Change types to text and tiny text

hartwigmedical · Jul 31, 2019 · cf6ec7e · cf6ec7e
1 parent 53d4fe4
commit cf6ec7e
Showing 1 changed file with 135 additions and 135 deletions.
diff --git a/vicc-knowledgebase-importer/src/main/resources/database/create_vicc_database.sql b/vicc-knowledgebase-importer/src/main/resources/database/create_vicc_database.sql
@@ -456,72 +456,72 @@ CREATE TABLE cgiRegion
 CREATE TABLE brcaPart1
 (   id int NOT NULL AUTO_INCREMENT,
     viccEntryId int NOT NULL,
-    Variant_frequency_LOVD varchar(255) NOT NULL,
-    Allele_frequency_FIN_ExAC varchar(255) NOT NULL,
-    ClinVarAccession_ENIGMA varchar(255) NOT NULL,
-    Homozygous_count_AFR_ExAC varchar(255) NOT NULL,
-    BX_ID_ExAC varchar(255) NOT NULL,
-    Variant_in_LOVD varchar(255) NOT NULL,
-    Allele_frequency_AFR_ExAC varchar(255) NOT NULL,
-    DBID_LOVD varchar(255) NOT NULL,
-    Chr varchar(255) NOT NULL,
-    BX_ID_ENIGMA varchar(255) NOT NULL,
-    Co_occurrence_LR_exLOVD varchar(255) NOT NULL,
-    Homozygous_count_EAS_ExAC varchar(255) NOT NULL,
-    Submitter_ClinVar varchar(1500) NOT NULL,
-    Allele_frequency_EAS_ExAC varchar(255) NOT NULL,
-    Hg37_End varchar(255) NOT NULL,
-    Submitters_LOVD varchar(1000) NOT NULL,
-    Clinical_classification_BIC varchar(255) NOT NULL,
-    Homozygous_count_NFE_ExAC varchar(255) NOT NULL,
-    Allele_count_SAS_ExAC varchar(255) NOT NULL,
-    Method_ClinVar varchar(255) NOT NULL,
-    Allele_count_NFE_ExAC varchar(255) NOT NULL,
-    Pathogenicity_all varchar(255) NOT NULL,
-    Germline_or_Somatic_BIC varchar(255) NOT NULL,
-    Homozygous_count_SAS_ExAC varchar(255) NOT NULL,
-    BIC_Nomenclature varchar(255) NOT NULL,
-    Assertion_method_ENIGMA varchar(255) NOT NULL,
-    Literature_source_exLOVD varchar(255) NOT NULL,
-    Change_Type_id varchar(255) NOT NULL,
-    Collection_method_ENIGMA varchar(255) NOT NULL,
-    Sum_family_LR_exLOVD varchar(255) NOT NULL,
-    HGVS_cDNA_LOVD varchar(255) NOT NULL,
-    Homozygous_count_FIN_ExAC varchar(255) NOT NULL,
-    EAS_Allele_frequency_1000_Genomes varchar(255) NOT NULL,
-    Ethnicity_BIC varchar(2000) NOT NULL,
-    Individuals_LOVD varchar(255) NOT NULL,
-    Variant_in_ExAC varchar(255) NOT NULL,
-    URL_ENIGMA varchar(255) NOT NULL,
-    Allele_Origin_ClinVar varchar(255) NOT NULL,
-    Allele_frequency_AMR_ExAC varchar(255) NOT NULL,
-    Variant_in_1000_Genomes varchar(255) NOT NULL,
-    AFR_Allele_frequency_1000_Genomes varchar(255) NOT NULL,
-    BX_ID_exLOVD varchar(255) NOT NULL,
-    Source varchar(255) NOT NULL,
-    Condition_ID_value_ENIGMA varchar(255) NOT NULL,
-    HGVS_Protein varchar(255) NOT NULL,
-    Ref varchar(255) NOT NULL,
