aboutsummaryrefslogtreecommitdiff
path: root/docs/articles/compiled_models.R
diff options
context:
space:
mode:
authorJohannes Ranke <jranke@uni-bremen.de>2018-03-03 10:39:34 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2018-03-03 10:39:34 +0100
commit5aec8e34680e05671347f7577ae36c9ad8e37063 (patch)
tree2cfc0f696cc202e9c9a7b7951930bfe88c355d23 /docs/articles/compiled_models.R
parent7ceb1dc732ac8674dd8dd70b798fe12378ec10af (diff)
parent8650f26f63a64ac8b72326e2679719744ac99f07 (diff)
Merge branch 'master' of kolab:mkin
Diffstat (limited to 'docs/articles/compiled_models.R')
-rw-r--r--docs/articles/compiled_models.R55
1 files changed, 0 insertions, 55 deletions
diff --git a/docs/articles/compiled_models.R b/docs/articles/compiled_models.R
deleted file mode 100644
index c5b06c11..00000000
--- a/docs/articles/compiled_models.R
+++ /dev/null
@@ -1,55 +0,0 @@
-## ---- include = FALSE----------------------------------------------------
-library(knitr)
-opts_chunk$set(tidy = FALSE, cache = FALSE)
-
-## ----check_gcc-----------------------------------------------------------
-Sys.which("gcc")
-
-## ----create_SFO_SFO------------------------------------------------------
-library("mkin", quietly = TRUE)
-SFO_SFO <- mkinmod(
- parent = mkinsub("SFO", "m1"),
- m1 = mkinsub("SFO"))
-
-## ----benchmark_SFO_SFO, fig.height = 3-----------------------------------
-if (require(rbenchmark)) {
- b.1 <- benchmark(
- "deSolve, not compiled" = mkinfit(SFO_SFO, FOCUS_2006_D,
- solution_type = "deSolve",
- use_compiled = FALSE, quiet = TRUE),
- "Eigenvalue based" = mkinfit(SFO_SFO, FOCUS_2006_D,
- solution_type = "eigen", quiet = TRUE),
- "deSolve, compiled" = mkinfit(SFO_SFO, FOCUS_2006_D,
- solution_type = "deSolve", quiet = TRUE),
- replications = 3)
- print(b.1)
- factor_SFO_SFO <- round(b.1["1", "relative"])
-} else {
- factor_SFO_SFO <- NA
- print("R package benchmark is not available")
-}
-
-## ----benchmark_FOMC_SFO, fig.height = 3----------------------------------
-if (require(rbenchmark)) {
- FOMC_SFO <- mkinmod(
- parent = mkinsub("FOMC", "m1"),
- m1 = mkinsub( "SFO"))
-
- b.2 <- benchmark(
- "deSolve, not compiled" = mkinfit(FOMC_SFO, FOCUS_2006_D,
- use_compiled = FALSE, quiet = TRUE),
- "deSolve, compiled" = mkinfit(FOMC_SFO, FOCUS_2006_D, quiet = TRUE),
- replications = 3)
- print(b.2)
- factor_FOMC_SFO <- round(b.2["1", "relative"])
-} else {
- factor_FOMC_SFO <- NA
- print("R package benchmark is not available")
-}
-
-## ----sessionInfo, echo = FALSE-------------------------------------------
-cat(capture.output(sessionInfo())[1:3], sep = "\n")
-if(!inherits(try(cpuinfo <- readLines("/proc/cpuinfo")), "try-error")) {
- cat(gsub("model name\t: ", "CPU model: ", cpuinfo[grep("model name", cpuinfo)[1]]))
-}
-

Contact - Imprint