Mercurial > repos > galaxyp > psm_to_sam

comparison PSM2SAM.R @ 3:16c4cc7793e9 draft default tip

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/psm2sam commit d4b5497065b853ed094aebc9e4185e9995c5e0e0
author galaxyp
date Wed, 01 Nov 2017 19:28:25 -0400
parents 757ecf27b4a9
children
comparison
equal deleted inserted replaced
2:757ecf27b4a9 3:16c4cc7793e9
51 { 51 {
52 stop("failed to read header lines from bam_file") 52 stop("failed to read header lines from bam_file")
53 } 53 }
54 54
55 # load customProDB from GitHub (NOTE: downloading the zip is faster than cloning the repo with git2r or devtools::install_github) 55 # load customProDB from GitHub (NOTE: downloading the zip is faster than cloning the repo with git2r or devtools::install_github)
56 download.file("https://github.com/chambm/customProDB/archive/c57e5498392197bc598a18c26acb70d7530a921c.zip", "customProDB.zip", quiet=TRUE) 56 download.file("https://github.com/chambm/customProDB/archive/9db2223ef9932e50124b92d1bc49206af1f40fb3.zip", "customProDB.zip", quiet=TRUE)
57 unzip("customProDB.zip") 57 unzip("customProDB.zip")
58 devtools::load_all("customProDB-c57e5498392197bc598a18c26acb70d7530a921c") 58 devtools::load_all("customProDB-9db2223ef9932e50124b92d1bc49206af1f40fb3")
59 59
60 # load proBAMr from GitHub 60 # load proBAMr from GitHub
61 download.file("https://github.com/chambm/proBAMr/archive/a03edf68f51215be40717c5374f39ce67bd2e68b.zip", "proBAMr.zip", quiet=TRUE) 61 download.file("https://github.com/chambm/proBAMr/archive/a03edf68f51215be40717c5374f39ce67bd2e68b.zip", "proBAMr.zip", quiet=TRUE)
62 unzip("proBAMr.zip") 62 unzip("proBAMr.zip")
63 devtools::load_all("proBAMr-a03edf68f51215be40717c5374f39ce67bd2e68b") 63 devtools::load_all("proBAMr-a03edf68f51215be40717c5374f39ce67bd2e68b")