Mercurial > repos > bgruening > trim_galore
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 |
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date | Fri, 08 Oct 2021 09:57:52 +0000 |
parents | 084bbd8ba7b8 |
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15:084bbd8ba7b8 | 16:cd7e644cae1d |
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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 µs/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% |