rkward-devel — Discussion of RKWard development

[rkward-devel] fatal error: unable to initialize the JIT

[Vicmich <vi...@ao...>]

 Occured after updating r-base July 1, 2018 and sent the massage


'The R engine has encountered a fatal error:
unable to initialize the JIT
The R backend will be shut down immediately ...Since this should never happen, please write a mail ...and tell us, what you were trying to do'


It happened at the first use of RKWard after the update of r-base July 1, 2018 in Linux Mint 17.3.


Hope you have a solution to my first scratch in a great product.

 

Vicmich
vi...@ao...

[rkward-devel] GUI stopped and it is not working

[Hobbesian T. <bon...@gm...>]

Hi,

      Please look into the screenshot picture. I opened rkward for the
first time and that is the message it shows. I can't load any data or do
anything here. Please let me know what the problem is.

Regards,
Karthy

[rkward-devel] QLocalSocket: Remote closed

[Mariano F. <mar...@gm...>]

Hi there!

I'm ubuntu user (12.04, 64-bit).
After update R to version 3.2.5 (2016-04-14), RKWard was unable to be used.
Before and after that, RStudio works normally.
Do you know anything about that?

So many thanks in advance.

Best wishes,

Mariano

[rkward-devel] Fwd: KDE Emerge emerged as Craft

[meik m. <mei...@un...>]

FYI :: m.

----------  Weitergeleitete Nachricht  ----------

Betreff: KDE Emerge emerged as Craft
Datum: Montag, 21. November 2016, 10:22:24 CET
Von: Hannah von Reth <vo...@kd...>
An: kd...@kd... <kd...@kd...>, kde...@kd... <kde...@kd...>

The KDE Emerge tool got a new name.
Not only that, Craft is capable of so much more than just building KDE on 
Windows.

Craft is an open source meta build system and package manager. 
It manages dependencies and builds libraries and applications from source, on 
Windows, Mac, Linux and FreeBSD. 

Read the announcement[1] and start Crafting!

Visite the new Community Wiki[2]
or our new repository[3]

Kind regards,

Hannah

[1] https://the2ring.blogspot.de/2016/11/time-to-craft.html
[2] https://community.kde.org/Craft
[3] https://commits.kde.org/craft 		 	   		  

-------------------------------------------------------------
-- 
  dipl. psych. meik michalke
  institut f"ur experimentelle psychologie
  abt. f"ur diagnostik und differentielle psychologie
  heinrich-heine-universit"at d-40204 d"usseldorf

[rkward-devel] ggplot2

[Edward P. <edw...@ya...>]

Dear Sir/Madam

I am using RKWard on Ubuntu Mate having used it a lot on Windows.  I don't seem to be able to install ggplot2 though.  I love RKWard, so I would hate not to be able to use it!

I am using R version 3.2.2 (2015-08-14) -- "Fire Safety"
Copyright (C) 2015 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

This is what I get.  Sorry it is so long, but I am not sure what you need and I am not a computer buff!

Many thanks

Edward

> install.packages("ggplot2", dependencies=TRUE)
Installing package into ‘/home/edward/.rkward/library’
(as ‘lib’ is unspecified)
also installing the dependencies ‘curl’, ‘openssl’, ‘stringr’, ‘httr’, ‘evaluate’, ‘gdtools’, ‘reshape2’, ‘covr’, ‘Hmisc’, ‘knitr’, ‘rmarkdown’, ‘svglite’

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/curl_0.9.7.tar.gz'
Content type 'application/x-gzip' length 263926 bytes (257 KB)
==================================================
downloaded 257 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/openssl_0.9.4.tar.gz'
Content type 'application/x-gzip' length 1165388 bytes (1.1 MB)
==================================================
downloaded 1.1 MB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/stringr_1.0.0.tar.gz'
Content type 'application/x-gzip' length 34880 bytes (34 KB)
==================================================
downloaded 34 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/httr_1.2.0.tar.gz'
Content type 'application/x-gzip' length 133324 bytes (130 KB)
==================================================
downloaded 130 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/evaluate_0.9.tar.gz'
Content type 'application/x-gzip' length 19165 bytes (18 KB)
==================================================
downloaded 18 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/gdtools_0.0.7.tar.gz'
Content type 'application/x-gzip' length 12494 bytes (12 KB)
==================================================
downloaded 12 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/reshape2_1.4.1.tar.gz'
Content type 'application/x-gzip' length 34693 bytes (33 KB)
==================================================
downloaded 33 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/covr_2.0.1.tar.gz'
Content type 'application/x-gzip' length 56202 bytes (54 KB)
==================================================
downloaded 54 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/Hmisc_3.17-4.tar.gz'
Content type 'application/x-gzip' length 647519 bytes (632 KB)
==================================================
downloaded 632 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/knitr_1.13.tar.gz'
Content type 'application/x-gzip' length 886610 bytes (865 KB)
==================================================
downloaded 865 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/rmarkdown_0.9.6.tar.gz'
Content type 'application/x-gzip' length 2013956 bytes (1.9 MB)
==================================================
downloaded 1.9 MB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/svglite_1.1.0.tar.gz'
Content type 'application/x-gzip' length 16176 bytes (15 KB)
==================================================
downloaded 15 KB

trying URL 'https://mirrors.ebi.ac.uk/CRAN/src/contrib/ggplot2_2.1.0.tar.gz'
Content type 'application/x-gzip' length 1571788 bytes (1.5 MB)
==================================================
downloaded 1.5 MB

