| | 65 | |
| | 66 | b) Create a test GlycanStructure object and a corresponding Glycan object. I'm using a static GlycoWorkbench (GWB) formatted sequence |
| | 67 | {{{ |
| | 68 | private static String GLYCAN_SEQUENCE1 = "freeEnd--??1D-GlcNAc,p--??1D-GlcNAc,p--??1D-Man,p(--??1D-Man,p--??1D-Man,p--??1D-Man,p--??1D-Glc,p--??1D-Glc,p)--??1D-Man,p(--??1D-Man,p--??1D-Man,p)--??1D-Man,p--??1D-Man,p$MONO,perMe,0,0,freeEnd"; |
| | 69 | private static String GLYCAN_ID1 = "TEST_GOG1"; |
| | 70 | |
| | 71 | private void createTestGlycanObjects() { |
| | 72 | testGlycanStructure1 = new GlycanStructure(); // create the GlycanStructure object |
| | 73 | testGlycanStructure1.setGWBSequence(GLYCAN_SEQUENCE1); // set the sequence |
| | 74 | testGlycanStructure1.setId(GLYCAN_ID1); // set its ID |
| | 75 | |
| | 76 | testGlycan1 = Glycan.fromString(testGlycanStructure1.getGWBSequence()); // create the Glycan object using the "Glycan.fromString( <GWB Seq> )" method |
| | 77 | testGlycanStructure1.setSequence( testGlycan1.toGlycoCTCondensed() ); // set the alternative sequence (using GlycoCT Condensed) |
| | 78 | testGlycanStructure1.setSequenceFormat(GlycanAnnotation.SEQ_FORMAT_GLYCOCT_CONDENSED); // set the type of sequence |
| | 79 | } |
| | 80 | }}} |
