These determine alignment type. Things may get more complicated than this once we have alternate contigs such as in build 38 of human genome.
| 484 | // These determine alignment type. |
| 485 | // Things may get more complicated than this once we have alternate contigs such as in build 38 of human genome. |
| 486 | inline bool isPrimaryAlignment(splitLine_t * line) |
| 487 | { return !(checkFlag(line, 0x100) || checkFlag(line, 0x800)); } |
| 488 | |
| 489 | // We have to hande secondard and complementary alignments differently depending on compatMode. |
| 490 | // So, we store which bits are being included in each. |
no test coverage detected