-    Allele_number_AFR_ExAC varchar(255) NOT NULL,
-    Allele_count_AFR_ExAC varchar(255) NOT NULL,
-    BX_ID_LOVD varchar(255) NOT NULL,
-    Synonyms varchar(1000) NOT NULL,
-    Gene_Symbol varchar(255) NOT NULL,
-    Comment_on_clinical_significance_ENIGMA varchar(500) NOT NULL,
-    Missense_analysis_prior_probability_exLOVD varchar(255) NOT NULL,
-    Allele_number_FIN_ExAC varchar(255) NOT NULL,
-    Posterior_probability_exLOVD varchar(255) NOT NULL,
-    Polyphen_Score varchar(255) NOT NULL,
-    Reference_Sequence varchar(255) NOT NULL,
-    Allele_count_EAS_ExAC varchar(255) NOT NULL,
-    Hg38_End varchar(255) NOT NULL,
-    HGVS_cDNA varchar(255) NOT NULL,
-    Functional_analysis_technique_LOVD varchar(255) NOT NULL,
-    SAS_Allele_frequency_1000_Genomes varchar(255) NOT NULL,
-    RNA_LOVD varchar(255) NOT NULL,
-    Combined_prior_probablility_exLOVD varchar(255) NOT NULL,
-    BX_ID_ClinVar varchar(255) NOT NULL,
-    IARC_class_exLOVD varchar(255) NOT NULL,
+    Variant_frequency_LOVD TINYTEXT NOT NULL,
+    Allele_frequency_FIN_ExAC TINYTEXT NOT NULL,
+    ClinVarAccession_ENIGMA TINYTEXT NOT NULL,
+    Homozygous_count_AFR_ExAC TINYTEXT NOT NULL,
+    BX_ID_ExAC TINYTEXT NOT NULL,
+    Variant_in_LOVD TINYTEXT NOT NULL,
+    Allele_frequency_AFR_ExAC TINYTEXT NOT NULL,
+    DBID_LOVD TINYTEXT NOT NULL,
+    Chr TINYTEXT NOT NULL,
+    BX_ID_ENIGMA TINYTEXT NOT NULL,
+    Co_occurrence_LR_exLOVD TINYTEXT NOT NULL,
+    Homozygous_count_EAS_ExAC TINYTEXT NOT NULL,
+    Submitter_ClinVar TEXT NOT NULL,
+    Allele_frequency_EAS_ExAC TINYTEXT NOT NULL,
+    Hg37_End TINYTEXT NOT NULL,
+    Submitters_LOVD TEXT NOT NULL,
+    Clinical_classification_BIC TINYTEXT NOT NULL,
+    Homozygous_count_NFE_ExAC TINYTEXT NOT NULL,
+    Allele_count_SAS_ExAC TINYTEXT NOT NULL,
+    Method_ClinVar TINYTEXT NOT NULL,
+    Allele_count_NFE_ExAC TINYTEXT NOT NULL,
+    Pathogenicity_all TINYTEXT NOT NULL,
+    Germline_or_Somatic_BIC TINYTEXT NOT NULL,
+    Homozygous_count_SAS_ExAC TINYTEXT NOT NULL,
+    BIC_Nomenclature TINYTEXT NOT NULL,
+    Assertion_method_ENIGMA TINYTEXT NOT NULL,
+    Literature_source_exLOVD TINYTEXT NOT NULL,
+    Change_Type_id TINYTEXT NOT NULL,
+    Collection_method_ENIGMA TINYTEXT NOT NULL,
+    Sum_family_LR_exLOVD TINYTEXT NOT NULL,
+    HGVS_cDNA_LOVD TINYTEXT NOT NULL,
+    Homozygous_count_FIN_ExAC TINYTEXT NOT NULL,
+    EAS_Allele_frequency_1000_Genomes TINYTEXT NOT NULL,
+    Ethnicity_BIC TEXT NOT NULL,
+    Individuals_LOVD TINYTEXT NOT NULL,
+    Variant_in_ExAC TINYTEXT NOT NULL,
+    URL_ENIGMA TINYTEXT NOT NULL,
+    Allele_Origin_ClinVar TINYTEXT NOT NULL,
+    Allele_frequency_AMR_ExAC TINYTEXT NOT NULL,
