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Add metadata for many SIV study queries (#333)
* Add metadata for many SIV study queries * Add genetics table
1 parent 0611e5b commit e7c6a9b

16 files changed

+400
-54
lines changed

‎Studies/resources/queries/study/assignment.query.xml‎

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<query xmlns="http://labkey.org/data/xml/query">
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<metadata>
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<tables xmlns="http://labkey.org/data/xml">
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<table tableName="assignment" tableDbType="TABLE" useColumnOrder="true">
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<columns>
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<column columnName="Id"/>
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<column columnName="date">
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<columnTitle>Date Added</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="enddate">
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<columnTitle>End Date</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="study">
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<columnTitle>Study</columnTitle>
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</column>
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<column columnName="subgroup">
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<columnTitle>Sub-Group</columnTitle>
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</column>
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<column columnName="category">
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<columnTitle>Category</columnTitle>
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</column>
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</columns>
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</table>
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</tables>
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</metadata>
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</query>

Studies/resources/query/study/demographics.query.xml renamed to Studies/resources/queries/study/demographics.query.xml

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query.Id~eq=${Id}
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</url>
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</column>
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<column columnName="objectId">
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<isHidden>true</isHidden>
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<isKeyField>true</isKeyField>
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</column>
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<column columnName="sex">
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<columnTitle>Sex</columnTitle>
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</column>
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<column columnName="geographic_origin">
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<columnTitle>Geographic Origin</columnTitle>
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</column>
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<column columnName="birth">
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<columnTitle>Birth</columnTitle>
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</column>
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<column columnName="death">
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<columnTitle>Death</columnTitle>
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</column>
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<column columnName="species">
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<columnTitle>Species</columnTitle>
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</column>
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<column columnName="mother">
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<columnTitle>Mother</columnTitle>
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</column>
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<column columnName="father">
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<columnTitle>Father</columnTitle>
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</column>
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<column columnName="calculated_status">
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<columnTitle>Status</columnTitle>
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</column>
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</columns>
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</table>
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</tables>

‎Studies/resources/queries/study/flags.query.xml‎

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<query xmlns="http://labkey.org/data/xml/query">
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<metadata>
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<tables xmlns="http://labkey.org/data/xml">
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<table tableName="flags" tableDbType="TABLE" useColumnOrder="true">
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<columns>
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<column columnName="Id"/>
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<column columnName="date">
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<columnTitle>Date Added</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="enddate">
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<columnTitle>End Date</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="flag">
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<columnTitle>Flag</columnTitle>
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</column>
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</columns>
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</table>
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</tables>
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</metadata>
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</query>

‎Studies/resources/queries/study/genetics.query.xml‎

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<query xmlns="http://labkey.org/data/xml/query">
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<metadata>
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<tables xmlns="http://labkey.org/data/xml">
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<table tableName="flags" tableDbType="TABLE" useColumnOrder="true">
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<columns>
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<column columnName="Id"/>
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<column columnName="date">
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<columnTitle>Date Added</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="category">
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<columnTitle>Category</columnTitle>
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</column>
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<column columnName="assayType">
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<columnTitle>Assay Type</columnTitle>
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</column>
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<column columnName="marker">
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<columnTitle>Marker/Allele</columnTitle>
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</column>
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<column columnName="result">
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<columnTitle>Result</columnTitle>
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</column>
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<column columnName="score">
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<columnTitle>Score</columnTitle>
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</column>
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</columns>
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</table>
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</tables>
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</metadata>
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</query>

‎Studies/resources/queries/study/immunizations.query.xml‎

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<query xmlns="http://labkey.org/data/xml/query">
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<metadata>
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<tables xmlns="http://labkey.org/data/xml">
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<table tableName="immunizations" tableDbType="TABLE" useColumnOrder="true">
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<columns>
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<column columnName="Id"/>
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<column columnName="date">
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<columnTitle>Date Added</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="category">
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<columnTitle>Category</columnTitle>
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</column>
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<column columnName="treatment">
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<columnTitle>Treatment</columnTitle>
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</column>
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<column columnName="route">
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<columnTitle>Route</columnTitle>
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</column>
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<column columnName="quantity">
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<columnTitle>Quantity</columnTitle>
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</column>
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<column columnName="quantity_units">
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<columnTitle>Quantity Units</columnTitle>
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</column>
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<column columnName="reason">
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<columnTitle>Reason</columnTitle>
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</column>
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</columns>
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</table>
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</tables>
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</metadata>
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</query>

