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comparison test-data/sanger_full_range_report_results1.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 4 Input filename: input_1.fastq
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 15
15 16
16 This is cutadapt 1.13 with Python 3.5.3 17 This is cutadapt 2.4 with Python 3.7.3
17 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq 18 Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq
18 Trimming 1 adapter with at most 10.0% errors in single-end mode ... 19 Processing reads on 1 core in single-end mode ...
19 Finished in 0.01 s (5000 us/read; 0.01 M reads/minute). 20 Finished in 0.00 s (1608 us/read; 0.04 M reads/minute).
20 21
21 === Summary === 22 === Summary ===
22 23
23 Total reads processed: 2 24 Total reads processed: 2
24 Reads with adapters: 1 (50.0%) 25 Reads with adapters: 1 (50.0%)
44 45
45 Overview of removed sequences 46 Overview of removed sequences
46 length count expect max.err error counts 47 length count expect max.err error counts
47 1 1 0.5 0 1 48 1 1 0.5 0 1
48 49
49
50 RUN STATISTICS FOR INPUT FILE: input_1.fastq 50 RUN STATISTICS FOR INPUT FILE: input_1.fastq
51 ============================================= 51 =============================================
52 2 sequences processed in total 52 2 sequences processed in total
53 Sequences removed because they became shorter than the length cutoff of 20 bp: 0 (0.0%) 53 Sequences removed because they became shorter than the length cutoff of 20 bp: 0 (0.0%)
54 54