R devel - Sep 2016 - Fwd: Re: RSiteSearch, sos, rdocumentation.org, ...?

Hello, All:


       Jonathan Baron is "giving up" maintaining the RSiteSearch
database.


       This breaks three things:  (1) The R Site Search web service that 
Baron has maintained.  (2) The RSiteSearch function in the utils 
package.  (3) The sos package, for which I'm the maintainer and lead 
author.


       Might someone else be willing to take these over?


       For me, the "findFn" capability with
"writeFindFn2xls" is the
fastest literature search for anything statistical.  However, I don't 
have the resources to take over the management of Baron's R Site Search 
database.


       He's provided a great service for the R community for many 
years.  I hope we can find a way to keep the system maintained. Failing 
that, I could use help in adapting the sos package to another database.


       Thanks,
       Spencer Graves


-------- Forwarded Message --------
Subject: 	Re: RSiteSearch, sos, rdocumentation.org, ...?
Date: 	Wed, 7 Sep 2016 16:15:22 -0400
From: 	Jonathan Baron <baron at psych.upenn.edu>
To: 	Spencer Graves <spencer.graves at prodsyse.com>
CC: 	Jonathan Baron <baron at psych.upenn.edu>, chris.is.fun at gmail.com,
info at datacamp.com <info at datacamp.com>, Sundar Dorai-Raj 
<sdorairaj at gmail.com>, webmaster at www.r-project-org



R site search has stopped working. The indexing scrip, mknmz, failed
to complete. It has been producing more and more errors and warnings,
since it has not been updated for 5 yeaers.

I am giving up on this site. I have too many other things to do aside
from find bugs in programs written in languages I don't know (Perl),
or set up an alternative search engine.

Please inform anyone else who needs to be informed.

I cannot find the email of the www.r-project.org webmaster, so I'm
taking a stab. There are several links to this site in those pages.

Jon
-- 
Jonathan Baron, Professor of Psychology, University of Pennsylvania
Home page: http://www.sas.upenn.edu/~baron
Editor: Judgment and Decision Making (http://journal.sjdm.org)


	[[alternative HTML version deleted]]

Spencer,

Thanks for the quick reply.

I am open to someone who knows Perl getting an account on my site and
trying to get it working. It will probably involve fixing more than
one thing, as mknmz depends on some perl modules that also generate
errors.

My main contribution is figuring out how to extract the html help
files and vignettes only, with some help from R developers and Fedora
maintainers. Here is the trick, for someone who wants to do it:

m0 <- rownames(installed.packages())
m1 <- m0[which(m0 %in% needed.packages)]
source("http://bioconductor.org/biocLite.R")
update.packages(oldPkgs=m1,repos=biocinstallRepos())
update.packages(dependencies=FALSE,INSTALL_opts=c("--no-configure","--no-test-load","--no-R","--no-clean-on-error","--no-libs","--no-data","--no-demo","--no-exec","--html"),repos=biocinstallRepos(),ask=F)
m3 <- new.packages()
install.packages(m3,dependencies=FALSE,INSTALL_opts=c("--no-configure","--no-test-load","--no-R","--no-clean-on-error","--no-libs","--no-data","--no-demo","--no-exec","--html"),repos=biocinstallRepos())

Note 1: The first 4 lines are designed to deal with a list of the
packages that you actually use. These can be eliminated if you don't
use R on the same machine. The last 3 lines are all you need.

Note 2: This works on Fedora, but I think that the Fedora maintainers
of R have set some defaults that are helpful.

Jon

On 09/07/16 15:41, Spencer Graves wrote:
>Hello, All:
>
>
>       Jonathan Baron is "giving up" maintaining the RSiteSearch
database.
>
>
>       This breaks three things:  (1) The R Site Search web service that 
>Baron has maintained.  (2) The RSiteSearch function in the utils 
>package.  (3) The sos package, for which I'm the maintainer and lead 
>author.
>
>
>       Might someone else be willing to take these over?
>
>
>       For me, the "findFn" capability with
"writeFindFn2xls" is the
>fastest literature search for anything statistical.  However, I don't 
>have the resources to take over the management of Baron's R Site Search 
>database.
>
>
>       He's provided a great service for the R community for many 
>years.  I hope we can find a way to keep the system maintained. Failing 
>that, I could use help in adapting the sos package to another database.
>
>
>       Thanks,
>       Spencer Graves
>
>
>-------- Forwarded Message --------
>Subject: 	Re: RSiteSearch, sos, rdocumentation.org, ...?
>Date: 	Wed, 7 Sep 2016 16:15:22 -0400
>From: 	Jonathan Baron <baron at psych.upenn.edu>
>To: 	Spencer Graves <spencer.graves at prodsyse.com>
>CC: 	Jonathan Baron <baron at psych.upenn.edu>, chris.is.fun at
gmail.com,
>info at datacamp.com <info at datacamp.com>, Sundar Dorai-Raj 
><sdorairaj at gmail.com>, webmaster at www.r-project-org
>
>
>
>R site search has stopped working. The indexing scrip, mknmz, failed
>to complete. It has been producing more and more errors and warnings,
>since it has not been updated for 5 yeaers.
>
>I am giving up on this site. I have too many other things to do aside
>from find bugs in programs written in languages I don't know (Perl),
>or set up an alternative search engine.
>
>Please inform anyone else who needs to be informed.
>
>I cannot find the email of the www.r-project.org webmaster, so I'm
>taking a stab. There are several links to this site in those pages.
>
>Jon
>-- 
>Jonathan Baron, Professor of Psychology, University of Pennsylvania
>Home page: http://www.sas.upenn.edu/~baron
>Editor: Judgment and Decision Making (http://journal.sjdm.org)
>
-- 
Jonathan Baron, Professor of Psychology, University of Pennsylvania
Home page: http://www.sas.upenn.edu/~baron
Editor: Judgment and Decision Making (http://journal.sjdm.org)

Don't do anything yet. I may have found the problem by accident.

I tried to use the computer from something else, and it was being
drastically slowed down by some leftover processes, which turned out
to be xlhtml. That is something that converts Excel files. Apparently,
some excel files got into the libraries, and they were causing the
indexing to hang completely.

I am now running everything again, starting from scratch, and it might
work. (I'm doing it wrong, but it is 3/4 done. I will do it right
tomorrow, if it works overnight.)

Jon

On 09/07/16 16:53, Jonathan Baron wrote:
>Spencer,
>
>Thanks for the quick reply.
>
>I am open to someone who knows Perl getting an account on my site and
>trying to get it working. It will probably involve fixing more than
>one thing, as mknmz depends on some perl modules that also generate
>errors.
>
>My main contribution is figuring out how to extract the html help
>files and vignettes only, with some help from R developers and Fedora
>maintainers. Here is the trick, for someone who wants to do it:
>
>m0 <- rownames(installed.packages())
>m1 <- m0[which(m0 %in% needed.packages)]
