[Genabel-commits] r1652 - pkg/ProbABEL/checks/R-tests

[noreply at r-forge.r-project.org]

Author: lckarssen
Date: 2014-03-19 18:11:01 +0100 (Wed, 19 Mar 2014)
New Revision: 1652

Modified:
   pkg/ProbABEL/checks/R-tests/run_models_in_R_pacox.R
Log:
Fix ProbABEL bug #5404 "ProbABEL's R check for Cox regression doesn't check if the survival package is installed".

Solution: simply quit R if the survival package is not installed.


Modified: pkg/ProbABEL/checks/R-tests/run_models_in_R_pacox.R
===================================================================
--- pkg/ProbABEL/checks/R-tests/run_models_in_R_pacox.R	2014-03-18 15:25:06 UTC (rev 1651)
+++ pkg/ProbABEL/checks/R-tests/run_models_in_R_pacox.R	2014-03-19 17:11:01 UTC (rev 1652)
@@ -1,5 +1,8 @@
 cat("Checking Cox PH regression...\n")
-library(survival)
+if (!require(survival)) {
+    cat("The R package 'survival' is not installed. Skipping Cox PH checks\n")
+    q()
+}
 
 args <- commandArgs(TRUE)
 srcdir <- args[1]