Re: [R] foreign package: unable to read S-Plus objects
Thank you for the response, and the reasoning behind. I will try to do as you
suggested.
Joe
From: Uwe Ligges
Sent: Tuesday, January 17, 2023 10:04 AM
To: Viechtbauer, Wolfgang (NP) ;
Kevin Thorpe ; Joseph Voelkel
Cc: R Help Mailing List
Subject: Re: [R] foreign package: unable to read S-Plus objects
I just checked the header:
read.S from foreign expects:
readheader <- function(s) {
head <- readBin(s, "int", 8L, 1L)
all(head == c(0L, 83L, 32L, 100L, 97L, 116L, 97L, 1L))
}
but head is
[1] 0 83 32 86 52 45 77 3
i.e. similar but not identical, so a different format is used (S-PLUS 6
or later).
Likely, it is not too hard to write some import function based on read.S
if the file format is documented anywhere. Unfortunately, I do not find
any web resources for it.
So simplest way would be to install the old S-PLUS version and export
all data in a readable format.
Best,
Uwe Ligges
On 17.01.2023 14:21, Viechtbauer, Wolfgang (NP) wrote:
> @Joe: I have S-Plus 6.0 ("Professional Edition Version 6.0.3 Release 2 for
> Microsoft Windows : 2001") running here and can't load them there either.
> Tried simdat and S-Plus apparently thinks it is a script and then you just
> get a garbled up mess. Tried to change it to simdat.sdd and a few other
> extensions, but this didn't help.
>
> Also tried:
>
> data.restore("simdat")
>
> but this also didn't work:
>
> Warning messages:
>file "simdat": incomplete last line
> Problem: in reading invalid mode for data: [again a garbled mess] at line 2
>
> Not sure how else these are supposed to be read into S-Plus (and if they are
> even compatible with this version, although version 6 was the current version
> between 2001 and 2005).
>
> Best,
> Wolfgang
>
>> -Original Message-
>> From: R-help [mailto:r-help-boun...@r-project.org] On Behalf Of Kevin Thorpe
>> Sent: Tuesday, 17 January, 2023 13:07
>> To: Joseph Voelkel
>> Cc: R Help Mailing List
>> Subject: Re: [R] foreign package: unable to read S-Plus objects
>>
>> I think you may be right about the cause. From the, �R Data Import/Export�
>> document I find,
>>
>> Function read.S which can read binary objects produced by S-PLUS 3.x, 4.x or
>> 2000
>> on (32-bit) Unix or Windows (and can read them on a different OS). This is
>> able
>> to read many but not all S objects: in particular it can read vectors,
>> matrices
>> and data frames and lists containing those.
>>
>> This suggests that the binary objects you have cannot be read by this
>> function.
>> The next two paragraphs read,
>>
>> Function data.restore reads S-PLUS data dumps (created by data.dump) with the
>> same restrictions (except that dumps from the Alpha platform can also be
>> read).
>> It should be possible to read data dumps from S-PLUS 5.x and later written
>> with
>> data.dump(oldStyle=T).
>>
>> If you have access to S-PLUS, it is usually more reliable to dump the
>> object(s)
>> in S-PLUS and source the dump file in R. For S-PLUS 5.x and later you may
>> need to
>> use dump(..., oldStyle=T), and to read in very large objects it may be
>> preferable
>> to use the dump file as a batch script rather than use the source function.
>>
>> I think this means that if you had dumped versions of the files you could
>> read
>> them back with data.restore() or source().
>>
>>> On Jan 16, 2023, at 5:22 PM, Joseph Voelkel wrote:
>>>
>>> [You don't often get email from jgv...@rit.edu. Learn why this is important
>>> at
>> https://aka.ms/LearnAboutSenderIdentification ]
>>>
>>> Dear foreign maintainers and others,
>>>
>>> I am trying to import a number of S-Plus objects into R. The only way I see
>>> how
>> to do this is by using the foreign package.
>>>
>>> However, when I try to do this I receive an error message. A snippet of code
>> and the error message follows:
>>>
>>> read.S(file.path(Spath, "nrand"))
>>> Error in read.S(file.path(Spath, "nrand")) : not an S object
>>>
>>> I no longer know the version of S-Plus in which these objects were created.
>>> I
>> do know that I have printed documentation, dated July 2001, from S-Plus 6;
>> and
>> that all S-Plus objects were created in the 9/2004 -- 5/2005 range.
>>>
>>> I am afraid that I simply have S-Plus objects that are not the S version 3
>> files that the foreign package can read, yes? B
Re: [R] foreign package: unable to read S-Plus objects
Just an idea if this is a one-time need to copy static data once used in non-R to R. You are a bit vague about what you mean by "objects." If you can find someone who uses S or S+ then maybe they can load the data in and export it in some format usable for you and send you those files. If, for example, your data is just a data.frame, they can send it as a .CSV file or any format you want. Once you have it, you can read it into R and save it any other way you wish. If the data is something more complex like a dump of all kinds of variables, this may not be practical but I have to wonder how much it and R have diverged all these years and whether it would be something you can import and continue running with. I downloaded the files and they seem to be in a folder with 8 files that have no suffixes with sizes ranging from 1KB to 469 KB so nothing gigantic. The big files is simdata and two smaller files called simmax and simmean may well be related but I have to wonder if the way to view them is at the folder level as a grouped entity or the individual file level. I wonder if there is a trial version of the software you could get from whoever sells it, like TIBCO. Good luck with that. -Original Message- From: R-help On Behalf Of Jan van der Laan Sent: Tuesday, January 17, 2023 9:09 AM To: r-help@r-project.org Subject: Re: [R] foreign package: unable to read S-Plus objects You could try to see what stattransfer can make of it. They have a free version that imports only part of the data. You could use that to see if stattransfer would help and perhaps discover what format it is in. HTH Jsn On 16-01-2023 23:22, Joseph Voelkel wrote: > Dear foreign maintainers and others, > > I am trying to import a number of S-Plus objects into R. The only way I see how to do this is by using the foreign package. > > However, when I try to do this I receive an error message. A snippet of code and the error message follows: > > read.S(file.path(Spath, "nrand")) > Error in read.S(file.path(Spath, "nrand")) : not an S object > > I no longer know the version of S-Plus in which these objects were created. I do know that I have printed documentation, dated July 2001, from S-Plus 6; and that all S-Plus objects were created in the 9/2004 -- 5/2005 range. > > I am afraid that I simply have S-Plus objects that are not the S version 3 files that the foreign package can read, yes? But I am still hoping that it may be possible to read these in. > > I am not attaching some sample S-Plus objects to this email, because I > believe they will be stripped away as binary files. However, a sample > of these files may be found at > > https://drive.google.com/drive/folders/1wFVa972ciP44Ob2YVWfqk8SGIodzAX > Pv?usp=sharing (simdat is the largest file, at 469 KB) > > Thank you for any assistance you may provide. > > R 4.2.2 > Microsoft Windows [Version 10.0.22000.1455] > foreign_0.8-83 > > > Joe Voelkel > Professor Emeritus > RIT > > [[alternative HTML version deleted]] > > __ > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see > 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. __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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. __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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.
Re: [R] foreign package: unable to read S-Plus objects
I just checked the header:
read.S from foreign expects:
readheader <- function(s) {
head <- readBin(s, "int", 8L, 1L)
all(head == c(0L, 83L, 32L, 100L, 97L, 116L, 97L, 1L))
}
but head is
[1] 0 83 32 86 52 45 77 3
i.e. similar but not identical, so a different format is used (S-PLUS 6
or later).
Likely, it is not too hard to write some import function based on read.S
if the file format is documented anywhere. Unfortunately, I do not find
any web resources for it.
So simplest way would be to install the old S-PLUS version and export
all data in a readable format.
Best,
Uwe Ligges
On 17.01.2023 14:21, Viechtbauer, Wolfgang (NP) wrote:
@Joe: I have S-Plus 6.0 ("Professional Edition Version 6.0.3 Release 2 for Microsoft
Windows : 2001") running here and can't load them there either. Tried simdat and
S-Plus apparently thinks it is a script and then you just get a garbled up mess. Tried to
change it to simdat.sdd and a few other extensions, but this didn't help.
Also tried:
data.restore("simdat")
but this also didn't work:
Warning messages:
file "simdat": incomplete last line
Problem: in reading invalid mode for data: [again a garbled mess] at line 2
Not sure how else these are supposed to be read into S-Plus (and if they are
even compatible with this version, although version 6 was the current version
between 2001 and 2005).
Best,
Wolfgang
-Original Message-
From: R-help [mailto:r-help-boun...@r-project.org] On Behalf Of Kevin Thorpe
Sent: Tuesday, 17 January, 2023 13:07
To: Joseph Voelkel
Cc: R Help Mailing List
Subject: Re: [R] foreign package: unable to read S-Plus objects
I think you may be right about the cause. From the, “R Data Import/Export”
document I find,
Function read.S which can read binary objects produced by S-PLUS 3.x, 4.x or
2000
on (32-bit) Unix or Windows (and can read them on a different OS). This is able
to read many but not all S objects: in particular it can read vectors, matrices
and data frames and lists containing those.
This suggests that the binary objects you have cannot be read by this function.
The next two paragraphs read,
Function data.restore reads S-PLUS data dumps (created by data.dump) with the
same restrictions (except that dumps from the Alpha platform can also be read).
It should be possible to read data dumps from S-PLUS 5.x and later written with
data.dump(oldStyle=T).
If you have access to S-PLUS, it is usually more reliable to dump the object(s)
in S-PLUS and source the dump file in R. For S-PLUS 5.x and later you may need
to
use dump(..., oldStyle=T), and to read in very large objects it may be
preferable
to use the dump file as a batch script rather than use the source function.
I think this means that if you had dumped versions of the files you could read
them back with data.restore() or source().
On Jan 16, 2023, at 5:22 PM, Joseph Voelkel wrote:
[You don't often get email from jgv...@rit.edu. Learn why this is important at
https://aka.ms/LearnAboutSenderIdentification ]
Dear foreign maintainers and others,
I am trying to import a number of S-Plus objects into R. The only way I see how
to do this is by using the foreign package.
However, when I try to do this I receive an error message. A snippet of code
and the error message follows:
read.S(file.path(Spath, "nrand"))
Error in read.S(file.path(Spath, "nrand")) : not an S object
I no longer know the version of S-Plus in which these objects were created. I
do know that I have printed documentation, dated July 2001, from S-Plus 6; and
that all S-Plus objects were created in the 9/2004 -- 5/2005 range.
I am afraid that I simply have S-Plus objects that are not the S version 3
files that the foreign package can read, yes? But I am still hoping that it may
be possible to read these in.
I am not attaching some sample S-Plus objects to this email, because I believe
they will be stripped away as binary files. However, a sample of these files may
be found at
https://drive.google.com/drive/folders/1wFVa972ciP44Ob2YVWfqk8SGIodzAXPv?usp=shar
ing (simdat is the largest file, at 469 KB)
Thank you for any assistance you may provide.
R 4.2.2
Microsoft Windows [Version 10.0.22000.1455]
foreign_0.8-83
Joe Voelkel
Professor Emeritus
RIT
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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.
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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.
Re: [R] foreign package: unable to read S-Plus objects
You could try to see what stattransfer can make of it. They have a free version that imports only part of the data. You could use that to see if stattransfer would help and perhaps discover what format it is in. HTH Jsn On 16-01-2023 23:22, Joseph Voelkel wrote: Dear foreign maintainers and others, I am trying to import a number of S-Plus objects into R. The only way I see how to do this is by using the foreign package. However, when I try to do this I receive an error message. A snippet of code and the error message follows: read.S(file.path(Spath, "nrand")) Error in read.S(file.path(Spath, "nrand")) : not an S object I no longer know the version of S-Plus in which these objects were created. I do know that I have printed documentation, dated July 2001, from S-Plus 6; and that all S-Plus objects were created in the 9/2004 -- 5/2005 range. I am afraid that I simply have S-Plus objects that are not the S version 3 files that the foreign package can read, yes? But I am still hoping that it may be possible to read these in. I am not attaching some sample S-Plus objects to this email, because I believe they will be stripped away as binary files. However, a sample of these files may be found at https://drive.google.com/drive/folders/1wFVa972ciP44Ob2YVWfqk8SGIodzAXPv?usp=sharing (simdat is the largest file, at 469 KB) Thank you for any assistance you may provide. R 4.2.2 Microsoft Windows [Version 10.0.22000.1455] foreign_0.8-83 Joe Voelkel Professor Emeritus RIT [[alternative HTML version deleted]] __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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. __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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.
