| prepareRun(FeatureVector, StringVector) |  | 0% |  | 0% | 21 | 21 | 97 | 97 | 1 | 1 |
| run(FeatureVector, Logger) |  | 0% |  | 0% | 8 | 8 | 52 | 52 | 1 | 1 |
| getFileNumber(File, RemoteFileNode) |  | 0% |  | 0% | 6 | 6 | 34 | 34 | 1 | 1 |
| startProgram(String, String[]) |  | 0% |  | 0% | 8 | 8 | 28 | 28 | 1 | 1 |
| setFeatureQualifier(Feature, String, String) |  | 0% |  | 0% | 7 | 7 | 19 | 19 | 1 | 1 |
| setFileNumber(File, long, RemoteFileNode) |  | 0% |  | 0% | 2 | 2 | 20 | 20 | 1 | 1 |
| guessNumber(File) |  | 0% |  | 0% | 6 | 6 | 18 | 18 | 1 | 1 |
| getBaseDirectoryFromEntry(Entry) |  | 0% |  | 0% | 6 | 6 | 12 | 12 | 1 | 1 |
| setProteinFeatureQualifier(Feature, String, String) |  | 0% |  | 0% | 3 | 3 | 12 | 12 | 1 | 1 |
| makeDirectory(File) |  | 0% |  | 0% | 4 | 4 | 9 | 9 | 1 | 1 |
| getRealName() |  | 0% |  | 0% | 2 | 2 | 4 | 4 | 1 | 1 |
| getProgramOptions() |  | 0% |  | 0% | 2 | 2 | 3 | 3 | 1 | 1 |
| setProgramOptions(String) |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
| ExternalProgram(String, String, int) |  | 100% | | n/a | 0 | 1 | 0 | 5 | 0 | 1 |
| static {...} |  | 100% | | n/a | 0 | 1 | 0 | 2 | 0 | 1 |
| getType() | | 100% | | n/a | 0 | 1 | 0 | 1 | 0 | 1 |
| getName() | | 100% | | n/a | 0 | 1 | 0 | 1 | 0 | 1 |