annotate 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
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2 SUMMARISING RUN PARAMETERS
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3 ==========================
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4 Input filename: input_1.fastq
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5 Trimming mode: single-end
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6 Trim Galore version: 0.6.7
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7 Cutadapt version: 3.4
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8 Python version: could not detect
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9 Number of cores used for trimming: 4
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10 Quality Phred score cutoff: 20
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11 Quality encoding type selected: ASCII+33
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12 Unable to auto-detect most prominent adapter from the first specified file (count Nextera: 0, count smallRNA: 0, count Illumina: 0)
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13 Defaulting to Illumina universal adapter ( AGATCGGAAGAGC ). Specify -a SEQUENCE to avoid this behavior).
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14 Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection))
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15 Maximum trimming error rate: 0.1 (default)
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16 Minimum required adapter overlap (stringency): 1 bp
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17 Minimum required sequence length before a sequence gets removed: 20 bp
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20 This is cutadapt 3.4 with Python 3.9.6
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21 Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC input_1.fastq
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22 Processing reads on 4 cores in single-end mode ...
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23 Finished in 0.01 s (5282 ┬Ás/read; 0.01 M reads/minute).
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25 === Summary ===
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27 Total reads processed: 2
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28 Reads with adapters: 1 (50.0%)
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29 Reads written (passing filters): 2 (100.0%)
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31 Total basepairs processed: 188 bp
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32 Quality-trimmed: 20 bp (10.6%)
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33 Total written (filtered): 167 bp (88.8%)
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35 === Adapter 1 ===
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37 Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times
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39 No. of allowed errors:
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40 1-9 bp: 0; 10-13 bp: 1
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42 Bases preceding removed adapters:
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43 A: 0.0%
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44 C: 100.0%
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45 G: 0.0%
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46 T: 0.0%
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47 none/other: 0.0%
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49 Overview of removed sequences
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50 length count expect max.err error counts
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51 1 1 0.5 0 1
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53 RUN STATISTICS FOR INPUT FILE: input_1.fastq
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54 =============================================
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55 2 sequences processed in total
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56 Sequences removed because they became shorter than the length cutoff of 20 bp: 0 (0.0%)
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