Update feature branch#459
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spamhurts merged 1 commit into22.3_fb_HL7Integrationfrom Jun 14, 2022
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* - Added remark column to Culture pivot report - fixed foreign key * - Added remark column to Chemistry pivot report * - Added remark column to Hematology pivot report - fixed foreign key * - re-fixed CulturePivot foreign key * - Fixed remark value in MiscPivot - fixed foreign key * - Add remark value to Parasitology pivot - fixed foreign key * - Add remark value to Parasitology O&P pivot - fixed foreign key * - Add remark value to Surveillance pivot - fixed foreign key * - Add remark value to Urinalysis pivot - fixed foreign key
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* new tables for HL7 results import * Added missing remark column to labwork pivot queries (#452) (#459) * - Added remark column to Culture pivot report - fixed foreign key * - Added remark column to Chemistry pivot report * - Added remark column to Hematology pivot report - fixed foreign key * - re-fixed CulturePivot foreign key * - Fixed remark value in MiscPivot - fixed foreign key * - Add remark value to Parasitology pivot - fixed foreign key * - Add remark value to Parasitology O&P pivot - fixed foreign key * - Add remark value to Surveillance pivot - fixed foreign key * - Add remark value to Urinalysis pivot - fixed foreign key * Added missing columns * corrected spelling in comment * - Added pivot tables for Clinical Path Lab data - Updated table names - updated stored procedure for new table names - changed file structure * - Still working on pivot queries - Begin adding ETLs to bring Sqlmed data into new table structures - Fixed FK in OBR table in metadata * - Added SQL scripts in source_queries to migrate old clinpath data to new datasets; runs in SSMS -Refactored FK link between assay_labworkResults, labworkTaqman and labworkPanels; FK changed from RowId to ObjectId - added pivot columns to test type specific pivot queries - added metadata for pivot queries - Refactored LabResultsLabworkType.java to use LabworkResultsAll as data source for labwork data - removed unused source queries and ETLs - added serviceTestId column to HL7_OBX table * Added files missing from last commit * Added study.labworkResults dataset to labworkResultsAll.sql query; TODO: remove study.labworkResults from query after data is merged into HL7_MSH, HL7_OBR, and HL7_OBX * Added missing metadata for HL7_MSH table * copy Sqlmed Msh to LK.sql - fixed column order and removed CAST from MESSAGE_DATE_TM source column * - Added HL7_GroupNTE view to concatenate NTE records into a single field for HL7 pivots - Updated HL7 pivot queries to use HL7_GroupNTE - added ProcedureName and TestName logic to HL7HematologyPivot.sql - added container column to HL7 tables - added container to Sqlmed migration scripts - added container column to Herme Tech stored procedure * Migrated feature branch from 22.3 release branch. * Integrating new ClinPath data source with existing datasource - refactored existing queries to include data from new sources. * -Integrating new ClinPath data source with existing datasource -Updated clinpathRunsAll.sql to include Orchard sourced data -Added Orchard data to labwork pivot queries in study. e.g., hematologyPivot, chemPivot, culturePivot, etc.. -Added abnormal flags to clinpath pivot queries -Added color highlighting for abnormal test results to labwork history (in animal history > Clinical > Clinical History -Fixed wrong field display for DietDataSource in Clinical History -Fixed diet data source in CurrentDietDemographicsProvider.java and snprcOverrides.js (in animal snapshot view) * -Updated clinpathRunsAll.sql to use type column from clinpathRuns if snprc_ehr.labwork_services data is not populated -incremented module version number -renamed module upgrade script to align with new module version * Added missing column to snprc_ehr.xml schema
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