Re: [R] foreign package: unable to read S-Plus objects
@Joe: I have S-Plus 6.0 ("Professional Edition Version 6.0.3 Release 2 for
Microsoft Windows : 2001") running here and can't load them there either. Tried
simdat and S-Plus apparently thinks it is a script and then you just get a
garbled up mess. Tried to change it to simdat.sdd and a few other extensions,
but this didn't help.
Also tried:
data.restore("simdat")
but this also didn't work:
Warning messages:
file "simdat": incomplete last line
Problem: in reading invalid mode for data: [again a garbled mess] at line 2
Not sure how else these are supposed to be read into S-Plus (and if they are
even compatible with this version, although version 6 was the current version
between 2001 and 2005).
Best,
Wolfgang
>-Original Message-
>From: R-help [mailto:r-help-boun...@r-project.org] On Behalf Of Kevin Thorpe
>Sent: Tuesday, 17 January, 2023 13:07
>To: Joseph Voelkel
>Cc: R Help Mailing List
>Subject: Re: [R] foreign package: unable to read S-Plus objects
>
>I think you may be right about the cause. From the, “R Data Import/Export”
>document I find,
>
>Function read.S which can read binary objects produced by S-PLUS 3.x, 4.x or
>2000
>on (32-bit) Unix or Windows (and can read them on a different OS). This is able
>to read many but not all S objects: in particular it can read vectors, matrices
>and data frames and lists containing those.
>
>This suggests that the binary objects you have cannot be read by this function.
>The next two paragraphs read,
>
>Function data.restore reads S-PLUS data dumps (created by data.dump) with the
>same restrictions (except that dumps from the Alpha platform can also be read).
>It should be possible to read data dumps from S-PLUS 5.x and later written with
>data.dump(oldStyle=T).
>
>If you have access to S-PLUS, it is usually more reliable to dump the object(s)
>in S-PLUS and source the dump file in R. For S-PLUS 5.x and later you may need
>to
>use dump(..., oldStyle=T), and to read in very large objects it may be
>preferable
>to use the dump file as a batch script rather than use the source function.
>
>I think this means that if you had dumped versions of the files you could read
>them back with data.restore() or source().
>
>> On Jan 16, 2023, at 5:22 PM, Joseph Voelkel wrote:
>>
>> [You don't often get email from jgv...@rit.edu. Learn why this is important
>> at
>https://aka.ms/LearnAboutSenderIdentification ]
>>
>> Dear foreign maintainers and others,
>>
>> I am trying to import a number of S-Plus objects into R. The only way I see
>> how
>to do this is by using the foreign package.
>>
>> However, when I try to do this I receive an error message. A snippet of code
>and the error message follows:
>>
>> read.S(file.path(Spath, "nrand"))
>> Error in read.S(file.path(Spath, "nrand")) : not an S object
>>
>> I no longer know the version of S-Plus in which these objects were created. I
>do know that I have printed documentation, dated July 2001, from S-Plus 6; and
>that all S-Plus objects were created in the 9/2004 -- 5/2005 range.
>>
>> I am afraid that I simply have S-Plus objects that are not the S version 3
>files that the foreign package can read, yes? But I am still hoping that it may
>be possible to read these in.
>>
>> I am not attaching some sample S-Plus objects to this email, because I
>> believe
>they will be stripped away as binary files. However, a sample of these files
>may
>be found at
>>
>>
>https://drive.google.com/drive/folders/1wFVa972ciP44Ob2YVWfqk8SGIodzAXPv?usp=shar
>ing (simdat is the largest file, at 469 KB)
>>
>> Thank you for any assistance you may provide.
