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