,concept_cd,Yes,concept_dimension,concept_cd, | ||
| i2b2,1.7.0,observation_fact,confidence_num,No,,, | ||
| i2b2,1.7.0,observation_fact,download_date,No,,, | ||
| i2b2,1.7.0,observation_fact,encounter_num,Yes,visit_dimension,encounter_num, | ||
| i2b2,1.7.0,observation_fact,end_date,No,,, | ||
| i2b2,1.7.0,observation_fact,import_date,No,,, | ||
| i2b2,1.7.0,observation_fact,instance_num,Yes,,, | ||
| i2b2,1.7.0,observation_fact,location_cd,No,,, | ||
| i2b2,1.7.0,observation_fact,modifier_cd,Yes,,, | ||
| i2b2,1.7.0,observation_fact,nval_num,No,,, | ||
| i2b2,1.7.0,observation_fact,observation_blob,No,,, | ||
| i2b2,1.7.0,observation_fact,patient_num,Yes,patient_dimension,patient_num, | ||
| i2b2,1.7.0,observation_fact,provider_id,Yes,provider_dimension,provider_id, | ||
| i2b2,1.7.0,observation_fact,quantity_num,No,,, | ||
| i2b2,1.7.0,observation_fact,sourcesystem_cd,No,,, | ||
| i2b2,1.7.0,observation_fact,start_date,Yes,,, | ||
| i2b2,1.7.0,observation_fact,tval_char,No,,, | ||
| i2b2,1.7.0,observation_fact,units_cd,No,,, | ||
| i2b2,1.7.0,observation_fact,update_date,No,,, | ||
| i2b2,1.7.0,observation_fact,upload_id,No,,, | ||
| i2b2,1.7.0,observation_fact,valtype_cd,No,,, | ||
| i2b2,1.7.0,observation_fact,valueflag_cd,No,,, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,23 @@ | ||
| model,version,table,field,type,length,precision,scale,default | ||
| i2b2,1.7.0,observation_fact,concept_cd,string,50,,, | ||
| i2b2,1.7.0,observation_fact,confidence_num,number,,53,, | ||
| i2b2,1.7.0,observation_fact,download_date,datetime,,,, | ||
| i2b2,1.7.0,observation_fact,encounter_num,number,,38,5, | ||
| i2b2,1.7.0,observation_fact,end_date,datetime,,,, | ||
| i2b2,1.7.0,observation_fact,import_date,datetime,,,, | ||
| i2b2,1.7.0,observation_fact,instance_num,number,,18,5, | ||
| i2b2,1.7.0,observation_fact,location_cd,string,50,,, | ||
| i2b2,1.7.0,observation_fact,modifier_cd,string,100,,, | ||
| i2b2,1.7.0,observation_fact,nval_num,number,,53,, | ||
| i2b2,1.7.0,observation_fact,observation_blob,string,256,,, | ||
| i2b2,1.7.0,observation_fact,patient_num,number,,38,5, | ||
| i2b2,1.7.0,observation_fact,provider_id,string,50,,, | ||
| i2b2,1.7.0,observation_fact,quantity_num,number,,53,, | ||
| i2b2,1.7.0,observation_fact,sourcesystem_cd,string,50,,, | ||
| i2b2,1.7.0,observation_fact,start_date,datetime,,,, | ||
| i2b2,1.7.0,observation_fact,tval_char,string,255,,, | ||
| i2b2,1.7.0,observation_fact,units_cd,string,50,,, | ||
| i2b2,1.7.0,observation_fact,update_date,datetime,,,, | ||
| i2b2,1.7.0,observation_fact,upload_id,number,,38,5, | ||
| i2b2,1.7.0,observation_fact,valtype_cd,string,50,,, | ||
| i2b2,1.7.0,observation_fact,valueflag_cd,string,50,,, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,21 @@ | ||
| model,version,table,field,required,ref_table,ref_field,description | ||
| i2b2,1.7.0,patient_dimension,age_in_years_num,No,,, | ||
| i2b2,1.7.0,patient_dimension,birth_date,No,,, | ||
| i2b2,1.7.0,patient_dimension,death_date,No,,, | ||
| i2b2,1.7.0,patient_dimension,download_date,No,,, | ||
| i2b2,1.7.0,patient_dimension,ethnicity_cd,No,,, | ||
