[R] string syntactic sugar in R? - long post
Currently in R, constructing a string containing
values of variables is done using 'paste' and can be
an error-prone and traumatic experience. For example,
when constructing a db query we have to write,
paste(SELECT value FROM table where
date =',cdate,')
we are getting null result from it, because without
(forgotten...) sep= we get
SELECT value FROM table where date='
2005-05-05 '
instead of
SELECT value FROM table where date='2005-05-05'
Adding sep= as a habit results in other errors, like
column names joined with keywords - because of
forgotten spaces. Not to mention mixing up or
unbalancing quote marks etc. The approach used by
paste is similar to that of many other languages (like
early Java, VB etc) and is inherently error-prone
because of poor visualization. There is a way to
improve it.
In the Java world gstrings were introduced
specifically for this purpose. A gstring is a string
with variable names embedded and replaced by values
(converted to strings, lazy eval) before use. An
example in R-syntax would be:
alpha - 8; beta=xyz
gstr - the result is ${alpha} with the comment
${beta}
cat(gstr)
the result is 8 with the comment xyz
This syntactic sugar reduces significantly the number
of mistakes made with normal string concatenations.
Gstrings are used in ant and groovy - (for details see
http://groovy.codehaus.org/Strings, jump to GStrings).
They are particularly useful for creating readable and
error-free SQL statements, but obviously the simplify
'normal' string+value handling in all situations. [ps:
gstrings are not nestable]
I was wondering how difficult it would be to add such
syntactic sugar to R and would that create some
language problems? May be it is possible that it could
be done as some gpaste function, parsing the argument
for ${var}, extracting variables from the environment,
evaluating them and producing the final string?
I admit my bias - using ant for years and groovy for
months and having to do a lot of SQL queries does not
put me in the mainstream of R users - so it may be
that this idea is not usable to a wider group of
users.
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Re: [R] string syntactic sugar in R? - long post
Hi,
In Bioconductor, we have something called copySubstitute, which does
what you want, I believe,
x=select @var1@ from @tab1@
copySubstitute(textConnection(x), symbolValues= list(var1=Race,
tab1=ReallyBigTable), dest=stdout())
yields
select Race from ReallyBigTable
you can read in from any connection and write out to any connection,
change the delimiter, etc.
We use it to autogenerate manual pages and other documentation for
packages that have lots of similar structure, as well as for things
like what you want to do.
Best wishes,
Robert
On May 7, 2005, at 1:36 AM, charles loboz wrote:
Currently in R, constructing a string containing
values of variables is done using 'paste' and can be
an error-prone and traumatic experience. For example,
when constructing a db query we have to write,
paste(SELECT value FROM table where
date =',cdate,')
we are getting null result from it, because without
(forgotten...) sep= we get
SELECT value FROM table where date='
2005-05-05 '
instead of
SELECT value FROM table where date='2005-05-05'
Adding sep= as a habit results in other errors, like
column names joined with keywords - because of
forgotten spaces. Not to mention mixing up or
unbalancing quote marks etc. The approach used by
paste is similar to that of many other languages (like
early Java, VB etc) and is inherently error-prone
because of poor visualization. There is a way to
improve it.
In the Java world gstrings were introduced
specifically for this purpose. A gstring is a string
with variable names embedded and replaced by values
(converted to strings, lazy eval) before use. An
example in R-syntax would be:
alpha - 8; beta=xyz
gstr - the result is ${alpha} with the comment
${beta}
cat(gstr)
the result is 8 with the comment xyz
This syntactic sugar reduces significantly the number
of mistakes made with normal string concatenations.
Gstrings are used in ant and groovy - (for details see
http://groovy.codehaus.org/Strings, jump to GStrings).
They are particularly useful for creating readable and
error-free SQL statements, but obviously the simplify
'normal' string+value handling in all situations. [ps:
gstrings are not nestable]
I was wondering how difficult it would be to add such
syntactic sugar to R and would that create some
language problems? May be it is possible that it could
be done as some gpaste function, parsing the argument
for ${var}, extracting variables from the environment,
evaluating them and producing the final string?
