R Under development (unstable) (2023-11-16 r85542 ucrt) -- "Unsuffered Consequences"
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> # Test augmentation with MQM
> #
> # Note: the full version of this test has moved to ./contrib/bin/rtest, 
> #       as it takes a long time to run. The full version can be run with:
> #
> #   cd contrib/bin
> #   rm CMakeCache.txt ; cmake -DTEST_R=TRUE
> #   make testR
> 
> library(qtl)
> 
> set.seed(1000)              
> 
> version = mqm_version()
> cat("R/qtl=",version$RQTL)
R/qtl= 1.62> cat("R-MQM=",version$RMQM)
R-MQM= 0.90-pre1> cat("MQM=",version$MQM)
MQM= 0.90-pre1> 
> testaugmentation <- function(cross, ...){
+   crossML <- mqmaugment(cross, ...)
+ 
+   res1 <- mqmscan(crossML,logtransform=TRUE)
+   list(res1)
+ }
> 
> data(listeria)
> r <- testaugmentation(listeria)
INFO: VALGRIND MEMORY DEBUG BARRIERE TRIGGERED
Warning message:
In mqmaugment(cross, ...) :
  MQM not yet available for the X chromosome; omitting chr X
> if(!round(r[[1]][3,3],3)==0.307) stop("Listeria ML dataaugmentation error")
> 
> cat("testaugmentation.R, tests succesfully run!")
testaugmentation.R, tests succesfully run!> 
> proc.time()
   user  system elapsed 
   1.40    0.15    1.56