view test-data/input/test.txt @ 10:350bbc5c2ffd draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_view commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
author iuc
date Tue, 28 Sep 2021 16:18:32 +0000
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@HD	VN:1.0	SO:coordinate
@SQ	SN:chrM	LN:16660	M5:732d956b0927aa063007fb18c839890a	UR:/usr/users/ga002/soranzon/software/galaxyproject_tools-iuc/tool_collections/samtools/bam_to_cram/test-data/cached_locally/chr_m.fasta
@RG	ID:rg1	SM:s1
@PG	ID:samtools	PN:samtools	VN:1.12	CL:samtools view -@ 0 -b -o outfile -T /home/florian/.planemo/planemo_tmp__buk0m5w/test-data/cached_locally/chr_m.fasta -t /home/florian/.planemo/planemo_tmp__buk0m5w/test-data/cached_locally/chr_m.fasta.fai infile
@PG	ID:samtools.1	PN:samtools	PP:samtools	VN:1.12	CL:samtools sort -@ 0 -m 576M -T . -O bam -o tmpsam outfile
@PG	ID:samtools.2	PN:samtools	PP:samtools.1	VN:1.12	CL:samtools view -h sam_to_bam_out2.bam
HWI-EAS91_1_30788AAXX:1:1:1698:516	16	chrM	2735	25	36M	*	0	0	TTTACACTCAGAGGTTCAACTCCTCTCNNTAACAAC	I9IIIII5IIIIIIIIIIIIIIIIIII""IIIIIII	X1:i:1	MD:Z:27C0C7	NM:i:2	RG:Z:rg1
HWI-EAS91_1_30788AAXX:1:1:1398:854	16	chrM	3921	25	36M	*	0	0	CACCCTTCCCGTACTAATAAATCCCCTNNTCTTCAC	IIIII=AIIIIIIIIIIIIIIBIIIII""IIIIIII	X1:i:1	MD:Z:27T0A7	NM:i:2	RG:Z:rg1
HWI-EAS91_1_30788AAXX:1:1:1716:413	0	chrM	6040	25	36M	*	0	0	GATCCAANNCTTTATCAACACCTATTCTGATTCTTC	IIIIIII""IIIIIIIIIIIIIIIIIIIIIIIIIII	X1:i:1	MD:Z:7T0C27	NM:i:2	RG:Z:rg1
HWI-EAS91_1_30788AAXX:1:1:1634:211	0	chrM	9350	25	36M	*	0	0	GAAGCAGNNGCTTGATACTGACACTTCGTCGACGTA	IIIIIII""IIIIIIIIIIIIIIIIIIIIII9IIDF	X1:i:1	MD:Z:7C0C27	NM:i:2	RG:Z:rg1
HWI-EAS91_1_30788AAXX:1:1:1513:715	16	chrM	9563	25	36M	*	0	0	CTGACTACCACAACTAAACATCTATGCNNAAAAAAC	I+-II?IDIIIIIIIIIIIIIIIIIII""IIIIIII	X1:i:1	MD:Z:27A0G7	NM:i:2	RG:Z:rg1
HWI-EAS91_1_30788AAXX:1:1:1310:991	16	chrM	10002	25	36M	*	0	0	CTCCTATGCCTAGAAGGAATAATACTANNACTATTC	I:2IEI:IIDIIIIII4IIIIIIIIII""IIIIIII	X1:i:1	MD:Z:27T0C7	NM:i:2	RG:Z:rg1
HWI-EAS91_1_30788AAXX:1:1:1711:249	16	chrM	10617	25	36M	*	0	0	ACCAAACAGAACGCCTGAACGCAGGCCNNTACTTCC	IIIIIIIIIIIIIIIIIIIIIIIIIII""IIIIIII	X1:i:1	MD:Z:27T0C7	NM:i:2	RG:Z:rg1
HWI-EAS91_1_30788AAXX:1:1:1491:637	16	chrM	10864	25	36M	*	0	0	TGTAGAAGCCCCAATTGCCGGATCCATNNTGCTAGC	DBAIIIIIIIIIIIFIIIIIIIIIIII""IIIIIII	X1:i:1	MD:Z:27A0G7	NM:i:2	RG:Z:rg1
HWI-EAS91_1_30788AAXX:1:1:1630:59	16	chrM	12387	25	36M	*	0	0	TCATACTCGACCCCAACCTTACCAACCNNCCGCTCC	FIIHII;IIIIIIIIIIIIIIIIIIII""IIIIIII	X1:i:1	MD:Z:27T0C7	NM:i:2	RG:Z:rg1
HWI-EAS91_1_30788AAXX:1:1:1218:141	16	chrM	14062	25	36M	*	0	0	ACAAAACTAACAACAAAAATAACACTCNNAATAAAC	I+IIII1IIIIIIIIIIIIIIIIIIII""IIIIIII	X1:i:1	MD:Z:27A0A7	NM:i:2	RG:Z:rg1