|
Last change
on this file was
16861,
checked in by westram, 7 years ago
|
- reintegrates 'unittest' into 'trunk'
- fixed non-deterministic behavior of add-species:
- 2 sequences in test-
 were identical (changed 1 bp)
- AP_tree_edge cannot be used to store insert-positions (uses pair of AP_tree_nlen instead)
- corrected some undefined behavior (results did depend on compiler version+flags):
- general order of inserts was undefined
- order of initial-insert was undefined (used by complete
 reconstruction)
- bugs fixed:
- not all possible insert-positions were tested
- sometimes species were added at wrong positions
- if multiple species were inserted at the same position, the following optimization
- did modify topology
- now optimizes all multi-inserts globally
- at leaf-positions: includes the leaf (Note: this does not modify the original topology)
- insert order now is "longest sequence first" (was "shortest sequence first")
- fixed unwanted behavior when testing for content of generated files
- adds: log:branches/unittest@16807:16860
|
|
File size:
3.3 KB
|
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| 1 | C C C C C C |
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| 2 | o o u l l y |
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| 3 | r r r o o t |
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| 4 | A G C B B A |
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| 5 | q l i u u q |
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| 6 | u u t t t u |
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| 7 | a t r y y a |
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| 8 | t a e r 2 t |
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| 9 | , , , , , , |
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| 10 | |
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| 11 | C C C C C C |
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| 12 | O O U L L Y |
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| 13 | R R R O O T |
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| 14 | Y Y T S S O |
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| 15 | N N O T T P |
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| 16 | E E B R R H |
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| 17 | B B A I I A |
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| 18 | A A C D D G |
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| 19 | C C T I I A |
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| 20 | T T E U U |
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| 21 | E E R M M A |
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| 22 | R R I Q |
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| 23 | I I U B B U |
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| 24 | U U M U U A |
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| 25 | M M T T T |
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| 26 | C Y Y I |
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| 27 | A G I R R L |
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| 28 | Q L T I I I |
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| 29 | U U R C C S |
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| 30 | A T E U U , |
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| 31 | T A U M M |
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| 32 | I M M , , 6 |
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| 33 | C I , |
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| 34 | U C 1 2 |
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| 35 | M U 5 |
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| 36 | , M |
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| 37 | , |
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| 38 | 4 |
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| 39 | 3 |
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| 40 | |
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| 41 | CorAquat, CORYNEBACTERIUM AQUATICUM, 4 -0 46.7 7.4 41.3 40.0 51.0 |
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| 42 | CorGluta, CORYNEBACTERIUM GLUTAMICUM, 3 46.7 -0 48.1 29.1 30.2 32.6 |
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| 43 | CurCitre, CURTOBACTERIUM CITREUM, 5 7.4 48.1 -0 36.2 34.9 46.7 |
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| 44 | CloButyr, CLOSTRIDIUM BUTYRICUM, 1 41.3 29.1 36.2 -0 0.8 24.7 |
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| 45 | |
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| 46 | CloButy2, CLOSTRIDIUM BUTYRICUM, 2 40.0 30.2 34.9 0.8 -0 24.7 |
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| 47 | CytAquat, CYTOPHAGA AQUATILIS, 6 51.0 32.6 46.7 24.7 24.7 -0 |
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| 48 | |
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| 49 | Minimum: -0.000000 |
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| 50 | Maximum: 51.046703 |
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| 51 | Average: 27.467059 |
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