comparison test-data/sanger_full_range_report_results1.txt @ 16:cd7e644cae1d draft default tip

"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/trim_galore commit 276a0ec327f5369c16563696047f0d31577c353f"
author bgruening
date Fri, 08 Oct 2021 09:57:52 +0000
parents 084bbd8ba7b8
children
comparison
equal deleted inserted replaced
15:084bbd8ba7b8 16:cd7e644cae1d
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: 0.6.3 6 Trim Galore version: 0.6.7
7 Cutadapt version: 2.4 7 Cutadapt version: 3.4
8 Number of cores used for trimming: 1 8 Python version: could not detect
9 Number of cores used for trimming: 4
9 Quality Phred score cutoff: 20 10 Quality Phred score cutoff: 20
10 Quality encoding type selected: ASCII+33 11 Quality encoding type selected: ASCII+33
12 Unable to auto-detect most prominent adapter from the first specified file (count Nextera: 0, count smallRNA: 0, count Illumina: 0)
13 Defaulting to Illumina universal adapter ( AGATCGGAAGAGC ). Specify -a SEQUENCE to avoid this behavior).
11 Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection)) 14 Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection))
12 Maximum trimming error rate: 0.1 (default) 15 Maximum trimming error rate: 0.1 (default)
13 Minimum required adapter overlap (stringency): 1 bp 16 Minimum required adapter overlap (stringency): 1 bp
14 Minimum required sequence length before a sequence gets removed: 20 bp 17 Minimum required sequence length before a sequence gets removed: 20 bp
15 18
16 19
17 This is cutadapt 2.4 with Python 3.7.3 20 This is cutadapt 3.4 with Python 3.9.6
18 Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq 21 Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq
19 Processing reads on 1 core in single-end mode ... 22 Processing reads on 4 cores in single-end mode ...
20 Finished in 0.00 s (1608 us/read; 0.04 M reads/minute). 23 Finished in 0.01 s (5282 ┬Ás/read; 0.01 M reads/minute).
21 24
22 === Summary === 25 === Summary ===
23 26
24 Total reads processed: 2 27 Total reads processed: 2
25 Reads with adapters: 1 (50.0%) 28 Reads with adapters: 1 (50.0%)
29 Quality-trimmed: 20 bp (10.6%) 32 Quality-trimmed: 20 bp (10.6%)
30 Total written (filtered): 167 bp (88.8%) 33 Total written (filtered): 167 bp (88.8%)
31 34
32 === Adapter 1 === 35 === Adapter 1 ===
33 36
34 Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times. 37 Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times
35 38
36 No. of allowed errors: 39 No. of allowed errors:
37 0-9 bp: 0; 10-13 bp: 1 40 1-9 bp: 0; 10-13 bp: 1
38 41
39 Bases preceding removed adapters: 42 Bases preceding removed adapters:
40 A: 0.0% 43 A: 0.0%
41 C: 100.0% 44 C: 100.0%
42 G: 0.0% 45 G: 0.0%