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Update TCRdb schema
1 parent 4df6420 commit 57f79ff

6 files changed

Lines changed: 109 additions & 1 deletion

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‎tcrdb/resources/schemas/dbscripts/postgresql/tcrdb-15.53-15.54.sql‎

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CREATE TABLE tcrdb.stims (
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rowid SERIAL,
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cdna_id int,
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controlStimId int,
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quantificationMethod varchar(1000),
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quantification double precision,
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flowQuantificationMethod varchar(1000),
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flowQuantification double precision,
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comment varchar(4000),
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container entityid,
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created timestamp,
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createdby int,
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modified timestamp,
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modifiedby int,
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constraint PK_stims PRIMARY KEY (rowid)
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);

‎tcrdb/resources/schemas/dbscripts/sqlserver/tcrdb-15.53-15.54.sql‎

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CREATE TABLE tcrdb.stims (
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rowid int identity(1,1),
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cdna_id int,
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controlStimId int,
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quantificationMethod varchar(1000),
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quantification double precision,
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flowQuantificationMethod varchar(1000),
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flowQuantification double precision,
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comment varchar(4000),
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container entityid,
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created datetime,
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createdby int,
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modified datetime,
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modifiedby int,
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constraint PK_stims PRIMARY KEY (rowid)
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);

‎tcrdb/resources/schemas/tcrdb.xml‎

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</column>
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</columns>
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</table>
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<table tableName="stims" tableDbType="TABLE" useColumnOrder="true">
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<javaCustomizer class="org.labkey.laboratory.query.LaboratoryTableCustomizer" />
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<tableTitle>Stim Experiments</tableTitle>
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<titleColumn>rowid</titleColumn>
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<columns>
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<column columnName="rowid">
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<columnTitle>Row Id</columnTitle>
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<isHidden>true</isHidden>
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</column>
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<column columnName="cdna_id">
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<columnTitle>cDNA ID</columnTitle>
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<fk>
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<fkDbSchema>singlecell</fkDbSchema>
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<fkTable>cdna_libraries</fkTable>
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<fkColumnName>rowid</fkColumnName>
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</fk>
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</column>
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<column columnName="controlStimId">
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<columnTitle>No Stim / Control cDNA ID</columnTitle>
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<fk>
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<fkDbSchema>singlecell</fkDbSchema>
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<fkTable>cdna_libraries</fkTable>
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<fkColumnName>rowid</fkColumnName>
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</fk>
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</column>
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<column columnName="quantificationMethod">
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<columnTitle>Quantification Method</columnTitle>
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</column>
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<column columnName="quantification">
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<columnTitle>Quantification</columnTitle>
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</column>
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<column columnName="flowQuantificationMethod">
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<columnTitle>Flow Quantification Method</columnTitle>
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</column>
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<column columnName="flowQuantification">
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<columnTitle>Flow Quantification</columnTitle>
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</column>
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<column columnName="comment">
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</column>
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<column columnName="container">
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<isHidden>true</isHidden>
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</column>
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<column columnName="createdby">
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<isHidden>true</isHidden>
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</column>
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<column columnName="created">
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<isUserEditable>false</isUserEditable>
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<shownInInsertView>false</shownInInsertView>
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<shownInUpdateView>false</shownInUpdateView>
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<nullable>true</nullable>
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<isHidden>true</isHidden>
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</column>
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<column columnName="modifiedby">
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<isHidden>true</isHidden>
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</column>
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<column columnName="modified">
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<isUserEditable>false</isUserEditable>
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<shownInInsertView>false</shownInInsertView>
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<shownInUpdateView>false</shownInUpdateView>
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<nullable>true</nullable>
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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>

‎tcrdb/src/org/labkey/tcrdb/TCRdbModule.java‎

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@Override
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public Double getSchemaVersion()
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{
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return 15.53;
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return 15.54;
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}
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@Override

‎tcrdb/src/org/labkey/tcrdb/TCRdbProvider.java‎

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items.add(new QueryImportNavItem(this, TCRdbSchema.NAME, TCRdbSchema.TABLE_CLONES, "TCR Clones", LaboratoryService.NavItemCategory.data, NAME, cache));
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items.add(new QueryImportNavItem(this, TCRdbSchema.NAME, TCRdbSchema.TABLE_CLONE_RESPONSES, "TCR Clonotype Responses", LaboratoryService.NavItemCategory.data, NAME, cache));
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items.add(new QueryImportNavItem(this, TCRdbSchema.NAME, TCRdbSchema.TABLE_STIM_EXPERIMENTS, "TCR Clonotype Responses", LaboratoryService.NavItemCategory.data, NAME, cache));
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return Collections.unmodifiableList(items);
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}

‎tcrdb/src/org/labkey/tcrdb/TCRdbSchema.java‎

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public static final String TABLE_MIXCR_LIBRARIES = "mixcr_libraries";
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public static final String TABLE_CLONES = "clones";
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public static final String TABLE_CLONE_RESPONSES = "clone_responses";
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public static final String TABLE_STIM_EXPERIMENTS = "stims";
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public static final String SEQUENCE_ANALYSIS = "sequenceanalysis";
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public static final String SINGLE_CELL = "singlecell";

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