Mercurial > repos > iuc > samtools_view
view test-data/input/test.txt @ 17:32dc5f781059 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_view commit 9c5a35ce695c3d134e41d8695487edd5f71ea33c
| author | iuc |
|---|---|
| date | Sun, 08 Sep 2024 03:27:39 +0000 |
| parents | 350bbc5c2ffd |
| children |
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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