*/
String gff = "submitted\taffine:local\tsimilarity\t20\t30\t99\t+\t.\t";
// no attributes (column 9 data):
- assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof Gff2Helper);
+ assertTrue(GffHelperFactory
+ .getHelper(gff.split(tabRegex)) instanceof Gff2Helper);
// attributes set but unhandled featureGroup - get generic handler
gff = "submitted\taffine:local\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
// handled featureGroup (exonerate model) values
gff = "submitted\texonerate:protein2dna:local\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
- assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+ assertTrue(GffHelperFactory
+ .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
gff = "submitted\tprotein2genome\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
- assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+ assertTrue(GffHelperFactory
+ .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
gff = "submitted\tcoding2coding\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
- assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+ assertTrue(GffHelperFactory
+ .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
gff = "submitted\tcoding2genome\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
- assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+ assertTrue(GffHelperFactory
+ .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
gff = "submitted\tcdna2genome\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
- assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+ assertTrue(GffHelperFactory
+ .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
gff = "submitted\tgenome2genome\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
- assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+ assertTrue(GffHelperFactory
+ .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
// not case-sensitive:
gff = "submitted\tgenome2genome\tSIMILARITY\t20\t30\t99\t+\t.\tID=$1";
- assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+ assertTrue(GffHelperFactory
+ .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
/*
* InterProScan has 'protein_match' in column 3
*/
gff = "Submitted\tPANTHER\tprotein_match\t1\t1174\t0.0\t+\t.\tName=PTHR32154";
- assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof InterProScanHelper);
+ assertTrue(GffHelperFactory
+ .getHelper(gff.split(tabRegex)) instanceof InterProScanHelper);
/*
* nothing specific - return the generic GFF3 class if Name=Value is present in col9