I admit my bias - using ant for years and groovy for
months and having to do a lot of SQL queries does not
put me in the mainstream of R users - so it may be
that this idea is not usable to a wider group of
users.
__
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+---
+
| Robert Gentleman phone: (206) 667-7700
|
| Head, Program in Computational Biology fax: (206) 667-1319 |
| Division of Public Health Sciences office: M2-B865
|
| Fred Hutchinson Cancer Research Center
|
| email: [EMAIL PROTECTED]
|
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Re: [R] string syntactic sugar in R? - long post
The other thing to use is 'sprintf', which would be fantastic in R if it
imputed types based on the format string.
As it is now, for your query you would do:
sprintf(SELECT %s FROM table WHERE date = '%s', column, 2005-10-12)
[1] SELECT column FROM table WHERE date = '2005-10-12'
Which, in my opinion is nicer than the corresponding paste, and about as nice
as gstring. The issue that I always have with sprintf is when I use numbers,
specifically integers. As the function is just a wrapper for the C function
and because numbers are implicitly doubles the following doesnt work:
sprintf(SELECT %s FROM table WHERE age = %d, column, 1)
Error in sprintf(SELECT %s FROM table WHERE age = %d, column, 1) :
use format %f, %e or %g for numeric objects
It does work however if you do
sprintf(SELECT %s FROM table WHERE age = %d, column, as.integer(1))
[1] SELECT column FROM table WHERE age = 1
This however, is not so nice - are there reasons why this has to be like this? This might be naive but I would think it would be pretty simple in R to do this automatically. Thanks for any insight.
jim
charles loboz wrote:
Currently in R, constructing a string containing
values of variables is done using 'paste' and can be
an error-prone and traumatic experience. For example,
when constructing a db query we have to write,
paste(SELECT value FROM table where
date =',cdate,')
we are getting null result from it, because without
(forgotten...) sep= we get
SELECT value FROM table where date='
2005-05-05 '
instead of
SELECT value FROM table where date='2005-05-05'
Adding sep= as a habit results in other errors, like
column names joined with keywords - because of
forgotten spaces. Not to mention mixing up or
unbalancing quote marks etc. The approach used by
paste is similar to that of many other languages (like
early Java, VB etc) and is inherently error-prone
because of poor visualization. There is a way to
improve it.
In the Java world gstrings were introduced
specifically for this purpose. A gstring is a string
with variable names embedded and replaced by values
(converted to strings, lazy eval) before use. An
example in R-syntax would be:
alpha - 8; beta=xyz
gstr - the result is ${alpha} with the comment
${beta}
cat(gstr)
the result is 8 with the comment xyz
This syntactic sugar reduces significantly the number
of mistakes made with normal string concatenations.
Gstrings are used in ant and groovy - (for details see
http://groovy.codehaus.org/Strings, jump to GStrings).
They are particularly useful for creating readable and
error-free SQL statements, but obviously the simplify
'normal' string+value handling in all situations. [ps:
gstrings are not nestable]
I was wondering how difficult it would be to add such
syntactic sugar to R and would that create some
language problems? May be it is possible that it could
be done as some gpaste function, parsing the argument
for ${var}, extracting variables from the environment,
evaluating them and producing the final string?
I admit my bias - using ant for years and groovy for
months and having to do a lot of SQL queries does not
put me in the mainstream of R users - so it may be
that this idea is not usable to a wider group of
users.