| i2b2,1.7.0,patient_dimension,import_date,No,,, | ||
| i2b2,1.7.0,patient_dimension,income_cd,No,,, | ||
| i2b2,1.7.0,patient_dimension,language_cd,No,,, | ||
| i2b2,1.7.0,patient_dimension,marital_status_cd,No,,, | ||
| i2b2,1.7.0,patient_dimension,patient_blob,No,,, | ||
| i2b2,1.7.0,patient_dimension,patient_num,Yes,,, | ||
| i2b2,1.7.0,patient_dimension,race_cd,No,,, | ||
| i2b2,1.7.0,patient_dimension,religion_cd,No,,, | ||
| i2b2,1.7.0,patient_dimension,sex_cd,No,,, | ||
| i2b2,1.7.0,patient_dimension,sourcesystem_cd,No,,, | ||
| i2b2,1.7.0,patient_dimension,statecityzip_path,No,,, | ||
| i2b2,1.7.0,patient_dimension,update_date,No,,, | ||
| i2b2,1.7.0,patient_dimension,upload_id,No,,, | ||
| i2b2,1.7.0,patient_dimension,vital_status_cd,No,,, | ||
| i2b2,1.7.0,patient_dimension,zip_cd,No,,, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,21 @@ | ||
| model,version,table,field,type,length,precision,scale,default | ||
| i2b2,1.7.0,patient_dimension,age_in_years_num,number,,38,5, | ||
| i2b2,1.7.0,patient_dimension,birth_date,datetime,,,, | ||
| i2b2,1.7.0,patient_dimension,death_date,datetime,,,, | ||
| i2b2,1.7.0,patient_dimension,download_date,datetime,,,, | ||
| i2b2,1.7.0,patient_dimension,ethnicity_cd,string,200,,, | ||
| i2b2,1.7.0,patient_dimension,import_date,datetime,,,, | ||
| i2b2,1.7.0,patient_dimension,income_cd,string,50,,, | ||
| i2b2,1.7.0,patient_dimension,language_cd,string,50,,, | ||
| i2b2,1.7.0,patient_dimension,marital_status_cd,string,50,,, | ||
| i2b2,1.7.0,patient_dimension,patient_blob,string,256,,, | ||
| i2b2,1.7.0,patient_dimension,patient_num,number,,38,5, | ||
| i2b2,1.7.0,patient_dimension,race_cd,string,50,,, | ||
| i2b2,1.7.0,patient_dimension,religion_cd,string,50,,, | ||
| i2b2,1.7.0,patient_dimension,sex_cd,string,50,,, | ||
| i2b2,1.7.0,patient_dimension,sourcesystem_cd,string,50,,, | ||
| i2b2,1.7.0,patient_dimension,statecityzip_path,string,700,,, | ||
| i2b2,1.7.0,patient_dimension,update_date,datetime,,,, | ||
| i2b2,1.7.0,patient_dimension,upload_id,number,,38,5, | ||
| i2b2,1.7.0,patient_dimension,vital_status_cd,string,50,,, | ||
| i2b2,1.7.0,patient_dimension,zip_cd,string,50,,, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,10 @@ | ||
| model,version,table,field,required,ref_table,ref_field,description | ||
| i2b2,1.7.0,provider_dimension,download_date,No,,, | ||
| i2b2,1.7.0,provider_dimension,import_date,No,,, | ||
| i2b2,1.7.0,provider_dimension,name_char,No,,, | ||
| i2b2,1.7.0,provider_dimension,provider_blob,No,,, | ||
| i2b2,1.7.0,provider_dimension,provider_id,Yes,,, | ||
| i2b2,1.7.0,provider_dimension,provider_path,Yes,,, | ||
| i2b2,1.7.0,provider_dimension,sourcesystem_cd,No,,, | ||
| i2b2,1.7.0,provider_dimension,update_date,No,,, | ||
| i2b2,1.7.0,provider_dimension,upload_id,No,,, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,10 @@ | ||
| model,version,table,field,type,length,precision,scale,default | ||
| i2b2,1.7.0,provider_dimension,download_date,datetime,,,, | ||
| i2b2,1.7.0,provider_dimension,import_date,datetime,,,, | ||
| i2b2,1.7.0,provider_dimension,name_char,string,850,,, | ||
