 |
|
|
|
.. (parent) |
 |
- |
rw-r--r-- |
4,859 |
adeno-genome.fa
|
 |
- |
rw-r--r-- |
531,724 |
adeno-reads-pe.sam
|
 |
- |
rw-r--r-- |
133,000 |
adeno-reads100_1.fa
|
 |
- |
rw-r--r-- |
133,000 |
adeno-reads100_2.fa
|
 |
- |
rw-r--r-- |
325 |
anchored_adeno_example100.out
|
 |
- |
rw-r--r-- |
0 |
anchored_adeno_example100.stdout
|
 |
- |
rwxr-xr-x |
2,538 |
generate_outputs.sh
|
 |
- |
rwxr-xr-x |
10,276 |
run_tests.py
|
 |
- |
rw-r--r-- |
112,211 |
se-adeno-reads100_1_default.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_default.stdout
|
 |
- |
rw-r--r-- |
91,368 |
se-adeno-reads100_1_mml16_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml16_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
99,723 |
se-adeno-reads100_1_mml16_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml16_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
101,459 |
se-adeno-reads100_1_mml16_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml16_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
101,380 |
se-adeno-reads100_1_mml16_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml16_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
110,499 |
se-adeno-reads100_1_mml16_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml16_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
112,527 |
se-adeno-reads100_1_mml16_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml16_ep1_es2.stdout
|
 |
- |
rw-r--r-- |
87,703 |
se-adeno-reads100_1_mml17_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml17_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
98,555 |
se-adeno-reads100_1_mml17_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml17_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
100,604 |
se-adeno-reads100_1_mml17_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml17_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
100,317 |
se-adeno-reads100_1_mml17_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml17_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
112,060 |
se-adeno-reads100_1_mml17_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml17_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,401 |
se-adeno-reads100_1_mml17_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml17_ep1_es2.stdout
|
 |
- |
rw-r--r-- |
84,643 |
se-adeno-reads100_1_mml18_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml18_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
96,692 |
se-adeno-reads100_1_mml18_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml18_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
99,335 |
se-adeno-reads100_1_mml18_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml18_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
99,296 |
se-adeno-reads100_1_mml18_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml18_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
112,211 |
se-adeno-reads100_1_mml18_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml18_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
115,312 |
se-adeno-reads100_1_mml18_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml18_ep1_es2.stdout
|
 |
- |
rw-r--r-- |
82,541 |
se-adeno-reads100_1_mml19_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml19_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
95,737 |
se-adeno-reads100_1_mml19_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml19_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
97,893 |
se-adeno-reads100_1_mml19_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml19_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
99,529 |
se-adeno-reads100_1_mml19_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml19_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
113,730 |
se-adeno-reads100_1_mml19_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml19_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
116,344 |
se-adeno-reads100_1_mml19_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml19_ep1_es2.stdout
|
 |
- |
rw-r--r-- |
12,343 |
se-adeno-reads100_1_mml20-f_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-f_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
55,989 |
se-adeno-reads100_1_mml20-i100_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i100_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,538 |
se-adeno-reads100_1_mml20-i90_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i90_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,538 |
se-adeno-reads100_1_mml20-i91_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i91_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,538 |
se-adeno-reads100_1_mml20-i92_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i92_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,179 |
se-adeno-reads100_1_mml20-i93_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i93_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,019 |
se-adeno-reads100_1_mml20-i94_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i94_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,019 |
se-adeno-reads100_1_mml20-i95_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i95_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,019 |
se-adeno-reads100_1_mml20-i96_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i96_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
113,709 |
se-adeno-reads100_1_mml20-i97_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i97_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
111,009 |
se-adeno-reads100_1_mml20-i98_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i98_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
96,542 |
se-adeno-reads100_1_mml20-i99_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-i99_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,538 |
se-adeno-reads100_1_mml20-of3_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-of3_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
167,678 |
se-adeno-reads100_1_mml20-of4_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-of4_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
16,458 |
se-adeno-reads100_1_mml20-r_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-r_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,538 |
se-adeno-reads100_1_mml20-so0_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-so0_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
114,538 |
se-adeno-reads100_1_mml20-so1_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20-so1_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
80,614 |
se-adeno-reads100_1_mml20_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
95,166 |
se-adeno-reads100_1_mml20_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
97,633 |
se-adeno-reads100_1_mml20_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
98,840 |
se-adeno-reads100_1_mml20_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
114,538 |
se-adeno-reads100_1_mml20_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
117,297 |
se-adeno-reads100_1_mml20_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml20_ep1_es2.stdout
|
 |
- |
rw-r--r-- |
79,634 |
se-adeno-reads100_1_mml21_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml21_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
95,165 |
se-adeno-reads100_1_mml21_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml21_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
97,320 |
se-adeno-reads100_1_mml21_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml21_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
98,848 |
se-adeno-reads100_1_mml21_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml21_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
115,520 |
se-adeno-reads100_1_mml21_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml21_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
117,967 |
se-adeno-reads100_1_mml21_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml21_ep1_es2.stdout
|
 |
- |
rw-r--r-- |
77,089 |
se-adeno-reads100_1_mml22_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml22_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
94,791 |
se-adeno-reads100_1_mml22_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml22_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
97,084 |
se-adeno-reads100_1_mml22_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml22_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
98,633 |
se-adeno-reads100_1_mml22_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml22_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
117,924 |
se-adeno-reads100_1_mml22_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml22_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
120,509 |
se-adeno-reads100_1_mml22_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml22_ep1_es2.stdout
|
 |
- |
rw-r--r-- |
75,553 |
se-adeno-reads100_1_mml23_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml23_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
92,945 |
se-adeno-reads100_1_mml23_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml23_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
95,511 |
se-adeno-reads100_1_mml23_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml23_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
97,948 |
se-adeno-reads100_1_mml23_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml23_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
117,086 |
se-adeno-reads100_1_mml23_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml23_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
120,088 |
se-adeno-reads100_1_mml23_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml23_ep1_es2.stdout
|
 |
- |
rw-r--r-- |
74,159 |
se-adeno-reads100_1_mml24_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml24_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
92,097 |
se-adeno-reads100_1_mml24_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml24_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
94,803 |
se-adeno-reads100_1_mml24_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml24_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
96,526 |
se-adeno-reads100_1_mml24_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml24_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
116,034 |
se-adeno-reads100_1_mml24_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml24_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
119,339 |
se-adeno-reads100_1_mml24_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml24_ep1_es2.stdout
|
 |
- |
rw-r--r-- |
72,872 |
se-adeno-reads100_1_mml25_ep0_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml25_ep0_es0.stdout
|
 |
- |
rw-r--r-- |
90,952 |
se-adeno-reads100_1_mml25_ep0_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml25_ep0_es1.stdout
|
 |
- |
rw-r--r-- |
93,938 |
se-adeno-reads100_1_mml25_ep0_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml25_ep0_es2.stdout
|
 |
- |
rw-r--r-- |
94,966 |
se-adeno-reads100_1_mml25_ep1_es0.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml25_ep1_es0.stdout
|
 |
- |
rw-r--r-- |
114,894 |
se-adeno-reads100_1_mml25_ep1_es1.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml25_ep1_es1.stdout
|
 |
- |
rw-r--r-- |
118,316 |
se-adeno-reads100_1_mml25_ep1_es2.out
|
 |
- |
rw-r--r-- |
0 |
se-adeno-reads100_1_mml25_ep1_es2.stdout
|