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Plugin config
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Seun Soyinka authored and Seun Soyinka committed Aug 19, 2024
1 parent fbfd7cd commit 2eb6b41
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5 changes: 4 additions & 1 deletion build.sbt
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Expand Up @@ -41,8 +41,11 @@ credentials += Credentials(Path.userHome / ".sbt" / ".credentials")

publishMavenStyle := true

// version := "1.2.10"
// scalaVersion:= "2.13.10"

version := "1.2.10"
scalaVersion:= "2.13.10"
scalaVersion:= "2.13.13"

//mainClass in assembly := Some("gov.cdc.hl7pet.DeIdentifierApp")
mainClass := Some("gov.cdc.hl7pet.DeIdentifierApp")
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1 change: 0 additions & 1 deletion project/build.sbt
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Expand Up @@ -12,4 +12,3 @@ inThisBuild(List(
)
)
))
ThisBuild / scalaVersion := "2.13.13"
56 changes: 56 additions & 0 deletions src/test/resources/ORU_SampleOne_deidentified.hl7
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MSH|^~\&|UT LabWare.Prod^2.16.840.1.114222.4.3.3.8.2.1^ISO|UT.SaltLakeCity.SPHL^2.16.840.1.114222.4.1.3684^ISO|AIMS.INTEGRATION.PRD^2.16.840.1.114222.4.3.15.1^ISO|ViralExDHQPDiagMicro^2.16.840.1.114222.4.1.213285^ISO|20220112165046-0600||ORU^R01^ORU_R01|202201121650469078|P|2.5.1|||NE|NE|||||PHLabReport-NoAck^phLabResultsELRv251^2.16.840.1.113883.9.11^ISO
SFT|Abbott Informatics|STARLIMS v11|STARLIMS11.Clin.Prod|CL-439
<<<<<<< HEAD:src/test/resources/ORU_SampleOne.hl7
<<<<<<< HEAD:src/test/resources/DHQP_SPM_OTH_SECOND.hl7
PID|1||PID00753334^^^TN.Nashville.SPHL&2.16.840.1.114222.4.1.175791&ISO^PI||~^^^^^^S|||F|||^^^TN^99999^USA^C^^~^^^GA^99999^YSA
=======
PID|1||REDACTED^^^TN.Nashville.SPHL&2.16.840.1.114222.4.1.175791&ISO^AA||~^^^^^^S|||F|||^^^TN^99999^USA^C^^~^^^GA^99999^YSA
>>>>>>> 78c370b53da9a444962a2178ee2c33f169faea8d:src/test/resources/ORU_SampleOne.hl7
=======
PID|1||PID00753334^^^TN.Nashville.SPHL&2.16.840.1.114222.4.1.175791&ISO^PI||REDACTED~^^^^^^s|REDACTED||F|||^^^TN^99999^USA^C^^~^^^GA^99999^YSA
PID|1||REDACTED^^^TN.Nashville.SPHL&2.16.840.1.114222.4.1.175791&ISO^NOT VALID||REDACTED~^^^^^^s|REDACTED||F|||^^^TN^99999^USA^C^^~^^^GA^99999^YSA
>>>>>>> 11b2a2b225555e8a9ef99bc7f4a42303b34960f1:src/test/resources/DHQP_SPM_OTH_SECOND.hl7
NK1|1||one^thow^three^four^NOT EMR||||||||||REDACTED
NK1|2||one^thow^three^four^EMR||||||||||thrirteen field
ORC|RE||N21E305368-01^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO||CM|D||||||||^WPN^PH^^^901^5238990|||||||V.A. Medical Center|1030 Jefferson Ave.^^Memphis^TN^38104^USA^L|^WPN^PH^^^901^5238990
OBR|1||N21E305368-01^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO|68991-9^Epidemiologically important information for public health reporting panel^LN^ARLN CRE^ARLN CRE^L|||20211217||||||||||^WPN^PH^^^901^5238990|||||20220112165000-0600|||P||||||PHC1122^Routine^CDCPHINVS^^^^^^Regular
OBX|1|SN|29553-5^Age calculated^LN^Age^Age^L|1.1|^74|a^year^UCUM|||||F|||20211217|||||||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^630 Hart Lane^Nashville^TN^37243^USA^B^^47037
OBX|2|CWE|PLT631^ARLN regional lab^PLT|1.2|TN^Tennessee^FIPS5_2||||||F|||20211217|||||||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^630 Hart Lane^Nashville^TN^37243^USA^B^^47037
OBX|3|CWE|PLT2114^Clinical sample or isolate received^PLT|1.3|119303007^Microbial isolate^SCT||||||F|||20211217|||||||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^630 Hart Lane^Nashville^TN^37243^USA^B^^47037
OBX|4|ST|PLT667^What is the name of the healthcare facility of origin?^PLT|1.4|VA (NASHVILLE) MEDICAL CENTER||||||F|||20211217|||||||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^630 Hart Lane^Nashville^TN^37243^USA^B^^47037
OBX|5|ST|PLT668^In which state is the healthcare facility of origin located? - REQ^PLT|1.5|TN||||||F|||20211217|||||||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^630 Hart Lane^Nashville^TN^37243^USA^B^^47037
OBX|6|ST|PLT669^What is the zipcode of the healthcare facility of origin?^PLT|1.6|37212||||||F|||20211217|||||||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^630 Hart Lane^Nashville^TN^37243^USA^B^^47037
OBX|7|ST|52831-5^To be redacted^PLT|1.6|37212||||||F|||20211217|||||||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^630 Hart Lane^Nashville^TN^37243^USA^B^^47037
OBX|8|ST|77997-5^To be redacted^PLT|1.6|37212||||||F|||20211217|||||||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^630 Hart Lane^Nashville^TN^37243^USA^B^^47037
OBX|9|ST|77993-4^To be redacted^PLT|1.6|37212||||||F|||20211217|||||||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^630 Hart Lane^Nashville^TN^37243^USA^B^^47037
ORC|RE||N21E305368-01-1-4020^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO||CM|D||||||||^WPN^PH^^^901^5238990|||||||V.A. Medical Center|1030 Jefferson Ave.^^Memphis^TN^38104^USA^L|^WPN^PH^^^901^5238990
OBR|2||N21E305368-01^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO|42803-7^Bacteria Islt^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture|||20211217||||||||||^WPN^PH^^^901^5238990|||||20220112165000-0600|||P||||||PHC1122^Routine^CDCPHINVS^^^^^^Regular
OBX|1|CWE|42803-7^Bacteria Islt^LN^^^^^^Carbapenem Resistant Organism Culture|2.1|52499004^Pseudomonas aeruginosa^SCT|||A^Abnormal^HL70078|||P|||20211217|||||202201120743||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
ORC|RE||N21E305368-01-4020-Provider RepOrg^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO||CM|D||||||||^WPN^PH^^^901^5238990|||||||V.A. Medical Center|1030 Jefferson Ave.^^Memphis^TN^38104^USA^L|^WPN^PH^^^901^5238990
OBR|3||N21E305368-01-4020-Provider RepOrg^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO|81658-7^Suspect org XXX^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture|||20211217||||||||||^WPN^PH^^^901^5238990|||||20220112165000-0600|||P||||||PHC1122^Routine^CDCPHINVS^^^^^^Regular
OBX|1|ST|81658-7^Suspect org XXX^LN^^^^^^Provider Reported Organism|3.1|Pseudomonas aeruginosa||||||P|||20211217|||||202112281555||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
ORC|RE||N21E305368-01-1-4020-AST-P.aerug-BrMicDil^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO||CM|D||||||||^WPN^PH^^^901^5238990|||||||V.A. Medical Center|1030 Jefferson Ave.^^Memphis^TN^38104^USA^L|^WPN^PH^^^901^5238990||||||||42803-7^Bacteria Islt^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture
OBR|4||N21E305368-01-1-4020-AST-P.aerug-BrMicDil^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO|50545-3^Bacterial Susc Pnl Islt MIC^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture|||20211217||||||||||^WPN^PH^^^901^5238990|||||20220112165000-0600|||P|42803-7&Bacteria Islt&LN&&&&&&Carbapenem Resistant Organism Culture^2.1^Pseudomonas aeruginosa|||^N21E305368-01-1-4020&STARLIMS.TN.PROD&2.16.840.1.114222.4.3.3.2.34.1&ISO||PHC1122^Routine^CDCPHINVS^^^^^^Regular|||||||||||||||||||42803-7^Bacteria Islt^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture
OBX|1|SN|12-5^Amikacin Islt MIC^LN^^^^^^Amikacin|4.1|^8|ug/mL^ug/mL^UCUM||S^Susceptible^HL70078|||P|||20211217|||||202112300938||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|2|SN|44-8^Aztreonam Islt MIC^LN^^^^^^Aztreonam|4.2|>^16|ug/mL^ug/mL^UCUM||R^Resistant^HL70078|||P|||20211217|||||202112300938||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|3|SN|6644-9^Cefepime Islt MIC^LN^^^^^^Cefepime|4.3|>^16|ug/mL^ug/mL^UCUM||R^Resistant^HL70078|||P|||20211217|||||202112300938||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|4|SN|133-9^Ceftazidime Islt MIC^LN^^^^^^Ceftazidime|4.4|>^16|ug/mL^ug/mL^UCUM||R^Resistant^HL70078|||P|||20211217|||||202112300939||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|5|SN|185-9^Ciprofloxacin Islt MIC^LN^^^^^^Ciprofloxacin|4.5|<=^0.25|ug/mL^ug/mL^UCUM||S^Susceptible^HL70078|||P|||20211217|||||202112300939||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|6|SN|56031-8^Doripenem Islt MIC^LN^^^^^^Doripenem|4.6|>^2|ug/mL^ug/mL^UCUM||NS^Non-susceptible^HL70078|||P|||20211217|||||202112300940||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|7|SN|267-5^Gentamicin Islt MIC^LN^^^^^^Gentamicin|4.7|^4|ug/mL^ug/mL^UCUM||S^Susceptible^HL70078|||P|||20211217|||||202112300940||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|8|SN|279-0^Imipenem Islt MIC^LN^^^^^^Imipenem|4.8|>^8|ug/mL^ug/mL^UCUM||R^Resistant^HL70078|||P|||20211217|||||202112300940||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|9|SN|20396-8^Levofloxacin Islt MIC^LN^^^^^^Levofloxacin|4.9|<=^1|ug/mL^ug/mL^UCUM||S^Susceptible^HL70078|||P|||20211217|||||202112300940||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|10|SN|6652-2^Meropenem Islt MIC^LN^^^^^^Meropenem|4.10|>^8|ug/mL^ug/mL^UCUM||R^Resistant^HL70078|||P|||20211217|||||202112300940||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|11|SN|412-7^Piperacillin+Tazobactam^LN^^^^^^Piperacillin+Tazobactam|4.11|>^64^/^4|ug/mL^ug/mL^UCUM||R^Resistant^HL70078|||P|||20211217|||||202112300941||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|12|SN|504-1^Ticarcillin+Clav Islt MIC^LN^^^^^^Ticarcillin+Clavulanate|4.12|>^128^/^2|ug/mL^ug/mL^UCUM||R^Resistant^HL70078|||P|||20211217|||||202112300941||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|13|SN|508-2^TOBRamycin Islt MIC^LN^^^^^^TOBRamycin|4.13|<=^1|ug/mL^ug/mL^UCUM||S^Susceptible^HL70078|||P|||20211217|||||202112300941||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
