Package net.sf.basedb.util.listable
Class SampleToBioSourceTransformer
- java.lang.Object
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- net.sf.basedb.util.listable.AbstractSourceItemTransformer
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- net.sf.basedb.util.listable.SampleToBioSourceTransformer
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- All Implemented Interfaces:
SourceItemTransformer
public class SampleToBioSourceTransformer extends AbstractSourceItemTransformer
Source item transformer that transform sample items to their parent biosources. This implementation will only transform to the sample:s immediate parent biosources. Grandparents are not included. To do this, combine this transformer with aSampleToParentSampleTransformer
.- Since:
- 3.5
- Author:
- Nicklas
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Field Summary
Fields Modifier and Type Field Description private boolean
pushOnly
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Constructor Summary
Constructors Constructor Description SampleToBioSourceTransformer()
SampleToBioSourceTransformer(boolean childrensThatPushOnly)
Create a new sample to biosource transformer that only load parent biosources to sample that has a subtype with "push annotations" set.
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description Set<Integer>
transform(TransformContext context, Set<Integer> source)
Load the ID of all biosources that are immediate parents to the given set of samples.-
Methods inherited from class net.sf.basedb.util.listable.AbstractSourceItemTransformer
getSourceItemType, getTargetItemType, safeIdList
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Constructor Detail
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SampleToBioSourceTransformer
public SampleToBioSourceTransformer()
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SampleToBioSourceTransformer
public SampleToBioSourceTransformer(boolean childrensThatPushOnly)
Create a new sample to biosource transformer that only load parent biosources to sample that has a subtype with "push annotations" set. This functionality should only be used in the first transformation step.- Since:
- 3.16
- See Also:
PushToParentsTransformer
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Method Detail
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transform
public Set<Integer> transform(TransformContext context, Set<Integer> source)
Load the ID of all biosources that are immediate parents to the given set of samples.
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