Mercurial > repos > bgruening > trim_galore

comparison test-data/sanger_full_range_report_results1gz.txt @ 15:084bbd8ba7b8 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/trim_galore commit 10a9de2adae04249830c880cf0c55edaa196f3f7
author bgruening
date Tue, 30 Jul 2019 06:26:49 -0400
parents 80cd83b11214
children cd7e644cae1d
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14:949f01671246 15:084bbd8ba7b8
1 1
2 SUMMARISING RUN PARAMETERS 2 SUMMARISING RUN PARAMETERS
3 ========================== 3 ==========================
4 Input filename: input_1.fastq.gz 4 Input filename: input_1.fastq.gz
5 Trimming mode: single-end 5 Trimming mode: single-end
6 Trim Galore version: 0.4.3 6 Trim Galore version: 0.6.3
7 Cutadapt version: 1.13 7 Cutadapt version: 2.4
8 Number of cores used for trimming: 1
8 Quality Phred score cutoff: 20 9 Quality Phred score cutoff: 20
9 Quality encoding type selected: ASCII+33 10 Quality encoding type selected: ASCII+33
10 Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection)) 11 Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection))
11 Maximum trimming error rate: 0.1 (default) 12 Maximum trimming error rate: 0.1 (default)
12 Minimum required adapter overlap (stringency): 1 bp 13 Minimum required adapter overlap (stringency): 1 bp
13 Minimum required sequence length before a sequence gets removed: 20 bp 14 Minimum required sequence length before a sequence gets removed: 20 bp
14 Output file will be GZIP compressed 15 Output file will be GZIP compressed
15 16
16 17
17 This is cutadapt 1.13 with Python 3.5.3 18 This is cutadapt 2.4 with Python 3.7.3
18 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq.gz 19 Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq.gz
19 Trimming 1 adapter with at most 10.0% errors in single-end mode ... 20 Processing reads on 1 core in single-end mode ...
20 Finished in 0.01 s (5000 us/read; 0.01 M reads/minute). 21 Finished in 0.02 s (7871 us/read; 0.01 M reads/minute).
21 22
22 === Summary === 23 === Summary ===
23 24
24 Total reads processed: 2 25 Total reads processed: 2
25 Reads with adapters: 1 (50.0%) 26 Reads with adapters: 1 (50.0%)
45 46
46 Overview of removed sequences 47 Overview of removed sequences
47 length count expect max.err error counts 48 length count expect max.err error counts
48 1 1 0.5 0 1 49 1 1 0.5 0 1
49 50
50
51 RUN STATISTICS FOR INPUT FILE: input_1.fastq.gz 51 RUN STATISTICS FOR INPUT FILE: input_1.fastq.gz
52 ============================================= 52 =============================================
53 2 sequences processed in total 53 2 sequences processed in total
54 Sequences removed because they became shorter than the length cutoff of 20 bp: 0 (0.0%) 54 Sequences removed because they became shorter than the length cutoff of 20 bp: 0 (0.0%)
55 55