comparison test-data/sanger_full_range_report_results1gz.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.gz 4 Input filename: input_1.fastq.gz
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 Illumina: 0, count Nextera: 0, count smallRNA: 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 Output file will be GZIP compressed 18 Output file will be GZIP compressed
16 19
17 20
18 This is cutadapt 2.4 with Python 3.7.3 21 This is cutadapt 3.4 with Python 3.9.6
19 Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq.gz 22 Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq.gz
20 Processing reads on 1 core in single-end mode ... 23 Processing reads on 4 cores in single-end mode ...
21 Finished in 0.02 s (7871 us/read; 0.01 M reads/minute). 24 Finished in 0.01 s (5217 ┬Ás/read; 0.01 M reads/minute).
22 25
23 === Summary === 26 === Summary ===
24 27
25 Total reads processed: 2 28 Total reads processed: 2
26 Reads with adapters: 1 (50.0%) 29 Reads with adapters: 1 (50.0%)
30 Quality-trimmed: 20 bp (10.6%) 33 Quality-trimmed: 20 bp (10.6%)
31 Total written (filtered): 167 bp (88.8%) 34 Total written (filtered): 167 bp (88.8%)
32 35
33 === Adapter 1 === 36 === Adapter 1 ===
34 37
35 Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times. 38 Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times
36 39
37 No. of allowed errors: 40 No. of allowed errors:
38 0-9 bp: 0; 10-13 bp: 1 41 1-9 bp: 0; 10-13 bp: 1
39 42
40 Bases preceding removed adapters: 43 Bases preceding removed adapters:
41 A: 0.0% 44 A: 0.0%
42 C: 100.0% 45 C: 100.0%
43 G: 0.0% 46 G: 0.0%