>source("http://bioconductor.org/biocLite.R")
>update.packages(oldPkgs=m1,repos=biocinstallRepos())
>update.packages(dependencies=FALSE,INSTALL_opts=c("--no-configure","--no-test-load","
>--no-R","--no-clean-on-error","--no-libs","--no-data","--no-demo","--no-exec","--html
>"),repos=biocinstallRepos(),ask=F)
>m3 <- new.packages()
>install.packages(m3,dependencies=FALSE,INSTALL_opts=c("--no-configure","--no-test-loa
>d","--no-R","--no-clean-on-error","--no-libs","--no-data","--no-demo","--no-exec","--
>html"),repos=biocinstallRepos())
>
>Note 1: The first 4 lines are designed to deal with a list of the
>packages that you actually use. These can be eliminated if you don't
>use R on the same machine. The last 3 lines are all you need.
>
>Note 2: This works on Fedora, but I think that the Fedora maintainers
>of R have set some defaults that are helpful.
>
>Jon
>
>On 09/07/16 15:41, Spencer Graves wrote:
>>Hello, All:
>>
>>
>>       Jonathan Baron is "giving up" maintaining the
RSiteSearch database.
>>
>>
>>       This breaks three things:  (1) The R Site Search web service that
>>Baron has maintained.  (2) The RSiteSearch function in the utils 
>>package.  (3) The sos package, for which I'm the maintainer and lead
>>author.
>>
>>
>>       Might someone else be willing to take these over?
>>
>>
>>       For me, the "findFn" capability with
"writeFindFn2xls" is the
>>fastest literature search for anything statistical.  However, I
don't
>>have the resources to take over the management of Baron's R Site
Search
>>database.
>>
>>
>>       He's provided a great service for the R community for many 
>>years.  I hope we can find a way to keep the system maintained. Failing 
>>that, I could use help in adapting the sos package to another database.
>>
>>
>>       Thanks,
>>       Spencer Graves
>>
>>
>>-------- Forwarded Message --------
>>Subject: 	Re: RSiteSearch, sos, rdocumentation.org, ...?
>>Date: 	Wed, 7 Sep 2016 16:15:22 -0400
>>From: 	Jonathan Baron <baron at psych.upenn.edu>
>>To: 	Spencer Graves <spencer.graves at prodsyse.com>
>>CC: 	Jonathan Baron <baron at psych.upenn.edu>, chris.is.fun at
gmail.com,
>>info at datacamp.com <info at datacamp.com>, Sundar Dorai-Raj 
>><sdorairaj at gmail.com>, webmaster at www.r-project-org
>>
>>
>>
>>R site search has stopped working. The indexing scrip, mknmz, failed
>>to complete. It has been producing more and more errors and warnings,
>>since it has not been updated for 5 yeaers.
>>
>>I am giving up on this site. I have too many other things to do aside
>>from find bugs in programs written in languages I don't know (Perl),
>>or set up an alternative search engine.
>>
>>Please inform anyone else who needs to be informed.
>>
>>I cannot find the email of the www.r-project.org webmaster, so I'm
>>taking a stab. There are several links to this site in those pages.
>>
>>Jon
>>-- 
>>Jonathan Baron, Professor of Psychology, University of Pennsylvania
>>Home page: http://www.sas.upenn.edu/~baron
>>Editor: Judgment and Decision Making (http://journal.sjdm.org)
>>
>
>-- 
>Jonathan Baron, Professor of Psychology, University of Pennsylvania
>Home page: http://www.sas.upenn.edu/~baron
>Editor: Judgment and Decision Making (http://journal.sjdm.org)
-- 
Jonathan Baron, Professor of Psychology, University of Pennsylvania
Home page: http://www.sas.upenn.edu/~baron
Editor: Judgment and Decision Making (http://journal.sjdm.org)

