diff test-data/paired_collection_example_results3.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
line wrap: on
line diff
--- a/test-data/paired_collection_example_results3.txt	Tue Jul 30 06:26:49 2019 -0400
+++ b/test-data/paired_collection_example_results3.txt	Fri Oct 08 09:57:52 2021 +0000
@@ -3,11 +3,13 @@
 ==========================
 Input filename: input_1.fastq
 Trimming mode: paired-end
-Trim Galore version: 0.6.3
-Cutadapt version: 2.4
-Number of cores used for trimming: 1
+Trim Galore version: 0.6.7
+Cutadapt version: 3.4
+Python version: could not detect
+Number of cores used for trimming: 4
 Quality Phred score cutoff: 20
 Quality encoding type selected: ASCII+33
+Using Nextera adapter for trimming (count: 29). Second best hit was Illumina (count: 0)
 Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected)
 Maximum trimming error rate: 0.1 (default)
 Minimum required adapter overlap (stringency): 1 bp
@@ -16,10 +18,10 @@
 Length cut-off for read 2: 35 bp (default)
 
 
-This is cutadapt 2.4 with Python 3.7.3
-Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq
-Processing reads on 1 core in single-end mode ...
-Finished in 0.01 s (72 us/read; 0.83 M reads/minute).
+This is cutadapt 3.4 with Python 3.9.6
+Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_1.fastq
+Processing reads on 4 cores in single-end mode ...
+Finished in 0.01 s (115 µs/read; 0.52 M reads/minute).
 
 === Summary ===
 
@@ -33,10 +35,10 @@
 
 === Adapter 1 ===
 
-Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times.
+Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 52 times
 
 No. of allowed errors:
-0-9 bp: 0; 10-12 bp: 1
+1-9 bp: 0; 10-12 bp: 1
 
 Bases preceding removed adapters:
   A: 9.6%
@@ -85,11 +87,13 @@
 ==========================
 Input filename: input_2.fastq
 Trimming mode: paired-end
-Trim Galore version: 0.6.3
-Cutadapt version: 2.4
-Number of cores used for trimming: 1
+Trim Galore version: 0.6.7
+Cutadapt version: 3.4
+Python version: could not detect
+Number of cores used for trimming: 4
 Quality Phred score cutoff: 20
 Quality encoding type selected: ASCII+33
+Using Nextera adapter for trimming (count: 29). Second best hit was Illumina (count: 0)
 Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; auto-detected)
 Maximum trimming error rate: 0.1 (default)
 Minimum required adapter overlap (stringency): 1 bp
@@ -98,10 +102,10 @@
 Length cut-off for read 2: 35 bp (default)
 
 
-This is cutadapt 2.4 with Python 3.7.3
-Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq
-Processing reads on 1 core in single-end mode ...
-Finished in 0.01 s (55 us/read; 1.08 M reads/minute).
+This is cutadapt 3.4 with Python 3.9.6
+Command line parameters: -j 4 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA input_2.fastq
+Processing reads on 4 cores in single-end mode ...
+Finished in 0.02 s (159 µs/read; 0.38 M reads/minute).
 
 === Summary ===
 
@@ -115,10 +119,10 @@
 
 === Adapter 1 ===
 
-Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times.
+Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 58 times
 
 No. of allowed errors:
-0-9 bp: 0; 10-12 bp: 1
+1-9 bp: 0; 10-12 bp: 1
 
 Bases preceding removed adapters:
   A: 12.1%