From pgilbert@bank-banque-canada.ca  Tue Jul 27 15:51:10 1999
From: pgilbert@bank-banque-canada.ca (Paul Gilbert)
Date: Tue, 27 Jul 1999 10:51:10 -0400
Subject: Memory profiling/benchmarking
References: <19990727171758.A2622@stat1.stat.auckland.ac.nz>
Message-ID: <379DC75D.DFFAFBC6@bank-banque-canada.ca>

Lyndon

There are several test scripts with my DSE library available at
<http://www.bank-banque-canada.ca/pgilbert>. (Please don't make the mistake of
trying to install the version on CRAN - it installs with  R 0.61 but there have
been a lot of changes to R since then.)

The library calls compiled fortran for the really loop intensive core
calculations, but this is fairly representative of R. With R (up to 0.64.2) the
shortest set of tests (test.dse.lite) takes 7-8 minutes on a Sparc Ultra 10.
(Splus 3.3 takes 4-5 minutes.) There are several longer tests, including some
curvature calculations which take many hours. (In some of the more complicated
tests there are a few things which do not work in R, but most things do.) I use
generic functions a lot, and also use a set of "kernel" functions to help
protect my code from ongoing changes in R and S. This means that function
dispatch gets heavily exercised.

Attached below are results from the light and medium test for 0.64.2 and the
development snapshot (0.65) from a month ago (June 11). These show the timing at
the bottom of each test. As I recall I had to make a small fix to 0.64.2 in
order to get things working - but I don't remember what it was. If you have a
problem, send me the error message and it will jog my memory. I don't see a
large difference in the times, but I don't know if hashing was already in the
snapshot I have.

The pending changes in the ts library will have some affect on what has to be
attached to run the tests. Hopefully I will get a chance to test the library
today or tomorrow.

I would like to see the results of your testing, even if you decide not to use
these test.

Paul Gilbert
_________


On a sparc Ultra 10
R-0.64.2/
+++++++++++++++++++++++++++++++++++++++++++++++++
         running R  test.dse.lite
+++++++++++++++++++++++++++++++++++++++++++++++++
RLIBS set to /home/mfa5/gilp/dse/pub/Rdse/rlibs
>    library("dse")

Attaching Package "package:syskern":


 The following object(s) are masked from package:dse :

  is.S is.Splus is.Svanilla rnorm


 The following object(s) are masked from package:base :

  RNGkind rnorm runif


Attaching Package "package:tframe":


 The following object(s) are masked from package:base :

  [.ts summary.default ts tsp<- window.default window.ts


Attaching Package "package:dse":


 The following object(s) are masked from package:base :

  [.ts summary.default ts tsp<- window.default window.ts

>    library("dse2")

Attaching Package "package:dsex1":


 The following object(s) are masked from package:base :

  curve

>    library("mva")
>    library("bats")

Attaching Package "package:bats":


 The following object(s) are masked from package:base :

  convolve

>
>    source("test.lite.s")
dse.1999.07alphaR Warning: This system is the by-product of on-going research.
It has not been completely tested.
Random number generator tests ...ok
All tframe tests ... OK
All dse1 (kernel) tests ... OK
All dse2 tests ... OK
All dse3 tests ... OK
All dse4 tests ...Warning: skipping test 4 (requires stepwise).
 OK
dse2 graphics tests ...Warning: Specified end later than end of data, end not
changed.
Warning: Specified end later than end of data, end not changed.
Warning: Specified end later than end of data, end not changed.
completed
dse3 graphics tests ...completed
dse4 graphics tests ...completed
All Brief User Guide example part 1 tests ... OK
All dse juice tests ...juice graphics tests ... OK
 OK
>
>
=========================================
R test.lite.s timing:
start Tuesday July 27 09:27:11 EDT 1999
end   Tuesday July 27 09:34:59 EDT 1999
SunOS mfa99551 5.6 Generic_105181-11 sun4u sparc SUNW,Ultra-5_10
=========================================
+++++++++++++++++++++++++++++++++++++++++++++++++
         running R  test.dse.medium
+++++++++++++++++++++++++++++++++++++++++++++++++
>   x11()
> library("dse", warn.conflicts=FALSE)

Attaching Package "package:syskern":


 The following object(s) are masked from package:dse :

  is.S is.Splus is.Svanilla rnorm


 The following object(s) are masked from package:base :

  RNGkind rnorm runif


Attaching Package "package:tframe":


 The following object(s) are masked from package:base :

  [.ts summary.default ts tsp<- window.default window.ts

> library("dse2", warn.conflicts=FALSE)

