Mercurial > repos > devteam > bam_to_sam
changeset 9:3c661e57a88f draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/bam_to_sam commit 9c5a35ce695c3d134e41d8695487edd5f71ea33c
| author | iuc |
|---|---|
| date | Sun, 08 Sep 2024 03:24:55 +0000 |
| parents | a53efedba9e7 |
| children | |
| files | macros.xml test-data/bam_to_sam_out1.sam test-data/bam_to_sam_out2.sam |
| diffstat | 3 files changed, 4 insertions(+), 4 deletions(-) [+] |
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--- a/macros.xml Mon Nov 20 22:14:02 2023 +0000 +++ b/macros.xml Sun Sep 08 03:24:55 2024 +0000 @@ -11,9 +11,9 @@ please only bump the minor version in order to let the requirement version catch up eventually). To find the tools check: `grep "<tool" . -r | grep -v VERSION_SUFFIX | cut -d":" -f 1` --> - <token name="@TOOL_VERSION@">1.15.1</token> + <token name="@TOOL_VERSION@">1.20</token> <token name="@VERSION_SUFFIX@">2</token> - <token name="@PROFILE@">20.05</token> + <token name="@PROFILE@">22.05</token> <token name="@FLAGS@"><![CDATA[ #set $flags = 0 #if $filter
--- a/test-data/bam_to_sam_out1.sam Mon Nov 20 22:14:02 2023 +0000 +++ b/test-data/bam_to_sam_out1.sam Sun Sep 08 03:24:55 2024 +0000 @@ -4,7 +4,7 @@ @SQ SN:chr8 LN:202 @RG ID:0 SM:Hi,Mom! @PG ID:1 PN:Hey! VN:2.0 -@PG ID:samtools PN:samtools PP:1 VN:1.12 CL:samtools view -o /tmp/tmpl_eh5cxt/files/3/b/2/dataset_3b2eeebc-108d-4ce9-a5b9-17e224264121.dat -h /tmp/tmpl_eh5cxt/files/1/2/d/dataset_12de9904-ebd8-436b-a125-8f034068385e.dat +@PG ID:samtools PN:samtools PP:1 VN:1.20 CL:samtools view -o /tmp/tmp3bwmizj1/job_working_directory/000/2/outputs/dataset_f1239316-7904-41f9-b3dd-a740a70acf8b.dat -h /tmp/tmp3bwmizj1/files/4/4/a/dataset_44af64ee-5cc1-4454-9cf0-6a3a24296b69.dat both_reads_align_clip_marked 83 chr7 1 255 101M = 302 201 CAACAGAAGCNGGNATCTGTGTTTGTGTTTCGGATTTCCTGCTGAANNGNTTNTCGNNTCNNNNNNNNATCCCGATTTCNTTCCGCAGCTNACCTCCCAAN )'.*.+2,))&&'&*/)-&*-)&.-)&)&),/-&&..)./.,.).*&&,&.&&-)&&&0*&&&&&&&&/32/,01460&&/6/*0*/2/283//36868/& RG:Z:0 both_reads_present_only_first_aligns 89 chr7 1 255 101M * 0 0 CAACAGAAGCNGGNATCTGTGTTTGTGTTTCGGATTTCCTGCTGAANNGNTTNTCGNNTCNNNNNNNNATCCCGATTTCNTTCCGCAGCTNACCTCCCAAN )'.*.+2,))&&'&*/)-&*-)&.-)&)&),/-&&..)./.,.).*&&,&.&&-)&&&0*&&&&&&&&/32/,01460&&/6/*0*/2/283//36868/& RG:Z:0 read_2_too_many_gaps 83 chr7 1 255 101M = 302 201 CAACAGAAGCNGGNATCTGTGTTTGTGTTTCGGATTTCCTGCTGAANNGNTTNTCGNNTCNNNNNNNNATCCCGATTTCNTTCCGCAGCTNACCTCCCAAN )'.*.+2,))&&'&*/)-&*-)&.-)&)&),/-&&..)./.,.).*&&,&.&&-)&&&0*&&&&&&&&/32/,01460&&/6/*0*/2/283//36868/& RG:Z:0
--- a/test-data/bam_to_sam_out2.sam Mon Nov 20 22:14:02 2023 +0000 +++ b/test-data/bam_to_sam_out2.sam Sun Sep 08 03:24:55 2024 +0000 @@ -4,4 +4,4 @@ @SQ SN:chr8 LN:202 @RG ID:0 SM:Hi,Mom! @PG ID:1 PN:Hey! VN:2.0 -@PG ID:samtools PN:samtools PP:1 VN:1.12 CL:samtools view -o /tmp/tmpl_eh5cxt/files/3/0/2/dataset_3025757e-159d-4ced-a398-2d7dc823e34b.dat -H /tmp/tmpl_eh5cxt/files/9/5/d/dataset_95dbe51c-ade9-4f37-9399-79ec158c1516.dat +@PG ID:samtools PN:samtools PP:1 VN:1.20 CL:samtools view -o /tmp/tmp3bwmizj1/job_working_directory/000/4/outputs/dataset_e689a4f6-7c14-4a65-9155-214ed5cbcfa7.dat -H /tmp/tmp3bwmizj1/files/7/d/5/dataset_7d5cef18-567a-4e59-86c6-0dcadae11b36.dat