ORC|RE||N21E305368-01-1-4020-MCIM^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO||CM|D||||||||^WPN^PH^^^901^5238990|||||||V.A. Medical Center|1030 Jefferson Ave.^^Memphis^TN^38104^USA^L|^WPN^PH^^^901^5238990||||||||42803-7^Bacteria Islt^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture
OBR|5||N21E305368-01-1-4020-MCIM^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO|62237-3^Carbapenem Islt Ql^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture|||20211217||||||||||^WPN^PH^^^901^5238990|||||20220112165000-0600|||P|42803-7&Bacteria Islt&LN&&&&&&Carbapenem Resistant Organism Culture^2.1^Pseudomonas aeruginosa|||^N21E305368-01-1-4020&STARLIMS.TN.PROD&2.16.840.1.114222.4.3.3.2.34.1&ISO||PHC1122^Routine^CDCPHINVS^^^^^^Regular|||||||||||||||||||42803-7^Bacteria Islt^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture
OBX|1|CWE|62237-3^Carbapenem Islt Ql^LN^^^^^^Carbapenemase Production|5.1|10828004^Positive^SCT||||||P|||20211217|||||202112301140||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
ORC|RE||N21E305368-01-1-4073^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO||CM|D||||||||^WPN^PH^^^901^5238990|||||||V.A. Medical Center|1030 Jefferson Ave.^^Memphis^TN^38104^USA^L|^WPN^PH^^^901^5238990||||||||42803-7^Bacteria Islt^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture
OBR|6||N21E305368-01-1-4073^STARLIMS.TN.PROD^2.16.840.1.114222.4.3.3.2.34.2^ISO|TPHL085^beta-lactamase genes panel^L^4073^Streck ARM-D RT-PCR ß-lactamase^L^^^Streck ARM-D RT-PCR ß-lactamase|||20211217||||||||||^WPN^PH^^^901^5238990|||||20220112165000-0600|||P|42803-7&Bacteria Islt&LN&&&&&&Carbapenem Resistant Organism Culture^2.1^Pseudomonas aeruginosa|||^N21E305368-01-1-4020&STARLIMS.TN.PROD&2.16.840.1.114222.4.3.3.2.34.1&ISO||PHC1122^Routine^CDCPHINVS^^^^^^Regular|||||||||||||||||||42803-7^Bacteria Islt^LN^4020^Carbapenem Resistant Organism Culture^L^^^Carbapenem Resistant Organism Culture NTE|1|L|The performance characteristics of the Streck ARM-D β-lactamase real-time PCR test were validated by TDH Laboratory Services. This test has not been cleared or approved by the U.S. Food and Drug Administration.
OBX|1|CWE|85498-4^blaIMP Islt/SPM Ql^LN^^^^^^IMP|6.1|260415000^Not Detected^SCT||Not Detected|N^Normal^HL70078|||P|||20211217|||||202112301148||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|2|CWE|49617-4^blaKPC Islt/SPM Ql^LN^^^^^^KPC|6.2|260415000^Not Detected^SCT||Not Detected|N^Normal^HL70078|||P|||20211217|||||202112301148||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|3|CWE|73982-1^blaNDM Islt/SPM Ql^LN^^^^^^NDM|6.3|260415000^Not Detected^SCT||Not Detected|N^Normal^HL70078|||P|||20211217|||||202112301148||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|4|CWE|85503-1^blaOXA-48 Islt/SPM Ql^LN^^^^^^OXA-48|6.4|260415000^Not Detected^SCT||Not Detected|N^Normal^HL70078|||P|||20211217|||||202112301148||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037
OBX|5|CWE|85501-5^blaVIM Islt/SPM Ql^LN^^^^^^VIM|6.5|260415000^Not Detected^SCT||Not Detected|N^Normal^HL70078|||P|||20211217|||||202112301148||||Nashville Central Laboratory^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^44D0659062|Nashville Central Laboratory^^Nashville^TN^37243^USA^B^^47037

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