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Load icd10cm_2018.xml to /home/ihtsdo/data/ICD10CM
Change owner of icd10cm_2018.xml to root
Load icd10cm data
cd /opt/mapping-service-adminhome/ihtsdo/code/admin/loader
mvn clean install -PClaML -Drun.config=/opt/mapping-service/conf/config.properties -Dinput.file=/home/ihtsdo/data/ICD10CM/icd10cm-2018.xml -Dterminology=ICD10CM -Dversion=2018
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Pre-process the map file to clean up map relations (see code below - examples 109006, 2217001, 2268003)
cd /opt/mapping-service-adminhome/ihtsdo/code/admin/loader
make sure complex_map_refset_members table mapRule field is type longtext, not varchar(255)
make sure enough memory is provided (consider ~/.bash_profile): export MAVEN_OPTS="-XX:MaxPermSize=512m -Xmx3300M"
mvn clean install -PRF2-snapshot -Drun.config=/opt/mapping-service/conf/config.properties -Dinput.dir=/home/ihtsdo/data/SNOMEDCT_US/SnomedCT_USEditionRF2_Production_20170301T120000/Snapshot -Dterminology=SNOMEDCT_US -Dversion=latest
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Load Map Records from RF2
cd /home/opt/mapping-service-adminihtsdo/code/admin/loader
set file = /home/ihtsdo/data/SNOMEDCT_US/SnomedCT_USEditionRF2_Production_20170301T120000/Snapshot/Refset/Map/der2_iisssccRefset_ExtendedMapSnapshot_US1000124_20170301.txt
perl -ne '@_=split/\t/; print if $_[4] eq "6011000124106"' $file > /tmp/x.txt
mvn install -PMapRecords -Drun.config=/opt/mapping-service/conf/config.properties -Dinput.file=/tmp/x.txt -Dmember.flag=false -Drecord.flag=true
Load Refset Members from RF2
cd /home/opt/mapping-service-adminihtsdo/code/admin/loader
perl -ne '@_=split/\t/; print if $_[4] eq "6011000124106" && $_[2] eq "1"' /home/ihtsdo/data/SNOMEDCT_US/SnomedCT_USEditionRF2_Production_20170301T120000/Snapshot/Refset/Map/der2_iisssccRefset_ExtendedMapSnapshot_US1000124_20170301.txt > /tmp/x.txt
mvn install -PMapRecords -Drun.config=/opt/mapping-service/conf/config.properties -Dinput.file=/tmp/x.txt -Dmember.flag=true -Drecord.flag=false
Compute workflow
cd /opt/mapping-service-adminhome/ihtsdo/code/admin/loader
mvn install -PComputeWorkflow -Drun.config=/opt/mapping-service/conf/config.properties -Drefset.id=6011000124106
Add advices, map relations, users
Recalculate Map Advice
cd /home/ihtsdo/code/admin/release
mvn install -PRecalculateMapAdvice -Drun.config=/opt/mapping-service/conf/config.properties -Drefset.id=6011000124106 > /opt/mapping-service/logs/recalculateMapAdvice_YYYYMMDD.log
Release process
- delete from complex_map_refset_members where terminology = 'SNOMEDCT_US';
- perl -ne '@_=split/\t/; print if $_[4] eq "6011000124106" && $_[2] eq "1"' /home/dshapiro/der2_iisssccRefset_ExtendedMapSnapshot_US1000124_20180301.txt > /home/dshapiro/icd10cm.txt
- cd /home/ihtsdo/code/admin/loader
- mvn install -PMapRecords -Drun.config=/opt/mapping-service/conf/config.properties -Dinput.file=/home/dshapiro/icd10cm.txt -Dmember.flag=true -Drecord.flag=false > /opt/mapping-service/logs/reloadComplexMapRefsetMembers.log
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