__
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--
James Bullard
[EMAIL PROTECTED]
760.267.0986
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[R] ScieViews installer
I tried to install SciViews in R 2.1.0 (on Windows) and on all machines I get: bundle 'SciViews' successfully unpacked and MD5 sums checked Error in sprintf(gettext(unable to move temp installation '%d' to '%s'), : use format %s for character objects how can I solve this problem? -- Erich Neuwirth, University of Vienna Faculty of Computer Science Didactic Center for Computer Science Visit our SunSITE at http://sunsite.univie.ac.at Phone: +43-1-4277-39464 Fax: +43-1-4277-39459 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] string syntactic sugar in R? - long post
On 07-May-05 James Bullard wrote: The other thing to use is 'sprintf', which would be fantastic in R if it imputed types based on the format string. As it is now, for your query you would do: sprintf(SELECT %s FROM table WHERE date = '%s', column, 2005-10-12) [1] SELECT column FROM table WHERE date = '2005-10-12' Which, in my opinion is nicer than the corresponding paste, and about as nice as gstring. The issue that I always have with sprintf is when I use numbers, specifically integers. As the function is just a wrapper for the C function and because numbers are implicitly doubles the following doesnt work: sprintf(SELECT %s FROM table WHERE age = %d, column, 1) Error in sprintf(SELECT %s FROM table WHERE age = %d, column, 1) : use format %f, %e or %g for numeric objects It does work however if you do sprintf(SELECT %s FROM table WHERE age = %d, column, as.integer(1)) [1] SELECT column FROM table WHERE age = 1 This however, is not so nice - are there reasons why this has to be like this? This might be naive but I would think it would be pretty simple in R to do this automatically. Thanks for any insight. You can force integer format using %f if you use it as %.0f: sprintf(SELECT %s FROM table WHERE age = %.0f, column, 1) ## [1] SELECT column FROM table WHERE age = 1 The rule (as in C) is that %a.bf outputs a format for the floating-point number in a minimum width of 'a' characters (field width, left-padded with space), with 'b' digits following the decimal point (and no decimal point is printed if b=0); if either 'a' or 'b' is missing then no corresponding restriction is imposed. Best wishes, Ted. E-Mail: (Ted Harding) [EMAIL PROTECTED] Fax-to-email: +44 (0)870 094 0861 Date: 07-May-05 Time: 11:05:06 -- XFMail -- __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] scrivete a ...
Si segnala di rivolgersi per tasse e pagamenti a [EMAIL PROTECTED] di contattare la propria segreteria studenti agli indirizzi: [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] per informazioni generali: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Test on mu with multivariate normal distribution
Dear WizaRds, I am sorry to bother you with a newbie question, but although I tried to solve my problem using the various .pdf files (Introduction, help pages etc.), I have come to a complete stop. Please be so kind as to guide me a little bit along my way of exploring multivariate analysis in R. I want to test wether the means-vector mu1 of X, consisting of the means per column of that matrix , and mu2, i.e. the means per column of Y, are distributed equally under the assumption of a multivariate normal distribution. I thought simtest could be the right function to get the p-value, but I fail to use R correctly. Here is what I tried to do: f1 - factor(c(8, 10, 12, 14)) X - matrix(1:16, ncol=4) colnames(X) - c(Obj1,Obj2,Obj3,Obj4) X.frame - data.frame(f1,X) Y - matrix(1:12, ncol=4) colnames(Y) - c(Obj1,Obj2,Obj3,Obj4) Y.frame - data.frame(f1,Y) XY - data.frame(X.frame, Y.frame) # wont work, because of different nr of rows test.stat - lm(XY ~ f1) # ??? # simtest(test.stat, XY, type=Tukey) creates errors already by just staring at it. I apologize. Thank you so much for your support, Telse __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Peter Moser ist =?iso-8859-1?q?au=DFer_Haus=2E?=
Ich werde ab 04.05.2005 nicht im Büro sein. Ich kehre zurück am 16.05.2005. Ich werde Ihre Nachricht nach meiner Rückkehr beantworten. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] string syntactic sugar in R? - long post
On Sat, 7 May 2005, James Bullard wrote: The other thing to use is 'sprintf', which would be fantastic in R if it imputed types based on the format string. But it does in 2.1.0, the current version. As it is now, for your query you would do: sprintf(SELECT %s FROM table WHERE date = '%s', column, 2005-10-12) [1] SELECT column FROM table WHERE date = '2005-10-12' Which, in my opinion is nicer than the corresponding paste, and about as nice as gstring. The issue that I always have with sprintf is when I use numbers, specifically integers. As the function is just a wrapper for the C function It is not `just a wrapper': someone put a lot of working into writing an intelligent wrapper. and because numbers are implicitly doubles the following doesnt work: sprintf(SELECT %s FROM table WHERE age = %d, column, 1) Error in sprintf(SELECT %s FROM table WHERE age = %d, column, 1) : use format %f, %e or %g for numeric objects It does work however if you do sprintf(SELECT %s FROM table WHERE age = %d, column, as.integer(1)) [1] SELECT column FROM table WHERE age = 1 This however, is not so nice - are there reasons why this has to be like this? This might be naive but I would think it would be pretty simple in R to do this automatically. Thanks for any insight. In R 2.1.0: sprintf(SELECT %s FROM table WHERE age = %d, column, 1) [1] SELECT column FROM table WHERE age = 1 ! -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] string syntactic sugar in R? - long post