‎Studies/resources/queries/study/labwork.query.xml‎

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<query xmlns="http://labkey.org/data/xml/query">
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<metadata>
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<tables xmlns="http://labkey.org/data/xml">
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<table tableName="labwork" tableDbType="TABLE" useColumnOrder="true">
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<columns>
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<column columnName="Id"/>
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<column columnName="date">
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<columnTitle>Date</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="category">
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<columnTitle>Category</columnTitle>
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</column>
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<column columnName="test">
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<columnTitle>Test</columnTitle>
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</column>
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<column columnName="result">
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<columnTitle>Result</columnTitle>
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</column>
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<column columnName="units">
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<columnTitle>Units</columnTitle>
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</column>
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<column columnName="qualResult">
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<columnTitle>Qualitative Result</columnTitle>
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<isHidden>true</isHidden>
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</column>
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<column columnName="method">
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<columnTitle>Method</columnTitle>
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</column>
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</columns>
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</table>
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</tables>
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</metadata>
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</query>

‎Studies/resources/queries/study/procedures.query.xml‎

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<query xmlns="http://labkey.org/data/xml/query">
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<metadata>
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<tables xmlns="http://labkey.org/data/xml">
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<table tableName="procedures" tableDbType="TABLE">
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<columns>
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<column columnName="Id">
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<url />
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</column>
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<column columnName="date">
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<isHidden>true</isHidden>
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</column>
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<column columnName="category">
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<columnTitle>Category</columnTitle>
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</column>
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<column columnName="procedure">
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<columnTitle>Procedure</columnTitle>
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</column>
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</columns>
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</table>
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</tables>
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</metadata>
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</query>

‎Studies/resources/queries/study/samples.query.xml‎

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<query xmlns="http://labkey.org/data/xml/query">
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<metadata>
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<tables xmlns="http://labkey.org/data/xml">
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<table tableName="samples" tableDbType="TABLE" useColumnOrder="true">
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<columns>
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<column columnName="Id"/>
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<column columnName="date">
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<columnTitle>Date Added</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="sampleid">
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<columnTitle>Sample ID</columnTitle>
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</column>
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<column columnName="sampleType">
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<columnTitle>Sample Type</columnTitle>
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</column>
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<column columnName="preservation">
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<columnTitle>Preservation</columnTitle>
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</column>
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<column columnName="quantity">
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<columnTitle>Quantity</columnTitle>
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</column>
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<column columnName="quantity_units">
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<columnTitle>Quantity Units</columnTitle>
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</column>
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</columns>
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</table>
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</tables>
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</metadata>
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</query>

Studies/resources/query/study/studyData.query.xml renamed to Studies/resources/queries/study/studyData.query.xml

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‎Studies/resources/queries/study/treatments.query.xml‎

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<query xmlns="http://labkey.org/data/xml/query">
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<metadata>
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<tables xmlns="http://labkey.org/data/xml">
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<table tableName="treatments" tableDbType="TABLE" useColumnOrder="true">
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<columns>
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<column columnName="Id"/>
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<column columnName="date">
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<columnTitle>Date</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="enddate">
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<columnTitle>End Date</columnTitle>
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<formatString>Date</formatString>
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</column>
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<column columnName="category">
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<columnTitle>Category</columnTitle>
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</column>
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<column columnName="treatment">
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<columnTitle>Treatment</columnTitle>
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</column>
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<column columnName="route">
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<columnTitle>Route</columnTitle>
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</column>
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<column columnName="frequency">
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<columnTitle>Frequency</columnTitle>
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</column>
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<column columnName="amount">
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<columnTitle>Amount</columnTitle>
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</column>
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<column columnName="amountUnits">
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<columnTitle>Amount Units</columnTitle>
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</column>
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<column columnName="volume">
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<columnTitle>Volume</columnTitle>
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<isHidden>true</isHidden>
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</column>
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<column columnName="vol_units">
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<columnTitle>Volume Units</columnTitle>
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<isHidden>true</isHidden>
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</column>
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<column columnName="concentration">
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<columnTitle>Concentration</columnTitle>
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<isHidden>true</isHidden>
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</column>
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<column columnName="conc_units">
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<columnTitle>Conc. Units</columnTitle>
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<isHidden>true</isHidden>
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</column>
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<column columnName="dosage">
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<columnTitle>Dosage</columnTitle>
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<isHidden>true</isHidden>
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</column>
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<column columnName="dosage_units">
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<columnTitle>Dosage Units</columnTitle>
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<isHidden>true</isHidden>
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</column>
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<column columnName="reason">
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<columnTitle>Reason</columnTitle>
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<isHidden>true</isHidden>
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</column>
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</columns>
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</table>
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</tables>
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</metadata>
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</query>

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