ctSkennerton/crass — Issue #15: number of reads is different in output compared to internal representations
Author: ctSkennerton
Created: 2011-11-15 00:46:15+00:00
State: open
Labels: defect, priority-high

Internal read numbers of groups are shown below:
1 : 313
3 : 428
4 : 138
5 : 102
6 : 229
8 : 447
10 : 274
11 : 421
13 : 13
14 : 24
15 : 364
18 : 14
22 : 301
24 : 32
27 : 173
31 : 4
32 : 25
43 : 85
44 : 84
45 : 64
49 : 16
50 : 7
56 : 10
57 : 29
71 : 129
72 : 18
74 : 36
94 : 15
112 : 9
117 : 118
126 : 11
152 : 3
161 : 17
173 : 3
215 : 4
270 : 11
302 : 11
305 : 5
453 : 2
483 : 3
501 : 3
574 : 7
714 : 4
1629 : 86
1630 : 6
1631 : 53

And now for the output fasta files:

$ grep -c '>' crass_test_out/*.fa
crass_test_out/Group_10_GTTTTCCCCGCGCCAGCGGGGATAGGCCC.fa:258
crass_test_out/Group_117_GTTTCAATTCCAAAAGGTGCGATTAAAAG.fa:81
crass_test_out/Group_11_GTCAGTAACCAGCCCTGAAAACAAAGGGATTGAGAC.fa:344
crass_test_out/Group_126_TCGTCAGCCTCGTCAGCCTCGTCAGCCTCGTC.fa:7
crass_test_out/Group_13_CGTCTCATCCTGCTCTTCGGGGCGGGCTTCGTTGAAGG.fa:7
crass_test_out/Group_14_TGCCCTGATTTAAAAGGGATTAAGAC.fa:11
crass_test_out/Group_15_CGGACCATCCCCACGGGGGTGGGGAAAAC.fa:279
crass_test_out/Group_161_GTCATTTCGTCCCGCAGGACAAACTCGCGCCGGAC.fa:8
crass_test_out/Group_1629_GTCTCCCCCGCGCACGCGGGGATCGACCC.fa:51
crass_test_out/Group_1631_GTCTCCCCCGCGCACGCGGGGATCGACCT.fa:25
crass_test_out/Group_18_CACCAATTCTTGATCTTTGGTTGGGTTGGCACGGCAAATTGTCA.fa:6
crass_test_out/Group_1_GTCGCAATCCTCGCTATAATGGAATTGGGTGATTTAC.fa:212
crass_test_out/Group_22_GAGCAGCAAGAGCGGATCACCGAGCAGCAAGAGCGGATCAC.fa:269
crass_test_out/Group_24_GCATCAATCCACGACCCGCATCGAAGGGTACTGAAAC.fa:14
crass_test_out/Group_270_GAATTTTCTTATGATGTAGACGGGAACTTTTTAGAGTAGGTAG.fa:7
crass_test_out/Group_27_ATTCTCCCGGCTTATTTAGTCGGGAGTGGATTGAAAC.fa:97
crass_test_out/Group_302_ATTTCCAAAAACATCGACTCAAAGTGAGTACTGAAAC.fa:8
crass_test_out/Group_32_CGGAGACGGAGACGGAGACGGAGACGGAGACGGAG.fa:8
crass_test_out/Group_3_GTCCGTCAGACCTGCCCGTTGATAGGGCTTTGTGAC.fa:396
crass_test_out/Group_43_GCCGCAGTCACCGCGATTCCGAAGAGCTTGTGGCGG.fa:51
crass_test_out/Group_44_GCATCGCCCGGCCTCACGGTCGGGCGTGGATTGAAAC.fa:49
crass_test_out/Group_45_GAGTGTAGCTATCCGGGGTGAGAGAGGGAGCTACAAC.fa:46
crass_test_out/Group_49_GTGCTCAACGCCTTCCGGCATCCCCGCCGATCACCACC.fa:0
crass_test_out/Group_4_GTTTCAATCCGCGCCGCCCTCACGGGCGGCGAC.fa:80
crass_test_out/Group_56_ATCATAGCATAACCGTGTCGGATGGGAAGCTATGAC.fa:6
crass_test_out/Group_57_AATGTAAAAGAACAATACTTGATGCCAAATTACAAC.fa:22
crass_test_out/Group_5_GTTTCAATTCCTCAATGGTACGATTATTAC.fa:68
crass_test_out/Group_6_CGGTTCATCCCCGCGGCTGCGGGGAACGC.fa:184
crass_test_out/Group_71_GTTACGAATCCCCATGCGGGGTTATGAG.fa:100
crass_test_out/Group_72_TTCAATCCTCGCTCCCCGTCGCCGGGGAGCGTGT.fa:5
crass_test_out/Group_74_ATTCACTGCCGGATAGGCAGCTCAGAAA.fa:26
crass_test_out/Group_8_GTCAGTAACCAGCCCTGAAAACAAAGGGATTGAGAC.fa:344
crass_test_out/Group_94_GTTTCAGTATCCGCAACCGGATCGAATTTTTTGTGAC.fa:5