Mercurial > repos > nturaga > minfi_analyze_tcga
changeset 1:3cd8ea4f7079 draft default tip
planemo upload commit fb90aafc93e5e63acfcdac4c27cfd865cdf06c5a-dirty
| author | nturaga |
|---|---|
| date | Tue, 19 Apr 2016 12:21:01 -0400 |
| parents | 8b26eeb2da29 |
| children | |
| files | minfi_pipeline.R tool_dependencies.xml |
| diffstat | 2 files changed, 3 insertions(+), 1 deletions(-) [+] |
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--- a/minfi_pipeline.R Tue Apr 19 11:11:16 2016 -0400 +++ b/minfi_pipeline.R Tue Apr 19 12:21:01 2016 -0400 @@ -4,6 +4,8 @@ # we need that to not crash galaxy with an UTF8 error on German LC settings. loc <- Sys.setlocale("LC_MESSAGES", "en_US.UTF-8") +install.packages('getopt', repos='http://cran.us.r-project.org') + library("getopt") options(stringAsfactors = FALSE, useFancyQuotes = FALSE) args <- commandArgs(trailingOnly = TRUE)
--- a/tool_dependencies.xml Tue Apr 19 11:11:16 2016 -0400 +++ b/tool_dependencies.xml Tue Apr 19 12:21:01 2016 -0400 @@ -2,7 +2,7 @@ <tool_dependency> <package name="minfi" version="1.16.0"> # TODO: - <repository changeset_revision="f453b1c037bc" name="package_minfi_1_16_0" owner="nturaga" toolshed="https://toolshed.g2.bx.psu.edu" /> + <repository changeset_revision="d0cee75b3e2e" name="package_minfi_1_16_0" owner="nturaga" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> <package name="R" version="3.2.1"> <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />