# HG changeset patch
# User iuc
# Date 1725765713 0
# Node ID 157bab484e8139f45ff944a08cf3f2e2ac64cfe3
# Parent d83ad701f0118dfd23bd4dc29702659a22efae3b
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/sam_to_bam commit 9c5a35ce695c3d134e41d8695487edd5f71ea33c
diff -r d83ad701f011 -r 157bab484e81 macros.xml
--- a/macros.xml Sat Nov 27 12:27:56 2021 +0000
+++ b/macros.xml Sun Sep 08 03:21:53 2024 +0000
@@ -5,8 +5,15 @@
- 1.13
- 20.05
+
+ 1.20
+ 2
+ 22.05
-
+
@HELP@
@@ -212,37 +219,7 @@
-
- @misc{SAM_def,
- title={Definition of SAM/BAM format},
- url = {https://samtools.github.io/hts-specs/},}
-
- 10.1093/bioinformatics/btp352
- 10.1093/bioinformatics/btr076
- 10.1093/bioinformatics/btr509
-
- @misc{Danecek_et_al,
- Author={Danecek, P., Schiffels, S., Durbin, R.},
- title={Multiallelic calling model in bcftools (-m)},
- url = {http://samtools.github.io/bcftools/call-m.pdf},}
-
-
- @misc{Durbin_VCQC,
- Author={Durbin, R.},
- title={Segregation based metric for variant call QC},
- url = {http://samtools.github.io/bcftools/rd-SegBias.pdf},}
-
-
- @misc{Li_SamMath,
- Author={Li, H.},
- title={Mathematical Notes on SAMtools Algorithms},
- url = {http://www.broadinstitute.org/gatk/media/docs/Samtools.pdf},}
-
-
- @misc{SamTools_github,
- title={SAMTools GitHub page},
- url = {https://github.com/samtools/samtools},}
-
+ 10.1093/gigascience/giab008
diff -r d83ad701f011 -r 157bab484e81 test-data/sam_to_bam_out1.bam
Binary file test-data/sam_to_bam_out1.bam has changed
diff -r d83ad701f011 -r 157bab484e81 test-data/sam_to_bam_out2.bam
Binary file test-data/sam_to_bam_out2.bam has changed
diff -r d83ad701f011 -r 157bab484e81 test-data/sam_to_bam_out3.bam
Binary file test-data/sam_to_bam_out3.bam has changed