X-Git-Url: https://src.twobees.de/?a=blobdiff_plain;ds=sidebyside;f=stow%2Foh-my-zsh%2F.oh-my-zsh%2Fplugins%2Fsamtools%2F_samtools;fp=stow%2Foh-my-zsh%2F.oh-my-zsh%2Fplugins%2Fsamtools%2F_samtools;h=0000000000000000000000000000000000000000;hb=1a8e170bbe5c6641a26ab1ce2e6ce6c5c1faa4cd;hp=ddb002ae273277a99a261e01650d745e249f2b8b;hpb=475ba35502579302593f4735c853c49ef1845dcb;p=dotfiles.git diff --git a/stow/oh-my-zsh/.oh-my-zsh/plugins/samtools/_samtools b/stow/oh-my-zsh/.oh-my-zsh/plugins/samtools/_samtools deleted file mode 100644 index ddb002a..0000000 --- a/stow/oh-my-zsh/.oh-my-zsh/plugins/samtools/_samtools +++ /dev/null @@ -1,40 +0,0 @@ -#compdef samtools -#autoload - -local curcontext="$curcontext" state line ret=1 -local -a _files - -_arguments -C \ - '1: :->cmds' \ - '2:: :->args' && ret=0 - -case $state in - cmds) - _values "samtools command" \ - "view[SAM<->BAM conversion]" \ - "sort[sort alignment file]" \ - "mpileup[multi-way pileup]" \ - "depth[compute the depth]" \ - "faidx[index/extract FASTA]" \ - "tview[text alignment viewer]" \ - "index[index alignment]" \ - "idxstats[BAM index stats (r595 or later)]" \ - "fixmate[fix mate information]" \ - "flagstat[simple stats]" \ - "calmd[recalculate MD/NM tags and '=' bases]" \ - "merge[merge sorted alignments]" \ - "rmdup[remove PCR duplicates]" \ - "reheader[replace BAM header]" \ - "cat[concatenate BAMs]" \ - "bedcov[read depth per BED region]" \ - "targetcut[cut fosmid regions (for fosmid pool only)]" \ - "phase[phase heterozygotes]" \ - "bamshuf[shuffle and group alignments by name]" - ret=0 - ;; - *) - _files - ;; -esac - -return ret