| i2b2,1.7.0,provider_dimension,provider_blob,string,256,,, | ||
| i2b2,1.7.0,provider_dimension,provider_id,string,50,,, | ||
| i2b2,1.7.0,provider_dimension,provider_path,string,700,,, | ||
| i2b2,1.7.0,provider_dimension,sourcesystem_cd,string,50,,, | ||
| i2b2,1.7.0,provider_dimension,update_date,datetime,,,, | ||
| i2b2,1.7.0,provider_dimension,upload_id,number,,38,5, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,7 @@ | ||
| model,version,table,description | ||
| i2b2,1.7.0,concept_dimension, | ||
| i2b2,1.7.0,observation_fact, | ||
| i2b2,1.7.0,patient_dimension, | ||
| i2b2,1.7.0,provider_dimension, | ||
| i2b2,1.7.0,visit_dimension, | ||
| i2b2,1.7.0,i2b2, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,16 @@ | ||
| model,version,table,field,required,ref_table,ref_field,description | ||
| i2b2,1.7.0,visit_dimension,active_status_cd,No,,, | ||
| i2b2,1.7.0,visit_dimension,download_date,No,,, | ||
| i2b2,1.7.0,visit_dimension,encounter_num,Yes,,, | ||
| i2b2,1.7.0,visit_dimension,end_date,No,,, | ||
| i2b2,1.7.0,visit_dimension,import_date,No,,, | ||
| i2b2,1.7.0,visit_dimension,inout_cd,No,,, | ||
| i2b2,1.7.0,visit_dimension,length_of_stay,No,,, | ||
| i2b2,1.7.0,visit_dimension,location_cd,No,,, | ||
| i2b2,1.7.0,visit_dimension,location_path,No,,, | ||
| i2b2,1.7.0,visit_dimension,patient_num,Yes,patient_dimension,patient_num, | ||
| i2b2,1.7.0,visit_dimension,sourcesystem_cd,No,,, | ||
| i2b2,1.7.0,visit_dimension,start_date,No,,, | ||
| i2b2,1.7.0,visit_dimension,update_date,No,,, | ||
| i2b2,1.7.0,visit_dimension,upload_id,No,,, | ||
| i2b2,1.7.0,visit_dimension,visit_blob,No,,, |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,16 @@ | ||
| model,version,table,field,type,length,precision,scale,default | ||
| i2b2,1.7.0,visit_dimension,active_status_cd,string,50,,, | ||
| i2b2,1.7.0,visit_dimension,download_date,datetime,,,, | ||
| i2b2,1.7.0,visit_dimension,encounter_num,number,,38,5, | ||
| i2b2,1.7.0,visit_dimension,end_date,datetime,,,, | ||
| i2b2,1.7.0,visit_dimension,import_date,datetime,,,, | ||
| i2b2,1.7.0,visit_dimension,inout_cd,string,50,,, | ||
| i2b2,1.7.0,visit_dimension,length_of_stay,number,,38,5, | ||
| i2b2,1.7.0,visit_dimension,location_cd,string,50,,, | ||
| i2b2,1.7.0,visit_dimension,location_path,string,900,,, | ||
| i2b2,1.7.0,visit_dimension,patient_num,number,,38,5, | ||
| i2b2,1.7.0,visit_dimension,sourcesystem_cd,string,50,,, | ||
| i2b2,1.7.0,visit_dimension,start_date,datetime,,,, | ||
| i2b2,1.7.0,visit_dimension,update_date,datetime,,,, | ||
| i2b2,1.7.0,visit_dimension,upload_id,number,,38,5, | ||
| i2b2,1.7.0,visit_dimension,visit_blob,string,256,,, |
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i2b2/i2b2_pedsnet/v2/data/definitions/concept_dimension.csv
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i2b2/i2b2_pedsnet/v2/data/definitions/observation_fact.csv
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i2b2/i2b2_pedsnet/v2/data/definitions/patient_dimension.csv
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i2b2/i2b2_pedsnet/v2/data/definitions/provider_dimension.csv
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