On 5/7/05, charles loboz [EMAIL PROTECTED] wrote:
Currently in R, constructing a string containing
values of variables is done using 'paste' and can be
an error-prone and traumatic experience. For example,
when constructing a db query we have to write,
paste(SELECT value FROM table where
date =',cdate,')
we are getting null result from it, because without
(forgotten...) sep= we get
SELECT value FROM table where date='
2005-05-05 '
instead of
SELECT value FROM table where date='2005-05-05'
Adding sep= as a habit results in other errors, like
column names joined with keywords - because of
forgotten spaces. Not to mention mixing up or
unbalancing quote marks etc. The approach used by
paste is similar to that of many other languages (like
early Java, VB etc) and is inherently error-prone
because of poor visualization. There is a way to
improve it.
In the Java world gstrings were introduced
specifically for this purpose. A gstring is a string
with variable names embedded and replaced by values
(converted to strings, lazy eval) before use. An
example in R-syntax would be:
alpha - 8; beta=xyz
gstr - the result is ${alpha} with the comment
${beta}
cat(gstr)
the result is 8 with the comment xyz
This syntactic sugar reduces significantly the number
of mistakes made with normal string concatenations.
Gstrings are used in ant and groovy - (for details see
http://groovy.codehaus.org/Strings, jump to GStrings).
They are particularly useful for creating readable and
error-free SQL statements, but obviously the simplify
'normal' string+value handling in all situations. [ps:
gstrings are not nestable]
I was wondering how difficult it would be to add such
syntactic sugar to R and would that create some
language problems? May be it is possible that it could
be done as some gpaste function, parsing the argument
for ${var}, extracting variables from the environment,
evaluating them and producing the final string?
I admit my bias - using ant for years and groovy for
months and having to do a lot of SQL queries does not
put me in the mainstream of R users - so it may be
that this idea is not usable to a wider group of
users.
Here is one attempt. It eliminates the necessity to quote the
elements altogether but in exchange requires that the
argument be a valid R expression. It is based on the
R bquote function.
gpaste - function(expr, where = parent.frame()) {
dequote - function(e) as.name(noquote(as.character(e)))
unquote - function(e) {
if (length(e) = 1)
dequote(e)
else if (e[[1]] == as.name(.))
dequote(eval(e[[2]], where))
else as.call(lapply(e, unquote))
}
rval - paste(unquote(substitute(expr)), collapse = )
rval - gsub(+ , , rval, fix = TRUE)
gsub(`, , rval)
}
# test
var - myvar
gpaste( select + .(var) + from + table + where +
date + = + .(sQuote(Sys.Date())) )
When you run it you get this:
gpaste( select + .(var) + from + table + where +
+ date + = + .(sQuote(Sys.Date())) )
[1] select myvar from table where date = '2005-05-07'
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Re: [R] ScieViews installer
On Sat, 7 May 2005, Erich Neuwirth wrote: I tried to install SciViews in R 2.1.0 (on Windows) and on all machines I get: bundle 'SciViews' successfully unpacked and MD5 sums checked Error in sprintf(gettext(unable to move temp installation '%d' to '%s'), : use format %s for character objects how can I solve this problem? Well, use R-patched where that exact problem goes away, but that is not the problem that needs solving. The underlying cause is a problem on your Windows file system. Do you have a version of SciViews left over that Windows cannot remove? I've just tested this, and it works for me even in 2.1.0. -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] converting NA/non-NA's to a binary variable
Dear R colleagues,
I am trying to create a new column in a data frame, which converts values
and NA's from another column into binary format. Essentially I need the
NA's to become 1 and the rest to be 0. The code I wrote is returning the
following error message:
Error in if (mort[i, 4] != NA) mort[i, 8] - 0 else if (mort[i, 4] == :
missing value where TRUE/FALSE needed
The code is as follows:
for(i in 1:length(mort[,4]))
{
if(mort[i,4] != NA) mort[i,8] - 0
else if(mort[i,4] == NA) mort[i,8] - 1
}
I'd appreciate any advice or recommendations as to a better way of
achieving this.
Thanks
Gillian
-
Gillian Rutherford
Eidg. Forschungsanstalt für Wald, Schnee und Landschaft
Swiss Federal Research Institute WSL
Economy Section, Forest Division
Zürcherstrasse 111
CH - 8903 Birmensdorf
Phone: ++ 41 1 739 26 65
E-mail: [EMAIL PROTECTED]
http://www.wsl.ch/staff/gillian.rutherford/
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Re: [R] converting NA/non-NA's to a binary variable
See ?is.na
On 5/7/05, Gillian Rutherford [EMAIL PROTECTED] wrote:
Dear R colleagues,
I am trying to create a new column in a data frame, which converts values
and NA's from another column into binary format. Essentially I need the
NA's to become 1 and the rest to be 0. The code I wrote is returning the
following error message:
Error in if (mort[i, 4] != NA) mort[i, 8] - 0 else if (mort[i, 4] == :
missing value where TRUE/FALSE needed
The code is as follows:
for(i in 1:length(mort[,4]))
{
if(mort[i,4] != NA) mort[i,8] - 0
else if(mort[i,4] == NA) mort[i,8] - 1
}
I'd appreciate any advice or recommendations as to a better way of
achieving this.
Thanks
Gillian
-
Gillian Rutherford
Eidg. Forschungsanstalt für Wald, Schnee und Landschaft
Swiss Federal Research Institute WSL
Economy Section, Forest Division
Zürcherstrasse 111
CH - 8903 Birmensdorf
Phone: ++ 41 1 739 26 65
E-mail: [EMAIL PROTECTED]
http://www.wsl.ch/staff/gillian.rutherford/
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Re: [R] converting NA/non-NA's to a binary variable
mort[8] - is.na(mort[4])
(If you really want 1/0, add '+ 0' to this expression.)
Testing (in)equality with NA always gives NA. This is discussed in all
good books on S/R, e.g. in MASS (see the FAQ).
On Sat, 7 May 2005, Gillian Rutherford wrote:
Dear R colleagues,
I am trying to create a new column in a data frame, which converts values and
NA's from another column into binary format. Essentially I need the NA's to
become 1 and the rest to be 0. The code I wrote is returning the following
error message:
Error in if (mort[i, 4] != NA) mort[i, 8] - 0 else if (mort[i, 4] == :
missing value where TRUE/FALSE needed
The code is as follows:
for(i in 1:length(mort[,4]))
{
if(mort[i,4] != NA) mort[i,8] - 0
else if(mort[i,4] == NA) mort[i,8] - 1
}
I'd appreciate any advice or recommendations as to a better way of achieving
this.
--
Brian D. Ripley, [EMAIL PROTECTED]
Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
University of Oxford, Tel: +44 1865 272861 (self)
1 South Parks Road, +44 1865 272866 (PA)
Oxford OX1 3TG, UKFax: +44 1865 272595
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RE: [R] converting NA/non-NA's to a binary variable
On 07-May-05 Gillian Rutherford wrote:
Dear R colleagues,
I am trying to create a new column in a data frame, which
converts values and NA's from another column into binary format.
Essentially I need the NA's to become 1 and the rest to be 0.
