changeset 26:5dc37f46a8a4 draft

Deleted selected files

--- a/packages.R	Fri Oct 02 11:56:29 2015 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,22 +0,0 @@
-library(acepack)
-#library(colorspace)
-#library(dichromat)
-#library(digest)
-#library(Formula)
-#library(gtable)
-#library(labeling)
-#library(magrittr)
-#library(proto)
-#library(Rcpp)
-#library(RColorBrewer)
-#library(rjson)
-#library(snow)
-#library(SparseM)
-#library(stringi)
-#library(stringr)
-#library(XML)
-#library(xtable)
-
-args<-commandArgs(TRUE)
-writeLines(capture.output(sessionInfo()), args[1])
-sessionInfo()

--- a/r_info.sh	Fri Oct 02 11:56:29 2015 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,30 +0,0 @@
-#!/bin/sh
-
-
-#Copied from https://github.com/galaxyproject/galaxy/blob/dev/tools/stats/r_wrapper.sh
-
-### Run R providing the R script in $1 as standard input and passing 
-### the remaining arguments on the command line
-
-# Function that writes a message to stderr and exits
-fail()
-{
-    echo "$@" >&2
-    exit 1
-}
-
-# Ensure R executable is found
-which R > /dev/null || fail "'R' is required by this tool but was not found on path" 
-
-# Extract first argument
-rfile=$1
-package_file=$2
-version_file=$3
-
-# Ensure the file exists
-test -f $infile || fail "R input file '$infile' does not exist"
-
-# Invoke R passing file named by first argument to stdin
-#Remove --slave for full R output
-R --vanilla --slave --args $package_file < $rfile
-echo "done"

--- a/r_info.xml	Fri Oct 02 11:56:29 2015 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,30 +0,0 @@
-<tool id="r_extended_level_one_sessioninfo" name="r_extended_level_one sessionInfo" version="0.1.beta">
-  <requirements>
-    <requirement type="package" version="3.1.2">R</requirement>
-    <requirement type="package" version="0.0.1">R_extend</requirement>
-    <!--requirement type="package" version="2.0-0">R_dichroma</requirement-->
-  </requirements>  
-  <description>Lists packages installed into R</description>
-  <stdio>
-        <exit_code range="1" level="fatal" description="Error code 1 occurred" />
-        <exit_code range="2:255" level="fatal" description="Unknown error occurred" />
-  </stdio>
-  <command   interpreter="bash">
-    r_info.sh $__tool_directory__/packages.R $packages
-  </command>
-  <outputs>
-    <data format="txt" name="packages" label="R Session Info"/>
-  </outputs>
-
-  <tests>
-  </tests>
-
-  <help>
-<![CDATA[
-This is a verification tool to see exactly which R this galaxy server is using.
-
-It will outout the R version info and the R packages installed.
-    ]]>
-  </help>
-
-</tool>