Mercurial > repos > bgruening > trim_galore

comparison test-data/paired_collection_example_results3.txt @ 11:80cd83b11214 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/trim_galore commit 78bee2b2efd36fe9399ce574159fc007cb6bdfbf
author bgruening
date Mon, 24 Apr 2017 14:30:07 -0400
parents b4e39d993fc8
children 084bbd8ba7b8
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10:b4e39d993fc8 11:80cd83b11214
1 1
2 SUMMARISING RUN PARAMETERS 2 SUMMARISING RUN PARAMETERS
3 ========================== 3 ==========================
4 Input filename: input_1.fastq 4 Input filename: input_1.fastq
5 Trimming mode: paired-end 5 Trimming mode: paired-end
6 Trim Galore version: 0.4.0 6 Trim Galore version: 0.4.3
7 Cutadapt version: 1.8 7 Cutadapt version: 1.13
8 Quality Phred score cutoff: 20 8 Quality Phred score cutoff: 20
9 Quality encoding type selected: ASCII+33 9 Quality encoding type selected: ASCII+33
10 Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) 10 Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected)
11 Maximum trimming error rate: 0.1 (default) 11 Maximum trimming error rate: 0.1 (default)
12 Minimum required adapter overlap (stringency): 1 bp 12 Minimum required adapter overlap (stringency): 1 bp
13 Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp 13 Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp
14 Length cut-off for read 1: 35 bp (default) 14 Length cut-off for read 1: 35 bp (default)
15 Length cut-off for read 2: 35 bp (default) 15 Length cut-off for read 2: 35 bp (default)
16 16
17 17
18 This is cutadapt 1.8 with Python 3.5.3 18 This is cutadapt 1.13 with Python 3.5.3
19 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq 19 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq
20 Trimming 1 adapter(s) with at most 10.0% errors in single-end mode ... 20 Trimming 1 adapter with at most 10.0% errors in single-end mode ...
21 Finished in 0.10 s (1010 us/read; 0.06 M reads/minute). 21 Finished in 0.01 s (101 us/read; 0.59 M reads/minute).
22 22
23 === Summary === 23 === Summary ===
24 24
25 Total reads processed: 99 25 Total reads processed: 99
26 Reads with adapters: 52 (52.5%) 26 Reads with adapters: 52 (52.5%)
83 83
84 SUMMARISING RUN PARAMETERS 84 SUMMARISING RUN PARAMETERS
85 ========================== 85 ==========================
86 Input filename: input_2.fastq 86 Input filename: input_2.fastq
87 Trimming mode: paired-end 87 Trimming mode: paired-end
88 Trim Galore version: 0.4.0 88 Trim Galore version: 0.4.3
89 Cutadapt version: 1.8 89 Cutadapt version: 1.13
90 Quality Phred score cutoff: 20 90 Quality Phred score cutoff: 20
91 Quality encoding type selected: ASCII+33 91 Quality encoding type selected: ASCII+33
92 Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected) 92 Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected)
93 Maximum trimming error rate: 0.1 (default) 93 Maximum trimming error rate: 0.1 (default)
94 Minimum required adapter overlap (stringency): 1 bp 94 Minimum required adapter overlap (stringency): 1 bp
95 Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp 95 Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp
96 Length cut-off for read 1: 35 bp (default) 96 Length cut-off for read 1: 35 bp (default)
97 Length cut-off for read 2: 35 bp (default) 97 Length cut-off for read 2: 35 bp (default)
98 98
99 99
100 This is cutadapt 1.8 with Python 3.5.3 100 This is cutadapt 1.13 with Python 3.5.3
101 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq 101 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq
102 Trimming 1 adapter(s) with at most 10.0% errors in single-end mode ... 102 Trimming 1 adapter with at most 10.0% errors in single-end mode ...
103 Finished in 0.10 s (1000 us/read; 0.06 M reads/minute). 103 Finished in 0.01 s (100 us/read; 0.60 M reads/minute).
104 104
105 === Summary === 105 === Summary ===
106 106
107 Total reads processed: 100 107 Total reads processed: 100
108 Reads with adapters: 59 (59.0%) 108 Reads with adapters: 59 (59.0%)