The code I wrote is returning the following error message:
Error in if (mort[i, 4] != NA) mort[i, 8] - 0 else if (mort[i, 4] ==
:
missing value where TRUE/FALSE needed
The code is as follows:
for(i in 1:length(mort[,4]))
{
if(mort[i,4] != NA) mort[i,8] - 0
else if(mort[i,4] == NA) mort[i,8] - 1
}
I'd appreciate any advice or recommendations as to a better way of
achieving this.
Thanks
Gillian
I think the following should do what you want, provided the column
mort[,8] exists:
mort[,8] - 0
mort[is.na(mort[,4]),8] - 1
Incidentally, tests like == NA or != NA can produce unexpected
results! Use is.na() instead:
tmp-NA
## [1] NA
tmp==NA
## [1] NA
tmp!=NA
## [1] NA
if(tmp==NA) 1 else 2
## Error in if (tmp == NA) 1 else 2 :
## missing value where TRUE/FALSE needed
if(TRUE) 1 else 2
## [1] 1
is.na(tmp)
## [1] TRUE
if(is.na(tmp)) 1 else 2
## [1] 1
if(!is.na(tmp)) 1 else 2
## [1] 2
Best wishes,
Ted.
E-Mail: (Ted Harding) [EMAIL PROTECTED]
Fax-to-email: +44 (0)870 094 0861
Date: 07-May-05 Time: 14:46:19
-- XFMail --
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[R] Incorrect libxml2.2.dylib version on Tiger install
Hi all, I have just installed OSX Server 10.4 and R comes up with the incompatible libxml library message reported by Dan Kelley a few messages ago. Xcode 2 does not ship with Tiger Server. I installed the X-Windows code. I can report that the version of libxml2.2 that is installed in this case is the version 8.0.0 dylib. [EMAIL PROTECTED]:/usr/lib % ls -l libxml2.2* -rwxr-xr-x 1 root wheel 1061704 Apr 15 23:44 libxml2.2.6.16.dylib* -rwxr-xr-x 1 root wheel 1061804 May 6 14:15 libxml2.2.dylib* I'm working on getting a copy of the Xcode 2 CD. I was surprised it wasn't in the 10.4 server CD set. I have a production problem today, though, if anyone can help me with a copy of this library. Best, Steve Boker On May 6, 2005, at 12:39 PM, Dan Kelley wrote: Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library '/Library/Frameworks/ R.framework/Resources/library/grDevices/libs/grDevices.so': dlopen(/Library/Frameworks/R.framework/Resources/library/grDevices/ libs/grDevices.so, 6): Library not loaded: /usr/lib/libxml2.2.dylib Referenced from: /System/Library/Frameworks/AppKit.framework/ Versions/C/AppKit Reason: Incompatible library version: AppKit requires version 9.0.0 or later, but libxml2.2.dylib provides version 8.0.0 - Steven M. Boker574-339-0735 (cell/page/message) [EMAIL PROTECTED] 574-631-4941 (office) http://www.nd.edu/~sboker/ 574-631-8883 (fax) Dept. of Psychology, University of Notre Dame, Notre Dame, IN 46556 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] undebug all
Is there a fast way to undebug() all functions that are currently being debugged in all environments? Thanks. FS __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] undebug all
On Sat, 7 May 2005, Fernando Saldanha wrote: Is there a fast way to undebug() all functions that are currently being debugged in all environments? I guess you mean `marked for debugging' and not `currently being executed under a browser started by being marked for debug'? Debugging is a property of a function object (a bit in the sxpinfo) and so you would have to traverse all reachable objects (as gc does) to find them all. AFAIK once a function has been entered you cannot turn off debugging for it. -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] ScieViews installer
Thank you for your help. The library directory contained some very strangely named subdirectories, file3132 and similarly. After removing these and vereything related to SciViews I was able to install SciViews. Looking back I seem to remember that form time to time these strange directories appear and I do not understand where they come from. Could it be a timing issue, i.e. Windows trying to remove a directory too early? I remember similar problems with temporary files not being deletable by Excel. Prof Brian Ripley wrote: On Sat, 7 May 2005, Erich Neuwirth wrote: bundle 'SciViews' successfully unpacked and MD5 sums checked Error in sprintf(gettext(unable to move temp installation '%d' to '%s'), : use format %s for character objects how can I solve this problem? Well, use R-patched where that exact problem goes away, but that is not the problem that needs solving. The underlying cause is a problem on your Windows file system. Do you have a version of SciViews left over that Windows cannot remove? I've just tested this, and it works for me even in 2.1.0. -- Erich Neuwirth, University of Vienna Faculty of Computer Science Didactic Center for Computer Science Visit our SunSITE at http://sunsite.univie.ac.at Phone: +43-1-4277-39464 Fax: +43-1-4277-39459 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] ScieViews installer
