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Assigning tube/micronictube id on banked sample #390

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Assigning tube/micronictube id on banked sample #390

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6 changes: 4 additions & 2 deletions src/main/java/org/mskcc/limsrest/service/SetOrCreateBankedBatch.java
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Original file line number Diff line number Diff line change
Expand Up @@ -177,7 +177,6 @@ private DataRecord processSingleSample(SetBankedSamples.BankedSampleRequest samp
// Ignore NPE
}
}

// Set species defaults based on recipe
String species = sampleRequest.getSpecies();
String recipe = sampleRequest.getRecipe();
Expand Down Expand Up @@ -217,12 +216,15 @@ private DataRecord processSingleSample(SetBankedSamples.BankedSampleRequest samp
setFieldIfNotNull(bankedFields, "SpikeInGenes", sampleRequest.getSpikeInGenes(), "NULL");
setFieldIfNotNull(bankedFields, "TissueSite", sampleRequest.getTissueType(), "NULL");
setFieldIfNotNull(bankedFields, "MicronicTubeBarcode", sampleRequest.getMicronicTubeBarcode(), "NULL");
setFieldIfNotNull(bankedFields, "TubeBarcode", sampleRequest.getTubeId(), "NULL");
if (sampleRequest.getSampleType().equals("Curls/Punches")) {
setFieldIfNotNull(bankedFields, "MicronicTubeBarcode", sampleRequest.getTubeId(), "NULL");
}
setFieldIfNotNull(bankedFields, "BarcodeId", sampleRequest.getBarcodeId(), "NULL");
setFieldIfNotNull(bankedFields, "Recipe", sampleRequest.getRecipe(), "NULL");
setFieldIfNotNull(bankedFields, "CapturePanel", sampleRequest.getCapturePanel(), "NULL");
setFieldIfNotNull(bankedFields, "RunType", sampleRequest.getSequencingReadLength(), "NULL");
setFieldIfNotNull(bankedFields, "ServiceId", sampleRequest.getServiceId(), "NULL");
setFieldIfNotNull(bankedFields, "TubeBarcode", sampleRequest.getTubeId(), "NULL");
setFieldIfNotNull(bankedFields, "PatientId", sampleRequest.getPatientId(), "NULL");
setFieldIfNotNull(bankedFields, "NormalizedPatientId", sampleRequest.getNormalizedPatientId(), "NULL");
setFieldIfNotNull(bankedFields, "CMOPatientId", sampleRequest.getCmoPatientId(), "NULL");
Expand Down