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Merge branch 'JAL-1956_featureStyles' into features/JAL-653_JAL-1766_htslib_refseqsupport
[jalview.git]
/
test
/
jalview
/
io
/
StockholmFileTest.java
diff --git
a/test/jalview/io/StockholmFileTest.java
b/test/jalview/io/StockholmFileTest.java
index
e889837
..
d7a9166
100644
(file)
--- a/
test/jalview/io/StockholmFileTest.java
+++ b/
test/jalview/io/StockholmFileTest.java
@@
-54,7
+54,7
@@
public class StockholmFileTest
{
AppletFormatAdapter af = new AppletFormatAdapter();
AlignmentI al = af.readFile(PfamFile, af.FILE,
{
AppletFormatAdapter af = new AppletFormatAdapter();
AlignmentI al = af.readFile(PfamFile, af.FILE,
- new IdentifyFile().Identify(PfamFile, af.FILE));
+ new IdentifyFile().identify(PfamFile, af.FILE));
int numpdb = 0;
for (SequenceI sq : al.getSequences())
{
int numpdb = 0;
for (SequenceI sq : al.getSequences())
{
@@
-95,7
+95,7
@@
public class StockholmFileTest
AppletFormatAdapter rf = new AppletFormatAdapter();
AlignmentI al = rf.readFile(ff, AppletFormatAdapter.FILE,
AppletFormatAdapter rf = new AppletFormatAdapter();
AlignmentI al = rf.readFile(ff, AppletFormatAdapter.FILE,
- new IdentifyFile().Identify(ff, AppletFormatAdapter.FILE));
+ new IdentifyFile().identify(ff, AppletFormatAdapter.FILE));
assertNotNull("Couldn't read supplied alignment data.", al);
assertNotNull("Couldn't read supplied alignment data.", al);
@@
-112,7
+112,7
@@
public class StockholmFileTest
AppletFormatAdapter.PASTE, ioformat);
assertNotNull("Couldn't parse reimported alignment data.", al_input);
AppletFormatAdapter.PASTE, ioformat);
assertNotNull("Couldn't parse reimported alignment data.", al_input);
- String identifyoutput = new IdentifyFile().Identify(outputfile,
+ String identifyoutput = new IdentifyFile().identify(outputfile,
AppletFormatAdapter.PASTE);
assertNotNull("Identify routine failed for outputformat " + ioformat,
identifyoutput);
AppletFormatAdapter.PASTE);
assertNotNull("Identify routine failed for outputformat " + ioformat,
identifyoutput);