| 36 | const char* Const::program_name = "diamond"; |
| 37 | |
| 38 | AlignMode::AlignMode(unsigned mode) : |
| 39 | mode(mode) |
| 40 | { |
| 41 | sequence_type = SequenceType::amino_acid; |
| 42 | switch (mode) { |
| 43 | case blastx: |
| 44 | input_sequence_type = SequenceType::nucleotide; |
| 45 | query_contexts = 6; |
| 46 | query_translated = true; |
| 47 | query_len_factor = 3; |
| 48 | break; |
| 49 | case blastn: |
| 50 | input_sequence_type = SequenceType::nucleotide; |
| 51 | query_translated = false; |
| 52 | query_contexts = 1; |
| 53 | query_len_factor = 1; |
| 54 | sequence_type = SequenceType::nucleotide; |
| 55 | break; |
| 56 | default: |
| 57 | input_sequence_type = SequenceType::amino_acid; |
| 58 | query_contexts = 1; |
| 59 | query_translated = false; |
| 60 | query_len_factor = 1; |
| 61 | } |
| 62 | } |
| 63 | |
| 64 | unsigned AlignMode::from_command(unsigned command) |
| 65 | { |
nothing calls this directly
no outgoing calls
no test coverage detected