>>
>> R 4.2.2
>> Microsoft Windows [Version 10.0.22000.1455]
>> foreign_0.8-83
>>
>> Joe Voelkel
>> Professor Emeritus
>> RIT
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
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.
Re: [R] foreign package: unable to read S-Plus objects
I think you may be right about the cause. From the, “R Data Import/Export” document I find, Function read.S which can read binary objects produced by S-PLUS 3.x, 4.x or 2000 on (32-bit) Unix or Windows (and can read them on a different OS). This is able to read many but not all S objects: in particular it can read vectors, matrices and data frames and lists containing those. This suggests that the binary objects you have cannot be read by this function. The next two paragraphs read, Function data.restore reads S-PLUS data dumps (created by data.dump) with the same restrictions (except that dumps from the Alpha platform can also be read). It should be possible to read data dumps from S-PLUS 5.x and later written with data.dump(oldStyle=T). If you have access to S-PLUS, it is usually more reliable to dump the object(s) in S-PLUS and source the dump file in R. For S-PLUS 5.x and later you may need to use dump(..., oldStyle=T), and to read in very large objects it may be preferable to use the dump file as a batch script rather than use the source function. I think this means that if you had dumped versions of the files you could read them back with data.restore() or source(). > On Jan 16, 2023, at 5:22 PM, Joseph Voelkel wrote: > > [You don't often get email from jgv...@rit.edu. Learn why this is important > at https://aka.ms/LearnAboutSenderIdentification ] > > Dear foreign maintainers and others, > > I am trying to import a number of S-Plus objects into R. The only way I see > how to do this is by using the foreign package. > > However, when I try to do this I receive an error message. A snippet of code > and the error message follows: > > read.S(file.path(Spath, "nrand")) > Error in read.S(file.path(Spath, "nrand")) : not an S object > > I no longer know the version of S-Plus in which these objects were created. I > do know that I have printed documentation, dated July 2001, from S-Plus 6; > and that all S-Plus objects were created in the 9/2004 -- 5/2005 range. > > I am afraid that I simply have S-Plus objects that are not the S version 3 > files that the foreign package can read, yes? But I am still hoping that it > may be possible to read these in. > > I am not attaching some sample S-Plus objects to this email, because I > believe they will be stripped away as binary files. However, a sample of > these files may be found at > > https://drive.google.com/drive/folders/1wFVa972ciP44Ob2YVWfqk8SGIodzAXPv?usp=sharing > (simdat is the largest file, at 469 KB) > > Thank you for any assistance you may provide. > > R 4.2.2 > Microsoft Windows [Version 10.0.22000.1455] > foreign_0.8-83 > > > Joe Voelkel > Professor Emeritus > RIT > >[[alternative HTML version deleted]] > > __ > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see > 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. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael’s Hospital Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016 __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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.
[R] foreign package: unable to read S-Plus objects
Dear foreign maintainers and others, I am trying to import a number of S-Plus objects into R. The only way I see how to do this is by using the foreign package. However, when I try to do this I receive an error message. A snippet of code and the error message follows: read.S(file.path(Spath, "nrand")) Error in read.S(file.path(Spath, "nrand")) : not an S object I no longer know the version of S-Plus in which these objects were created. I do know that I have printed documentation, dated July 2001, from S-Plus 6; and that all S-Plus objects were created in the 9/2004 -- 5/2005 range. I am afraid that I simply have S-Plus objects that are not the S version 3 files that the foreign package can read, yes? But I am still hoping that it may be possible to read these in. I am not attaching some sample S-Plus objects to this email, because I believe they will be stripped away as binary files. However, a sample of these files may be found at https://drive.google.com/drive/folders/1wFVa972ciP44Ob2YVWfqk8SGIodzAXPv?usp=sharing (simdat is the largest file, at 469 KB) Thank you for any assistance you may provide. R 4.2.2 Microsoft Windows [Version 10.0.22000.1455] foreign_0.8-83 Joe Voelkel Professor Emeritus RIT [[alternative HTML version deleted]] __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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.
