diff test-data/samblaster.txt @ 0:3bad335ccea9 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc commit 264fd61d39f252ebb81731bf6cd3349fdb39b306
author iuc
date Tue, 24 Oct 2017 06:29:59 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/samblaster.txt	Tue Oct 24 06:29:59 2017 -0400
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+samblaster: Version 0.1.22
+samblaster: Inputting from stdin
+samblaster: Outputting to stdout
+samblaster: Opening /vagrant/test-out6/virtual-normal-samblaster-markdups.txt for write.
+[bam_header_read] EOF marker is absent. The input is probably truncated.
+[M::mem_pestat] skip orientation FF as there are not enough pairs
+[M::mem_pestat] skip orientation FR as there are not enough pairs
+[M::mem_pestat] skip orientation RF as there are not enough pairs
+[M::mem_pestat] skip orientation RR as there are not enough pairs
+samblaster: Loaded 86 header sequence entries.
+samblaster: Removed 1 of 78 (1.28%) read ids as duplicates using 1724k memory in 0.000S CPU seconds and 31S wall time.
+[main] Version: 0.7.7-r441
+[main] CMD:[samopen] SAM header is present: 86 sequences.
+ bwa mem -M -v 1 -R @RG\tID:virtual-normal\tSM:virtual-normal\tLB:virtual-normal\tPL:ILLUMINA -t 2 /proj/b2010040/private/nobackup/autoseq-genome/bwa/human_g1k_v37_decoy.fasta /vagrant/test-out6/skewer/virtual-normal_1.fastq.gz /vagrant/test-out6/skewer/virtual-normal_2.fastq.gz
+[main] Real time: 30.780 sec; CPU: 13.292 sec