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JAL-1705 additional tests, validation regexp tweaks, javadoc
[jalview.git]
/
src
/
jalview
/
ext
/
ensembl
/
EnsemblCdna.java
diff --git
a/src/jalview/ext/ensembl/EnsemblCdna.java
b/src/jalview/ext/ensembl/EnsemblCdna.java
index
373286f
..
d4d1c08
100644
(file)
--- a/
src/jalview/ext/ensembl/EnsemblCdna.java
+++ b/
src/jalview/ext/ensembl/EnsemblCdna.java
@@
-10,8
+10,11
@@
import com.stevesoft.pat.Regex;
public class EnsemblCdna extends EnsemblSeqProxy
{
public class EnsemblCdna extends EnsemblSeqProxy
{
+ // TODO modify to accept other species e.g. ENSMUSPnnn
+ private static final Regex ACCESSION_REGEX = new Regex("((ENST|ENSG|CCDS)[0-9.]{3,})");
+
/*
/*
- * fetch exon features on genomic sequence (to identify the cdnaregions)
+ * fetch exon features on genomic sequence (to identify the cdna regions)
* and cds and variation features (to retain)
*/
private static final EnsemblFeatureType[] FEATURES_TO_FETCH = {
* and cds and variation features (to retain)
*/
private static final EnsemblFeatureType[] FEATURES_TO_FETCH = {
@@
-38,7
+41,7
@@
public class EnsemblCdna extends EnsemblSeqProxy
@Override
public Regex getAccessionValidator()
{
@Override
public Regex getAccessionValidator()
{
- return new Regex("((ENST|ENSG|CCDS)[0-9.]{3,})");
+ return ACCESSION_REGEX;
}
@Override
}
@Override