diff test-data/sanger_full_range_report_results1.txt @ 6:11962ce40855 draft

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/trim_galore commit 9198b904ef37fe46007256f1734c33de6d23331b-dirty
author bgruening
date Wed, 07 Oct 2015 08:39:59 -0400
parents 2c1f0fe810f7
children b4e39d993fc8
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line diff
--- a/test-data/sanger_full_range_report_results1.txt	Wed Apr 15 17:31:52 2015 -0400
+++ b/test-data/sanger_full_range_report_results1.txt	Wed Oct 07 08:39:59 2015 -0400
@@ -3,34 +3,48 @@
 ==========================
 Input filename: ./input_singles
 Trimming mode: single-end
-Trim Galore version: 0.3.7
+Trim Galore version: 0.4.0
+Cutadapt version: 1.8
 Quality Phred score cutoff: 20
 Quality encoding type selected: ASCII+33
-Adapter sequence: 'AGATCGGAAGAGC'
+Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection))
 Maximum trimming error rate: 0.1 (default)
 Minimum required adapter overlap (stringency): 1 bp
 Minimum required sequence length before a sequence gets removed: 20 bp
 
 
-cutadapt version 1.1
+This is cutadapt 1.8 with Python 2.7.9
 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ./input_singles
-Maximum error rate: 10.00%
-   Processed reads: 2
-     Trimmed reads: 1 ( 50.0%)
-   Total basepairs:          168 (0.0 Mbp)
- Trimmed basepairs:            1 (0.0 Mbp) (0.60% of total)
-   Too short reads: 0 (  0.0% of processed reads)
-    Too long reads: 0 (  0.0% of processed reads)
-        Total time:      0.00 s
-     Time per read:      0.32 ms
+Trimming 1 adapter(s) with at most 10.0% errors in single-end mode ...
+Finished in 0.10 s (50000 us/read; 0.00 M reads/minute).
+
+=== Summary ===
+
+Total reads processed:                       2
+Reads with adapters:                         1 (50.0%)
+Reads written (passing filters):             2 (100.0%)
+
+Total basepairs processed:           188 bp
+Quality-trimmed:                      20 bp (10.6%)
+Total written (filtered):            167 bp (88.8%)
 
 === Adapter 1 ===
 
-Adapter 'AGATCGGAAGAGC', length 13, was trimmed 1 times.
+Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 1 times.
+
+No. of allowed errors:
+0-9 bp: 0; 10-13 bp: 1
 
-Lengths of removed sequences
-length	count	expected
-1	1	0.5
+Bases preceding removed adapters:
+  A: 0.0%
+  C: 100.0%
+  G: 0.0%
+  T: 0.0%
+  none/other: 0.0%
+
+Overview of removed sequences
+length	count	expect	max.err	error counts
+1	1	0.5	0	1
 
 
 RUN STATISTICS FOR INPUT FILE: ./input_singles