Avoiding factors and levels in data frames

Dear Ted,

I noticed that as.is was set by default in read.fwf. So if the
user sets stringsAsFactor it is passed through ... to read.table.
But I'm not sure how as.is is passed to read.table when onlye
stringsAsFactors is set. If it's the default (FALSE) then it might
be conflicting with stringsAsFactors. Therefore my suggestion to
use as.is instead of stringsAsFactors in this case.

I suppose it might be a good idea to add stringsAsFactor to the
argumentlist of read.fwf and give it the same defaults as read.table.

Cheers,

Thierry

Van: r-help-bounces at r-project.org [mailto:r-help-bounces at r-project.org]
Namens Ted.Harding at manchester.ac.uk
Verzonden: maandag 1 september 2008 11:23
Aan: r-help at r-project.org
Onderwerp: Re: [R] Avoiding factors and levels in data frames

On 01-Sep-08 08:20:25, ONKELINX, Thierry wrote:

Try to add options(stringsAsFactors = FALSE) in your Rprofile.site
(in the etc directory). Using as.is = TRUE seems safer than
stringsAsFactors = FALSE in the read.fwf function. Because as.is
is set to FALSE by default and stringsAsFactors is not set.

HTH,

Thierry

Can I ask for some elucidation about how the code operates here?
Apparently read.fwf() calls read.table(), and ?read.fwf refers
you to ?read.table for things like 'as.is' and 'stringsAsFactors'.

When I look at the code for read.table, I see in the paramater
list:

function (file, .... , as.is = !stringsAsFactors, ... ,
          stringsAsFactors = default.stringsAsFactors(), ... )

with *no further reference whatever* to 'stringsAsFactors' in the
body of the function. In particular, there is no test that I can
see of whether or not 'stringsAsFactors' has been set by the user
in the call.

The standard result of default.stringsAsFactors() is TRUE.

I've written a tiny test function:

  temp<-function(as.is = !stringsAsFactors,
        stringsAsFactors = default.stringsAsFactors()){
  print(c(as.is=as.is, sAF=stringsAsFactors))
  }

  temp()
# as.is   sAF
# FALSE  TRUE

  temp(stringsAsFactors = FALSE)
# as.is   sAF
#  TRUE FALSE

  temp(as.is=FALSE,stringsAsFactors = FALSE)
# as.is   sAF
# FALSE FALSE

So, if read.table is called with 'as.is=FALSE' (which is the default
set by read.fwf(), with any reference to 'stringsAsFactors' in the
call being part of the "..." which is passed to read.table()), then
read.table will be called with 'as.is=FALSE' regardless of whether
'stringsAsFactors=FALSE' has been set explicitly in calling read.fwf().

The only way to get 'as.is' to be TRUE would be to set it explicitly
in the call to read.fwf() (and in that case one need not bother with
'stringsAsFactors', since its only purpose seems to be to determine
the value of 'as.is'). Or, of course, to set default.stringsAsFactors
to be FALSE; but in many case people will want to have per-case
control over what happens in cases like this.

Well, that's how it seems to me, on reading the code. Is this what
Thierry really means when he says "stringsAsFactors is not set"?

If that is the case, then it seems to indicate some conflict or
inconsistency between read.fwf() and read.table() in this respect.
In any case, it strikes me as something of an undesirable tangle!

With thanks for any comments,
Ted.

-----Oorspronkelijk bericht-----
Van: r-help-bounces at r-project.org

[mailto:r-help-bounces at r-project.org]

Namens Asher Meir
Verzonden: zondag 31 augustus 2008 11:02
Aan: r-help at r-project.org
Onderwerp: [R] Avoiding factors and levels in data frames

Hello all.

I am an experienced R user, I have used R for many years for a wide
variety of applications. However, I keep on running into one obstacle:
I never want factors or levels in my data frames, but I keep on
getting them. Is there any way to globally turn this whole feature of
data frames off? Using options(stringAsFactors=FALSE) does not seem to
work.
Alternatively, if I have a data frame with levels, can I just get rid
of them in that data frame?

Here is an example: I have a large text file, of which part is in the
fixed-width tabular form I need. I created a widths vector and a
column names vector. I then read the file as follows:

raw1<-read.fwf(fn1,widths=widmax,col.names=headermax,stringsAsFactors=FA

LSE)

But raw1 still has factors! It is an old class data frame:

is(raw1)

[1] "data.frame" "oldClass"

And it still has levels:

raw1[1,1]

[1] Gustav wind
229 Levels: - - - - - - -     - - - - WIN       - - - M ... Z

INDICATES

C

My question is:
1. Can I get rid of the levels in raw1?
2. Even better -- can I stop it getting read in as a data frame with
factors?
3. Even better -- can I just tell R to never use factors in my data
frames?

Or any other solution that occurs to people -- maybe this is the wrong
way to go about reading in fixed width data in this kind of file.

I would appreciate any help.

Asher