On Sat, 7 May 2005, Erich Neuwirth wrote: Thank you for your help. The library directory contained some very strangely named subdirectories, file3132 and similarly. After removing these and vereything related to SciViews I was able to install SciViews. Looking back I seem to remember that form time to time these strange directories appear and I do not understand where they come from. Could it be a timing issue, i.e. Windows trying to remove a directory too early? I remember similar problems with temporary files not being deletable by Excel. No, on NT a Windows atomic file rename is used. Neither Duncan nor I have ever encountered these: they seem to result from a Windows OS bug. Prof Brian Ripley wrote: On Sat, 7 May 2005, Erich Neuwirth wrote: bundle 'SciViews' successfully unpacked and MD5 sums checked Error in sprintf(gettext(unable to move temp installation '%d' to '%s'), : use format %s for character objects how can I solve this problem? Well, use R-patched where that exact problem goes away, but that is not the problem that needs solving. The underlying cause is a problem on your Windows file system. Do you have a version of SciViews left over that Windows cannot remove? I've just tested this, and it works for me even in 2.1.0. -- Erich Neuwirth, University of Vienna Faculty of Computer Science Didactic Center for Computer Science Visit our SunSITE at http://sunsite.univie.ac.at Phone: +43-1-4277-39464 Fax: +43-1-4277-39459 -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] General Question re R vs S-Plus
Coming up to speed on both R and S-Plus. My access to S-Plus will end soon so I want to get up to speed on R. The big initial difference seems that R has only the command editor where S-Plus also has a windows interface. My preference is to learn the language and the windows interface doesn't really do the trick. My question is, if one uses the windows interface for some functions, is there a way to see what the equivalent code would be? I have checked the manuals, help etc and can't seem to find a way. Thanks -- Jonathan [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] help for bootstrap of backward stepwise logistic regression
I would like to perform a bootstrap validation of a backward stepwise logistic regression analysis, but I am a beginner with R and I am not sure of how to do it. Is there anyone that can send me a sample file in tab format (that I can modify in Excel by pasting my data) and the pertinent R algorithm? Many thanks Giuseppe -- ^^^ Dr. Giuseppe Biondi Zoccai Interventional Cardiology Unit St Raffaele Hospital via Olgettina 60 20132 Milan ITALY Phone: +39-3408626829 Fax: +39-0226437339 Email: [EMAIL PROTECTED] ^^^ __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Vectorize a bootstrapped calculation
I would like to vectorize a calculation that is bootstrapped, in the
sense that each step uses the results of the previous steps. For
example:
x - rep(NA, 5)
y - rnorm(5)
for (i in 1:5) {
x[i] - max(y[i], ifelse(i 0, min(x[1:i-1], 0)))
}
(the functions max and min are used just as an example, I would like
to do something like this for arbitrary functions f and g).
It would be nice to be able to write something like:
x - cumsapply(y, max, min)
where the first function, max in this example, would be applied to the
i-th element of y, and the second function, min in the example, would
be applied to the vector x[1:i-1].
Of course one can program such a function, the issue is can it be done
efficiently, and not just as a wrapping of the for loop above?
