Mercurial > repos > galaxyp > custom_pro_db

comparison customProDB.R @ 15:87274e4ef662 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 9910ed076e4b8a3f083351b89fa861d0a4a93beb
author galaxyp
date Wed, 17 May 2017 20:23:20 -0400
parents bc10f130dbec
children c429c2baecb8
comparison
equal deleted inserted replaced
14:bc10f130dbec 15:87274e4ef662
97 97
98 bamLink = "input.bam" 98 bamLink = "input.bam"
99 file.symlink(bam_file, bamLink) 99 file.symlink(bam_file, bamLink)
100 file.symlink(bai_file, paste(bamLink, ".bai", sep="")) 100 file.symlink(bai_file, paste(bamLink, ".bai", sep=""))
101 101
102 # load from GitHub until conda package is available
103 download.file("https://github.com/ggrothendieck/sqldf/archive/master.zip", "sqldf.zip", quiet=TRUE)
104 unzip("sqldf.zip")
105 devtools::load_all("sqldf-master")
106
107 # load customProDB from GitHub (NOTE: downloading the zip is faster than cloning the repo with git2r or devtools::install_github) 102 # load customProDB from GitHub (NOTE: downloading the zip is faster than cloning the repo with git2r or devtools::install_github)
108 download.file("https://github.com/chambm/customProDB/archive/master.zip", "customProDB.zip", quiet=TRUE) 103 download.file("https://github.com/chambm/customProDB/archive/master.zip", "customProDB.zip", quiet=TRUE)
109 unzip("customProDB.zip") 104 unzip("customProDB.zip")
110 devtools::load_all("customProDB-master") 105 devtools::load_all("customProDB-master")
111 106