Attaching Package "package:dsex1":


 The following object(s) are masked from package:base :

  curve

> library("opt")
> library("bats")

Attaching Package "package:bats":


 The following object(s) are masked from package:base :

  convolve

>
>    source("test.medium.s")
dse.1999.07alphaR Warning: This system is the by-product of on-going research.
It has not been completely tested.
Brief User Guide example part 2 tests ...Warning: Specified end later than end
of data, end not changed.
Warning: Specified end later than end of data, end not changed.
Warning: Specified end later than end of data, end not changed.
Warning: Specified end later than end of data, end not changed.
Warning: Specified end later than end of data, end not changed.
Warning: Specified end later than end of data, end not changed.
Warning: Specified end later than end of data, end not changed.
Warning: Specified end later than end of data, end not changed.
Warning: Specified end later than end of data, end not changed.
Warning: Specified end later than end of data, end not changed.
 OK
>
>
=========================================
R test.medium.s timing:
start Tuesday July 27 09:35:00 EDT 1999
end   Tuesday July 27 09:49:00 EDT 1999
SunOS mfa99551 5.6 Generic_105181-11 sun4u sparc SUNW,Ultra-5_10
=========================================

########################################################################

Devel version R 0.65 June 11, 1999 snapshot

+++++++++++++++++++++++++++++++++++++++++++++++++
         running R  test.dse.lite
+++++++++++++++++++++++++++++++++++++++++++++++++
RLIBS set to /home/mfa5/gilp/dse/pub/Rdse/rlibs
>    library("dse")

Attaching Package "package:syskern":


 The following object(s) are masked from package:dse :

  is.S is.Splus is.Svanilla rnorm


Attaching Package "package:syskern":


 The following object(s) are masked from package:base :

  rnorm


Attaching Package "package:tframe":


 The following object(s) are masked from package:base :

  [.ts summary.default ts tsp<- window.default window.ts


Attaching Package "package:dse":


 The following object(s) are masked from package:base :

  [.ts summary.default ts tsp<- window.default window.ts

>    library("dse2")

Attaching Package "package:dsex1":


 The following object(s) are masked from package:base :

  curve

>    library("mva")
>    library("bats")

Attaching Package "package:bats":


 The following object(s) are masked from package:base :

  convolve

>
>    source("test.lite.s")
dse.1999.07alphaR Warning: This system is the by-product of on-going research.
It has not been completely tested.
Random number generator tests ...ok
All tframe tests ... OK
All dse1 (kernel) tests ... OK
All dse2 tests ... OK
All dse3 tests ... OK
All dse4 tests ... OK
dse2 graphics tests ...completed
dse3 graphics tests ...completed
dse4 graphics tests ...completed
All Brief User Guide example part 1 tests ... OK
All dse juice tests ...juice graphics tests ... OK
 OK
Warning message:
skipping test 4 (requires stepwise). in: dse4.function.tests(verbose = F,
graphics = F)
>
>
=========================================
R test.lite.s timing:
start Tuesday July 27 09:59:15 EDT 1999
end   Tuesday July 27 10:06:57 EDT 1999
SunOS mfa99551 5.6 Generic_105181-11 sun4u sparc SUNW,Ultra-5_10
=========================================
+++++++++++++++++++++++++++++++++++++++++++++++++
         running R  test.dse.medium
+++++++++++++++++++++++++++++++++++++++++++++++++
>   x11()
> library("dse", warn.conflicts=FALSE)

Attaching Package "package:syskern":


 The following object(s) are masked from package:dse :

  is.S is.Splus is.Svanilla rnorm


Attaching Package "package:syskern":


 The following object(s) are masked from package:base :

  rnorm


Attaching Package "package:tframe":


 The following object(s) are masked from package:base :

  [.ts summary.default ts tsp<- window.default window.ts

> library("dse2", warn.conflicts=FALSE)

Attaching Package "package:dsex1":


 The following object(s) are masked from package:base :

  curve

> library("opt")
> library("bats")

Attaching Package "package:bats":


 The following object(s) are masked from package:base :

  convolve

>
>    source("test.medium.s")
dse.1999.07alphaR Warning: This system is the by-product of on-going research.
It has not been completely tested.
Brief User Guide example part 2 tests ... OK
>
>
=========================================
R test.medium.s timing:
start Tuesday July 27 10:06:57 EDT 1999
end   Tuesday July 27 10:20:47 EDT 1999
SunOS mfa99551 5.6 Generic_105181-11 sun4u sparc SUNW,Ultra-5_10
=========================================


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Memory profiling/benchmarking
Paul Gilbert