FS
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Re: [R] Incorrect libxml2.2.dylib version on Tiger install
Sorry to reply to my own post, but I have more info. This probably needs to come to the attention of the Mac R developers. Xcode 2.0 does not have a more recent libxml2.2.dylib. The problem only manifests itself when running R 2.1.0 from the command line, not within the Aqua GUI. Thanks for your patience. On May 7, 2005, at 9:30 AM, Steven Boker wrote: Hi all, I have just installed OSX Server 10.4 and R comes up with the incompatible libxml library message reported by Dan Kelley a few messages ago. Xcode 2 does not ship with Tiger Server. I installed the X-Windows code. I can report that the version of libxml2.2 that is installed in this case is the version 8.0.0 dylib. [EMAIL PROTECTED]:/usr/lib % ls -l libxml2.2* -rwxr-xr-x 1 root wheel 1061704 Apr 15 23:44 libxml2.2.6.16.dylib* -rwxr-xr-x 1 root wheel 1061804 May 6 14:15 libxml2.2.dylib* I'm working on getting a copy of the Xcode 2 CD. I was surprised it wasn't in the 10.4 server CD set. I have a production problem today, though, if anyone can help me with a copy of this library. Best, Steve Boker On May 6, 2005, at 12:39 PM, Dan Kelley wrote: Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library '/Library/Frameworks/ R.framework/Resources/library/grDevices/libs/grDevices.so': dlopen(/Library/Frameworks/R.framework/Resources/library/grDevices/ libs/grDevices.so, 6): Library not loaded: /usr/lib/libxml2.2.dylib Referenced from: /System/Library/Frameworks/AppKit.framework/ Versions/C/AppKit Reason: Incompatible library version: AppKit requires version 9.0.0 or later, but libxml2.2.dylib provides version 8.0.0 - Steven M. Boker574-339-0735 (cell/page/message) [EMAIL PROTECTED] 574-631-4941 (office) http://www.nd.edu/~sboker/ 574-631-8883 (fax) Dept. of Psychology, University of Notre Dame, Notre Dame, IN 46556 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html - Steven M. Boker574-339-0735 (cell/page/message) [EMAIL PROTECTED] 574-631-4941 (office) http://www.nd.edu/~sboker/ 574-631-8883 (fax) Dept. of Psychology, University of Notre Dame, Notre Dame, IN 46556 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] [R-pkgs] updated package eba 1.4-0
Dear all, There is an updated version of the eba package for elimination-by-aspects (EBA) choice models available on CRAN. It features new functions for extracting and plotting the residuals, for testing hypotheses on the parameters (wald.test), and for comparing sub-samples (group.test). The documentation has also been updated. Any feedback is welcome. Happy modeling! Florian Wickelmaier ___ R-packages mailing list [EMAIL PROTECTED] https://stat.ethz.ch/mailman/listinfo/r-packages __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
RE: [R] General Question re R vs S-Plus
From: Jonathan Q. Coming up to speed on both R and S-Plus. My access to S-Plus will end soon so I want to get up to speed on R. The big initial difference seems that R has only the command editor where S-Plus also has a windows interface. What exactly do you mean by this? What would you call Rgui.exe? My preference is to learn the language and the windows interface doesn't really do the trick. My question is, if one uses the windows interface for some functions, is there a way to see what the equivalent code would be? I have checked the manuals, help etc and can't seem to find a way. That sounds more like a question for S-news than R-help... In any case, my impression is that commands linked to the S-PLUS GUI menus and buttons are functions written for that. You're not likely to learn much that will carry over to R. Andy Thanks -- Jonathan [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] help for bootstrap of backward stepwise logistic regression
Giuseppe Biondi Zoccai wrote: I would like to perform a bootstrap validation of a backward stepwise logistic regression analysis, but I am a beginner with R and I am not sure of how to do it. Is there anyone that can send me a sample file in tab format (that I can modify in Excel by pasting my data) and the pertinent R algorithm? Many thanks Giuseppe You are asking for a lot and not saying that you are willing to read background material or help files. To get you started, install the Design and Hmisc packages and look at help files for the following in Design: fastbw, lrm, validate.lrm, calibrate.lrm Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