+    Variant_in_1000_Genomes TINYTEXT NOT NULL,
+    AFR_Allele_frequency_1000_Genomes TINYTEXT NOT NULL,
+    BX_ID_exLOVD TINYTEXT NOT NULL,
+    Source TINYTEXT NOT NULL,
+    Condition_ID_value_ENIGMA TINYTEXT NOT NULL,
+    HGVS_Protein TINYTEXT NOT NULL,
+    Ref TINYTEXT NOT NULL,
+    Allele_number_AFR_ExAC TINYTEXT NOT NULL,
+    Allele_count_AFR_ExAC TINYTEXT NOT NULL,
+    BX_ID_LOVD TINYTEXT NOT NULL,
+    Synonyms TEXT NOT NULL,
+    Gene_Symbol TINYTEXT NOT NULL,
+    Comment_on_clinical_significance_ENIGMA TEXT NOT NULL,
+    Missense_analysis_prior_probability_exLOVD TINYTEXT NOT NULL,
+    Allele_number_FIN_ExAC TINYTEXT NOT NULL,
+    Posterior_probability_exLOVD TINYTEXT NOT NULL,
+    Polyphen_Score TINYTEXT NOT NULL,
+    Reference_Sequence TINYTEXT NOT NULL,
+    Allele_count_EAS_ExAC TINYTEXT NOT NULL,
+    Hg38_End TINYTEXT NOT NULL,
+    HGVS_cDNA TINYTEXT NOT NULL,
+    Functional_analysis_technique_LOVD TINYTEXT NOT NULL,
+    SAS_Allele_frequency_1000_Genomes TINYTEXT NOT NULL,
+    RNA_LOVD TINYTEXT NOT NULL,
+    Combined_prior_probablility_exLOVD TINYTEXT NOT NULL,
+    BX_ID_ClinVar TINYTEXT NOT NULL,
+    IARC_class_exLOVD TINYTEXT NOT NULL,
     BX_ID_BIC varchar(12500) NOT NULL,
     PRIMARY KEY (id),
     FOREIGN KEY (viccEntryId) REFERENCES viccEntry(id)
@@ -530,75 +530,75 @@ CREATE TABLE brcaPart1
 CREATE TABLE brcaPart2
 (   id int NOT NULL AUTO_INCREMENT,
     viccEntryId int NOT NULL,
-    Sift_Prediction varchar(255) NOT NULL,
-    Allele_number_NFE_ExAC varchar(255) NOT NULL,
-    Allele_origin_ENIGMA varchar(255) NOT NULL,
-    Allele_number_OTH_ExAC varchar(255) NOT NULL,
-    Hg36_End varchar(255) NOT NULL,
-    Allele_frequency_SAS_ExAC varchar(255) NOT NULL,
-    Date_Last_Updated_ClinVar varchar(500) NOT NULL,
-    Allele_number_EAS_ExAC varchar(255) NOT NULL,
-    Allele_frequency_OTH_ExAC varchar(255) NOT NULL,
-    Source_URL varchar(2000) NOT NULL,
-    SCV_ClinVar varchar(500) NOT NULL,
-    Pathogenicity_expert varchar(255) NOT NULL,
-    Allele_frequency_1000_Genomes varchar(255) NOT NULL,
-    Functional_analysis_result_LOVD varchar(255) NOT NULL,
-    AMR_Allele_frequency_1000_Genomes varchar(255) NOT NULL,
-    Variant_in_ESP varchar(255) NOT NULL,
-    Variant_in_BIC varchar(255) NOT NULL,
-    Clinical_significance_ENIGMA varchar(255) NOT NULL,
-    Max_Allele_Frequency varchar(255) NOT NULL,
-    Allele_count_AMR_ExAC varchar(255) NOT NULL,
-    Variant_in_ENIGMA varchar(255) NOT NULL,
-    BX_ID_ESP varchar(255) NOT NULL,
-    Patient_nationality_BIC varchar(500) NOT NULL,
-    BX_ID_1000_Genomes varchar(255) NOT NULL,
-    Genomic_Coordinate_hg37 varchar(255) NOT NULL,