On 9/8/2016 3:30 AM, Joris Meys wrote:
>
> Hi Jonathan,
>
> I have neither the resources nor the skills to take over, but whatever 
> happens I want to thank you for all the work. Too often people forget 
> that all these nice tools keep working due to the devotion of people 
> like you.
>
> So thank you!
>

       I concur.  People all over the world live better today, because R 
made it easier for others to solve problems -- and Jon made a 
substantive contribution to that.  Spencer

> Cheers
> Joris
>
>
> On 8 Sep 2016 04:08, "Jonathan Baron" <baron at
psych.upenn.edu
> <mailto:baron at psych.upenn.edu>> wrote:
>
>     Don't do anything yet. I may have found the problem by accident.
>
>     I tried to use the computer from something else, and it was being
>     drastically slowed down by some leftover processes, which turned out
>     to be xlhtml. That is something that converts Excel files. Apparently,
>     some excel files got into the libraries, and they were causing the
>     indexing to hang completely.
>
>     I am now running everything again, starting from scratch, and it might
>     work. (I'm doing it wrong, but it is 3/4 done. I will do it right
>     tomorrow, if it works overnight.)
>
>     Jon
>
>     On 09/07/16 16:53, Jonathan Baron wrote:
>
>         Spencer,
>
>         Thanks for the quick reply.
>
>         I am open to someone who knows Perl getting an account on my
>         site and
>         trying to get it working. It will probably involve fixing more
>         than
>         one thing, as mknmz depends on some perl modules that also
>         generate
>         errors.
>
>         My main contribution is figuring out how to extract the html help
>         files and vignettes only, with some help from R developers and
>         Fedora
>         maintainers. Here is the trick, for someone who wants to do it:
>
>         m0 <- rownames(installed.packages())
>         m1 <- m0[which(m0 %in% needed.packages)]
>         source("http://bioconductor.org/biocLite.R
>         <http://bioconductor.org/biocLite.R>")
>         update.packages(oldPkgs=m1,repos=biocinstallRepos())
>        
update.packages(dependencies=FALSE,INSTALL_opts=c("--no-configure","--no-test-load","
>        
--no-R","--no-clean-on-error","--no-libs","--no-data","--no-demo","--no-exec","--html
>         "),repos=biocinstallRepos(),ask=F)
>         m3 <- new.packages()
>        
install.packages(m3,dependencies=FALSE,INSTALL_opts=c("--no-configure","--no-test-loa
>        
d","--no-R","--no-clean-on-error","--no-libs","--no-data","--no-demo","--no-exec","--
>         html"),repos=biocinstallRepos())
>
>         Note 1: The first 4 lines are designed to deal with a list of the
>         packages that you actually use. These can be eliminated if you
>         don't
>         use R on the same machine. The last 3 lines are all you need.
>
>         Note 2: This works on Fedora, but I think that the Fedora
>         maintainers
>         of R have set some defaults that are helpful.
>
>         Jon
>
>         On 09/07/16 15:41, Spencer Graves wrote:
>
>             Hello, All:
>
>
>                   Jonathan Baron is "giving up" maintaining the
>             RSiteSearch database.
>
>
>                   This breaks three things:  (1) The R Site Search web
>             service that Baron has maintained.  (2) The RSiteSearch
>             function in the utils package.  (3) The sos package, for
>             which I'm the maintainer and lead author.
>
>
>                   Might someone else be willing to take these over?
>
>
>                   For me, the "findFn" capability with
>             "writeFindFn2xls" is the fastest literature search
for
>             anything statistical.  However, I don't have the resources
>             to take over the management of Baron's R Site Search
database.
>
>
>                   He's provided a great service for the R community
>             for many years.  I hope we can find a way to keep the
>             system maintained. Failing that, I could use help in
>             adapting the sos package to another database.
>
>
>                   Thanks,
>                   Spencer Graves
>
>
>             -------- Forwarded Message --------
>             Subject:        Re: RSiteSearch, sos, rdocumentation.org
>             <http://rdocumentation.org>, ...?
>             Date:   Wed, 7 Sep 2016 16:15:22 -0400
>             From:   Jonathan Baron <baron at psych.upenn.edu
>             <mailto:baron at psych.upenn.edu>>
>             To:     Spencer Graves <spencer.graves at prodsyse.com
>             <mailto:spencer.graves at prodsyse.com>>
>             CC:     Jonathan Baron <baron at psych.upenn.edu
>             <mailto:baron at psych.upenn.edu>>, chris.is.fun at
gmail.com
>             <mailto:chris.is.fun at gmail.com>, info at datacamp.com
>             <mailto:info at datacamp.com> <info at datacamp.com
>             <mailto:info at datacamp.com>>, Sundar Dorai-Raj
>             <sdorairaj at gmail.com <mailto:sdorairaj at
gmail.com>>,
>             webmaster at www.r-project-org
>
>
>
>             R site search has stopped working. The indexing scrip,
>             mknmz, failed
>             to complete. It has been producing more and more errors
>             and warnings,
>             since it has not been updated for 5 yeaers.
>
>             I am giving up on this site. I have too many other things
>             to do aside
>             from find bugs in programs written in languages I don't
>             know (Perl),
>             or set up an alternative search engine.
>
>             Please inform anyone else who needs to be informed.
>
>             I cannot find the email of the www.r-project.org
>             <http://www.r-project.org> webmaster, so I'm
>             taking a stab. There are several links to this site in
>             those pages.
>
>             Jon
>             -- 
>             Jonathan Baron, Professor of Psychology, University of
>             Pennsylvania
>             Home page: http://www.sas.upenn.edu/~baron
>             <http://www.sas.upenn.edu/%7Ebaron>
>             Editor: Judgment and Decision Making (http://journal.sjdm.org)
>
>
>         -- 
>         Jonathan Baron, Professor of Psychology, University of
>         Pennsylvania
>         Home page: http://www.sas.upenn.edu/~baron
>         <http://www.sas.upenn.edu/%7Ebaron>
>         Editor: Judgment and Decision Making (http://journal.sjdm.org)
>
>
>     -- 
>     Jonathan Baron, Professor of Psychology, University of Pennsylvania
>     Home page: http://www.sas.upenn.edu/~baron
>     <http://www.sas.upenn.edu/%7Ebaron>
>     Editor: Judgment and Decision Making (http://journal.sjdm.org)
>
>     ______________________________________________
>     R-devel at r-project.org <mailto:R-devel at r-project.org>
mailing list
>     https://stat.ethz.ch/mailman/listinfo/r-devel
>     <https://stat.ethz.ch/mailman/listinfo/r-devel>
>

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