Mercurial > repos > bgruening > trim_galore

comparison test-data/sanger_full_range_report_results1.txt @ 6:11962ce40855 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/trim_galore commit 9198b904ef37fe46007256f1734c33de6d23331b-dirty
author bgruening
date Wed, 07 Oct 2015 08:39:59 -0400
parents 2c1f0fe810f7
children b4e39d993fc8
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5:f11ff7be8c78 6:11962ce40855
1 1
2 SUMMARISING RUN PARAMETERS 2 SUMMARISING RUN PARAMETERS
3 ========================== 3 ==========================
4 Input filename: ./input_singles 4 Input filename: ./input_singles
5 Trimming mode: single-end 5 Trimming mode: single-end
6 Trim Galore version: 0.3.7 6 Trim Galore version: 0.4.0
7 Cutadapt version: 1.8
7 Quality Phred score cutoff: 20 8 Quality Phred score cutoff: 20
8 Quality encoding type selected: ASCII+33 9 Quality encoding type selected: ASCII+33
9 Adapter sequence: 'AGATCGGAAGAGC' 10 Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection))
10 Maximum trimming error rate: 0.1 (default) 11 Maximum trimming error rate: 0.1 (default)
11 Minimum required adapter overlap (stringency): 1 bp 12 Minimum required adapter overlap (stringency): 1 bp
12 Minimum required sequence length before a sequence gets removed: 20 bp 13 Minimum required sequence length before a sequence gets removed: 20 bp
13 14
14 15
15 cutadapt version 1.1 16 This is cutadapt 1.8 with Python 2.7.9
16 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ./input_singles 17 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ./input_singles
17 Maximum error rate: 10.00% 18 Trimming 1 adapter(s) with at most 10.0% errors in single-end mode ...
18 Processed reads: 2 19 Finished in 0.10 s (50000 us/read; 0.00 M reads/minute).
19 Trimmed reads: 1 ( 50.0%) 20
20 Total basepairs: 168 (0.0 Mbp) 21 === Summary ===
21 Trimmed basepairs: 1 (0.0 Mbp) (0.60% of total) 22
22 Too short reads: 0 ( 0.0% of processed reads) 23 Total reads processed: 2
23 Too long reads: 0 ( 0.0% of processed reads) 24 Reads with adapters: 1 (50.0%)
24 Total time: 0.00 s 25 Reads written (passing filters): 2 (100.0%)
25 Time per read: 0.32 ms 26
27 Total basepairs processed: 188 bp
28 Quality-trimmed: 20 bp (10.6%)
29 Total written (filtered): 167 bp (88.8%)
26 30
27 === Adapter 1 === 31 === Adapter 1 ===
28 32
29 Adapter 'AGATCGGAAGAGC', length 13, was trimmed 1 times. 33 Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times.
30 34
31 Lengths of removed sequences 35 No. of allowed errors:
32 length count expected 36 0-9 bp: 0; 10-13 bp: 1
33 1 1 0.5 37
38 Bases preceding removed adapters:
39 A: 0.0%
40 C: 100.0%
41 G: 0.0%
42 T: 0.0%
43 none/other: 0.0%
44
45 Overview of removed sequences
46 length count expect max.err error counts
47 1 1 0.5 0 1
34 48
35 49
36 RUN STATISTICS FOR INPUT FILE: ./input_singles 50 RUN STATISTICS FOR INPUT FILE: ./input_singles
37 ============================================= 51 =============================================
38 2 sequences processed in total 52 2 sequences processed in total