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databio / bulker

Manager for multi-container computing environments
https://bulker.io
BSD 2-Clause "Simplified" License
24 stars 2 forks source link

display commands in alphabetical order #65

Closed nsheff closed 3 years ago

nsheff commented 4 years ago

bulker should display commands in alphabetical order

databio/lab|~$ bulker inspect
Bulker config: /project/shefflab/rivanna_config/bulker.yaml
Bulker manifest: databio/lab
Crate path: /project/shefflab/bulker/bulker_crates/databio/lab/default
Available commands: ['bedIntersect', 'timeout', 'pigz', 'split', 'ln', 'hisat2', 'expand', 'cufflinks', 'bigWigCat', 'seqtk', 'tr', 'dircolors', 'mkfifo', 'wc', 'rm', 'logname', 'cellranger', 'curl', 'expr', 'yes', 'hostname', 'chmod', 'sambamba', 'comm', 'sha512sum', 'macs2', 'Rd', 'install', 'md5sum', 'od', 'Rscript', 'cut', 'nice', 'mv', 'ascp', 'sed', 'tsort', 'prefetch', 'aws', 'sha224sum', 'id', 'pathchk', 'mashmap', 'paste', 'false', 'bash', 'which', 'rmdir', 'whoami', 'tac', 'picard', 'tail', 'singularity', 'csplit', 'bedItemOverlapCount', 'base32', 'R', 'sum', 'khmer', 'bedGraphToBigWig', 'dirname', 'sha256sum', 'pr', 'mkdir', 'dd', 'unexpand', 'awk', 'wigToBigWig', 'join', 'realpath', 'gt', 'seq', 'trimmomatic', 'R3.6', 'ptx', 'vep', 'Rscriptd', 'uptime', 'vdb-config', 'sh', 'base64', 'Rscript3.6', 'who', 'tee', 'refgenie', 'shred', 'rg', 'head', 'true', 'tabix', 'cp', 'stty', 'du', 'cat', 'fasterq-dump', 'cksum', 'bowtie2', 'bedClip', 'chown', 'repeatmasker', 'sync', 'bedtools', 'salmon', 'bedCommonRegions', 'bismark', 'faSplit', 'bedPileUps', 'cutadapt', 'liftOver', 'arch', 'bedToBigBed', 'blast', 'sort', 'bowtie', 'dir', 'gatk', 'date', 'env', 'fastqc', 'mknod', 'sleep', 'bigWigAverageOverBed', 'chgrp', 'factor', 'pwd', 'sha1sum', 'stat', 'ls', 'test', 'fmt', 'link', 'vdir', 'echo', 'basename', 'numfmt', 'shuf', 'nl', 'b2sum', 'hostid', 'touch', 'trim_galore', 'uniq', 'homer', 'samblaster', 'STAR', 'tty', 'samtools', 'nproc', 'bedops', 'unlink', 'groups', 'seqkit', 'bissnp', 'grep', 'nohup', 'bsmap', 'printenv', 'skewer', 'bamtools', 'printf', 'bigWigSummary', 'kallisto', 'runcon', 'stdbuf', 'bwa', 'sha384sum', 'fold', 'fastq-dump', 'df', 'uname', 'RC', 'pinky', 'truncate', 'segway', 'users']