-    Genomic_Coordinate_hg36 varchar(255) NOT NULL,
-    EUR_Allele_frequency_1000_Genomes varchar(255) NOT NULL,
-    Number_of_family_member_carrying_mutation_BIC varchar(255) NOT NULL,
-    Segregation_LR_exLOVD varchar(255) NOT NULL,
-    Allele_Frequency varchar(255) NOT NULL,
-    Minor_allele_frequency_percent_ESP varchar(255) NOT NULL,
-    Allele_frequency_ExAC varchar(255) NOT NULL,
-    Mutation_type_BIC varchar(255) NOT NULL,
-    Assertion_method_citation_ENIGMA varchar(255) NOT NULL,
-    Condition_ID_type_ENIGMA varchar(255) NOT NULL,
-    Allele_count_OTH_ExAC varchar(255) NOT NULL,
-    HGVS_protein_LOVD varchar(255) NOT NULL,
-    Variant_in_ClinVar varchar(255) NOT NULL,
-    Clinical_importance_BIC varchar(255) NOT NULL,
-    Discordant varchar(255) NOT NULL,
-    Allele_count_FIN_ExAC varchar(255) NOT NULL,
-    Condition_category_ENIGMA varchar(255) NOT NULL,
-    Allele_Frequency_ESP varchar(255) NOT NULL,
-    Homozygous_count_OTH_ExAC varchar(255) NOT NULL,
-    Genetic_origin_LOVD varchar(255) NOT NULL,
-    Homozygous_count_AMR_ExAC varchar(255) NOT NULL,
-    Clinical_Significance_ClinVar varchar(255) NOT NULL,
-    AA_Allele_Frequency_ESP varchar(255) NOT NULL,
-    Protein_Change varchar(255) NOT NULL,
-    Variant_in_exLOVD varchar(255) NOT NULL,
-    EA_Allele_Frequency_ESP varchar(255) NOT NULL,
-    HGVS_RNA varchar(255) NOT NULL,
-    Clinical_significance_citations_ENIGMA varchar(255) NOT NULL,
-    Variant_effect_LOVD varchar(255) NOT NULL,
-    Polyphen_Prediction varchar(255) NOT NULL,
-    Data_Release_id varchar(255) NOT NULL,
-    Hg37_Start varchar(255) NOT NULL,
-    Hg36_Start varchar(255) NOT NULL,
-    Sift_Score varchar(255) NOT NULL,
-    Genomic_Coordinate_hg38 varchar(255) NOT NULL,
-    Alt varchar(255) NOT NULL,
-    Literature_citation_BIC varchar(1000) NOT NULL,
-    Variant_haplotype_LOVD varchar(255) NOT NULL,
-    Allele_frequency_NFE_ExAC varchar(255) NOT NULL,
-    Hg38_Start varchar(255) NOT NULL,
-    Pos varchar(255) NOT NULL,
-    Date_last_evaluated_ENIGMA varchar(255) NOT NULL,
-    Allele_number_SAS_ExAC varchar(255) NOT NULL,
-    Allele_number_AMR_ExAC varchar(255) NOT NULL,
+    Sift_Prediction TINYTEXT NOT NULL,
+    Allele_number_NFE_ExAC TINYTEXT NOT NULL,
+    Allele_origin_ENIGMA TINYTEXT NOT NULL,
+    Allele_number_OTH_ExAC TINYTEXT NOT NULL,
+    Hg36_End TINYTEXT NOT NULL,
+    Allele_frequency_SAS_ExAC TINYTEXT NOT NULL,
+    Date_Last_Updated_ClinVar TEXT NOT NULL,
+    Allele_number_EAS_ExAC TINYTEXT NOT NULL,
+    Allele_frequency_OTH_ExAC TINYTEXT NOT NULL,
+    Source_URL TEXT NOT NULL,
+    SCV_ClinVar TEXT NOT NULL,
+    Pathogenicity_expert TINYTEXT NOT NULL,
