Commit b62dd3e3 authored by Mathieu Giraud's avatar Mathieu Giraud
Browse files

tests: update

parent 84c12abf
Pipeline #54901 failed with stages
in 3 minutes and 19 seconds
......@@ -4,14 +4,14 @@ $ number of reads and kmers
1:13153 reads, 3020179 kmers
$ k-mers, IGHV
1:13116 .* 1219953 .*IGHV
1:13135 .* 1284485 .*IGHV
$ k-mers, IGHJ
1:37 .* 435550 .*IGHJ
1:18 .* 432827 .*IGHJ
$ k-mers, ambiguous
1:53416 .*\\?
1:70776 .*\\?
$ k-mers, unknown
1:1248938 .*_
1:1168627 .*_
......@@ -2,7 +2,7 @@
!LOG: stanford-k14.log
$ Find the good number of windows in Stanford S22 (contiguous seed 14)
1: found 10796 windows in 13152 reads
1: found 10795 windows in 13152 reads
$ Do not segment any read with SEG_METHOD_ONE on homo-sapiens-cd.g
1: CD .* -> .* 0 .* 0
......@@ -7,24 +7,24 @@ $ Find the good number of "too short sequences" for windows of size 100
1: UNSEG too short w -> 0
$ Some reads have shortened or shifted windows
1: SEG changed w -> 1369
1: SEG changed w -> 1886
$ Most changed windows are just shifted
914: w100/-5
360: w100/-10
1234: w100/-5
507: w100/-10
$ Some changed windows are lighlty shortened
63: w95/-10
29: w90/-10
95: w95/-10
46: w90/-10
$ Find the good number of segmented sequences (including "too short sequences")
1: junction detected in 13152 reads .100%.
1: junction detected in 13147 reads .100%.
$ Find the good number of windows in Stanford S22
1: found 11835 windows in 13152 reads
1: found 11793 windows in 13147 reads
$ Find the correct number of clones with shifted of shortened windows
1244: "Short or shifted window"
1244: "W50"
1698: "Short or shifted window"
1698: "W50"
......@@ -5,16 +5,16 @@ $ Germlines are custom
1: custom germlines
$ Parses IGHV.fa germline
1: 104369 bp in 357 sequences
1: 136147 bp in 479 sequences
$ Parses IGHD.fa germline
1: 1070 bp in 44 sequences
$ Parses germline/homo-sapiens/IGHJ.fa
1: 701 bp in 13 sequences
$ Parses IGHJ.fa germline
1: 918 bp in 17 sequences
$ Find the good index load
1:custom .* 0.163. l13 k12
1:custom .* 0.298. l13 k12
$ Find approximately the good number of sequences for e-value computation
1: approx. 131.. sequences
......
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