R help - Jan 2014 - keep track of variables created in each chapter of a knitr book

In a book project using knitr, I'm creating a large number of variable 
and objects in chunks within
chapters.  I'd like to find a way of keeping track of all of those for 
each chapter, and clean up
at the end of each chapter, without having to manually list their names 
as shown below.

The book.Rnw file uses a collection of child documents:

<<ch1, child='ch01.Rnw'>>@

<<ch2, child='ch02.Rnw'>>@

<<ch3, child='ch03.Rnw'>>@
...

A typical chapter file, ch02.Rnw begins with a setup chunk and ends with 
a cleanup chunk:

<<setup2, echo=FALSE>>source("Rprofile.R")
knitrSet("ch02")
require(vcdExtra, quietly = TRUE, warn.conflicts = FALSE)
@

.... content ...

<<cleanup2,results='hide'>>remove(list=objects(pattern="array|mat|my|\\.tab|\\.df"))
remove(list=c("A", "B", "age", "count",
"ds", "n", "passed", "sex",
"tab", "tv.data", "TV2", "TV"))
ls()
@

-- 
Michael Friendly     Email: friendly AT yorku DOT ca
Professor, Psychology Dept. & Chair, Quantitative Methods
York University      Voice: 416 736-2100 x66249 Fax: 416 736-5814
4700 Keele Street    Web:   http://www.datavis.ca
Toronto, ONT  M3J 1P3 CANADA

I'm not sure what exactly you want to remove in the cleanup step, but
to list the objects assigned in a particular chapter can't you just
put

prev.vars <- ls()

at the beginning of the chapter and

vars.this.chapter <- setdiff(ls(), prev.vars)

at the end?

Best,
Ista

On Fri, Jan 24, 2014 at 9:14 AM, Michael Friendly <friendly at yorku.ca>
wrote:
> In a book project using knitr, I'm creating a large number of variable
and
> objects in chunks within
> chapters.  I'd like to find a way of keeping track of all of those for
each
> chapter, and clean up
> at the end of each chapter, without having to manually list their names as
> shown below.
>
> The book.Rnw file uses a collection of child documents:
>
> <<ch1, child='ch01.Rnw'>>> @
>
> <<ch2, child='ch02.Rnw'>>> @
>
> <<ch3, child='ch03.Rnw'>>> @
> ...
>
> A typical chapter file, ch02.Rnw begins with a setup chunk and ends with a
> cleanup chunk:
>
> <<setup2, echo=FALSE>>> source("Rprofile.R")
> knitrSet("ch02")
> require(vcdExtra, quietly = TRUE, warn.conflicts = FALSE)
> @
>
> .... content ...
>
> <<cleanup2,results='hide'>>>
remove(list=objects(pattern="array|mat|my|\\.tab|\\.df"))
> remove(list=c("A", "B", "age",
"count", "ds", "n", "passed",
"sex", "tab",
> "tv.data", "TV2", "TV"))
> ls()
> @
>
> --
> Michael Friendly     Email: friendly AT yorku DOT ca
> Professor, Psychology Dept. & Chair, Quantitative Methods
> York University      Voice: 416 736-2100 x66249 Fax: 416 736-5814
> 4700 Keele Street    Web:   http://www.datavis.ca
> Toronto, ONT  M3J 1P3 CANADA
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.

You could initialize one list per chapter,
> x1 <- list( "Chapter One" )
and then crate your variables as list members
> x1$A <- c( 1, 2, 3 )
> x1$B <- "bla"
> x1$tv.data <- data.frame( m = sample( LETTERS, 5 ), 
                            n = round( runif( 5 ), 2 ) )
> x1
[[1]]
[1] "Chapter One"

$A
[1] 1 2 3

$B
[1] "bla"

$tv.data
  n    m
1 T 0.92
2 G 0.77
3 B 0.96
4 W 0.67
5 S 0.16

which you can keep track of easily at any time. You could save each list per
chapter, if you wanted to. And you can remove it as easily with a simple
> rm (x1 )
A bit more typing, but much cleaner, I think.

Rgds,
Rainer





On Friday 24 January 2014 09:14:39 Michael Friendly
wrote:
> In a book project using knitr, I'm creating a large number of variable 
> and objects in chunks within
> chapters.  I'd like to find a way of keeping track of all of those for 
> each chapter, and clean up
> at the end of each chapter, without having to manually list their names 
> as shown below.
> 
> The book.Rnw file uses a collection of child documents:
> 
> <<ch1, child='ch01.Rnw'>>> @
> 
> <<ch2, child='ch02.Rnw'>>> @
> 
> <<ch3, child='ch03.Rnw'>>> @
> ...
> 
> A typical chapter file, ch02.Rnw begins with a setup chunk and ends with 
> a cleanup chunk:
> 
> <<setup2, echo=FALSE>>> source("Rprofile.R")
> knitrSet("ch02")
> require(vcdExtra, quietly = TRUE, warn.conflicts = FALSE)
> @
> 
> .... content ...
> 
> <<cleanup2,results='hide'>>>
remove(list=objects(pattern="array|mat|my|\\.tab|\\.df"))
> remove(list=c("A", "B", "age",
"count", "ds", "n", "passed",
"sex",
> "tab", "tv.data", "TV2", "TV"))
> ls()
> @
> 
>