+    Allele_frequency_1000_Genomes TINYTEXT NOT NULL,
+    Functional_analysis_result_LOVD TINYTEXT NOT NULL,
+    AMR_Allele_frequency_1000_Genomes TINYTEXT NOT NULL,
+    Variant_in_ESP TINYTEXT NOT NULL,
+    Variant_in_BIC TINYTEXT NOT NULL,
+    Clinical_significance_ENIGMA TINYTEXT NOT NULL,
+    Max_Allele_Frequency TINYTEXT NOT NULL,
+    Allele_count_AMR_ExAC TINYTEXT NOT NULL,
+    Variant_in_ENIGMA TINYTEXT NOT NULL,
+    BX_ID_ESP TINYTEXT NOT NULL,
+    Patient_nationality_BIC TEXT NOT NULL,
+    BX_ID_1000_Genomes TINYTEXT NOT NULL,
+    Genomic_Coordinate_hg37 TINYTEXT NOT NULL,
+    Genomic_Coordinate_hg36 TINYTEXT NOT NULL,
+    EUR_Allele_frequency_1000_Genomes TINYTEXT NOT NULL,
+    Number_of_family_member_carrying_mutation_BIC TINYTEXT NOT NULL,
+    Segregation_LR_exLOVD TINYTEXT NOT NULL,
+    Allele_Frequency TINYTEXT NOT NULL,
+    Minor_allele_frequency_percent_ESP TINYTEXT NOT NULL,
+    Allele_frequency_ExAC TINYTEXT NOT NULL,
+    Mutation_type_BIC TINYTEXT NOT NULL,
+    Assertion_method_citation_ENIGMA TINYTEXT NOT NULL,
+    Condition_ID_type_ENIGMA TINYTEXT NOT NULL,
+    Allele_count_OTH_ExAC TINYTEXT NOT NULL,
+    HGVS_protein_LOVD TINYTEXT NOT NULL,
+    Variant_in_ClinVar TINYTEXT NOT NULL,
+    Clinical_importance_BIC TINYTEXT NOT NULL,
+    Discordant TINYTEXT NOT NULL,
+    Allele_count_FIN_ExAC TINYTEXT NOT NULL,
+    Condition_category_ENIGMA TINYTEXT NOT NULL,
+    Allele_Frequency_ESP TINYTEXT NOT NULL,
+    Homozygous_count_OTH_ExAC TINYTEXT NOT NULL,
+    Genetic_origin_LOVD TINYTEXT NOT NULL,
+    Homozygous_count_AMR_ExAC TINYTEXT NOT NULL,
+    Clinical_Significance_ClinVar TINYTEXT NOT NULL,
+    AA_Allele_Frequency_ESP TINYTEXT NOT NULL,
+    Protein_Change TINYTEXT NOT NULL,
+    Variant_in_exLOVD TINYTEXT NOT NULL,
+    EA_Allele_Frequency_ESP TINYTEXT NOT NULL,
+    HGVS_RNA TINYTEXT NOT NULL,
+    Clinical_significance_citations_ENIGMA TINYTEXT NOT NULL,
+    Variant_effect_LOVD TINYTEXT NOT NULL,
+    Polyphen_Prediction TINYTEXT NOT NULL,
+    Data_Release_id TINYTEXT NOT NULL,
+    Hg37_Start TINYTEXT NOT NULL,
+    Hg36_Start TINYTEXT NOT NULL,
+    Sift_Score TINYTEXT NOT NULL,
+    Genomic_Coordinate_hg38 TINYTEXT NOT NULL,
+    Alt TINYTEXT NOT NULL,
+    Literature_citation_BIC TEXT NOT NULL,
+    Variant_haplotype_LOVD TINYTEXT NOT NULL,
+    Allele_frequency_NFE_ExAC TINYTEXT NOT NULL,
+    Hg38_Start TINYTEXT NOT NULL,
+    Pos TINYTEXT NOT NULL,
+    Date_last_evaluated_ENIGMA TINYTEXT NOT NULL,
+    Allele_number_SAS_ExAC TINYTEXT NOT NULL,
+    Allele_number_AMR_ExAC TINYTEXT NOT NULL,
     PRIMARY KEY (id),
     FOREIGN KEY (viccEntryId) REFERENCES viccEntry(id)
     );