* installing *source* package ‘curl’ ...
** package ‘curl’ successfully unpacked and MD5 sums checked
Package libcurl was not found in the pkg-config search path.
Perhaps you should add the directory containing `libcurl.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libcurl' found
Package libcurl was not found in the pkg-config search path.
Perhaps you should add the directory containing `libcurl.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libcurl' found
Using PKG_CFLAGS=
Using PKG_LIBS=-lcurl
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because libcurl was not found. Try installing:
 * deb: libcurl4-openssl-dev (Debian, Ubuntu, etc)
 * rpm: libcurl-devel (Fedora, CentOS, RHEL)
 * csw: libcurl_dev (Solaris)
If libcurl is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a libcurl.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘curl’
* removing ‘/home/edward/.rkward/library/curl’
* installing *source* package ‘openssl’ ...
** package ‘openssl’ successfully unpacked and MD5 sums checked
Using PKG_CFLAGS=
Using PKG_LIBS=-lssl -lcrypto
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because openssl was not found. Try installing:
 * deb: libssl-dev (Debian, Ubuntu, etc)
 * rpm: openssl-devel (Fedora, CentOS, RHEL)
 * csw: libssl_dev (Solaris)
 * brew: openssl (Mac OSX)
If openssl is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a openssl.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘openssl’
* removing ‘/home/edward/.rkward/library/openssl’
* installing *source* package ‘stringr’ ...
** package ‘stringr’ successfully unpacked and MD5 sums checked
** R
** inst
** preparing package for lazy loading
Error in library.dynam(lib, package, package.lib) : 
  shared object ‘stringi.so’ not found
ERROR: lazy loading failed for package ‘stringr’
* removing ‘/home/edward/.rkward/library/stringr’
* installing *source* package ‘gdtools’ ...
** package ‘gdtools’ successfully unpacked and MD5 sums checked
Package cairo was not found in the pkg-config search path.
Perhaps you should add the directory containing `cairo.pc'
to the PKG_CONFIG_PATH environment variable
No package 'cairo' found
Using PKG_CFLAGS=
Using PKG_LIBS=-lcairo
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because cairo was not found. Try installing:
 * deb: libcairo-dev (Debian, Ubuntu)
 * rpm: cairo-devel (Fedora, CentOS, RHEL)
 * csw: libcairo_dev (Solaris)
 * brew: cairo (OSX)
If cairo is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a cairo.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘gdtools’
* removing ‘/home/edward/.rkward/library/gdtools’
ERROR: dependencies ‘curl’, ‘openssl’ are not available for package ‘httr’
* removing ‘/home/edward/.rkward/library/httr’
ERROR: dependency ‘stringr’ is not available for package ‘evaluate’
* removing ‘/home/edward/.rkward/library/evaluate’
ERROR: dependency ‘stringr’ is not available for package ‘reshape2’
* removing ‘/home/edward/.rkward/library/reshape2’
ERROR: dependency ‘gdtools’ is not available for package ‘svglite’
* removing ‘/home/edward/.rkward/library/svglite’
ERROR: dependency ‘httr’ is not available for package ‘covr’
* removing ‘/home/edward/.rkward/library/covr’
ERROR: dependencies ‘evaluate’, ‘stringr’ are not available for package ‘knitr’
* removing ‘/home/edward/.rkward/library/knitr’
ERROR: dependency ‘reshape2’ is not available for package ‘ggplot2’
* removing ‘/home/edward/.rkward/library/ggplot2’
ERROR: dependency ‘ggplot2’ is not available for package ‘Hmisc’
* removing ‘/home/edward/.rkward/library/Hmisc’
ERROR: dependency ‘knitr’ is not available for package ‘rmarkdown’
* removing ‘/home/edward/.rkward/library/rmarkdown’

The downloaded source packages are in
	‘/tmp/RtmpHhMFl9/downloaded_packages’
There were 13 warnings (use warnings() to see them)
> warnings()
Warning messages:
1: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘curl’ had non-zero exit status
2: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘openssl’ had non-zero exit status
3: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘stringr’ had non-zero exit status
4: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘gdtools’ had non-zero exit status
5: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘httr’ had non-zero exit status
6: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘evaluate’ had non-zero exit status
7: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘reshape2’ had non-zero exit status
8: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘svglite’ had non-zero exit status
9: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘covr’ had non-zero exit status
10: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘knitr’ had non-zero exit status
11: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘ggplot2’ had non-zero exit status
12: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘Hmisc’ had non-zero exit status
13: In install.packages("ggplot2", dependencies = TRUE) :
  installation of package ‘rmarkdown’ had non-zero exit status

[rkward-devel] R engine has died error

[Max C. <msc...@gm...>]

Hello,

I was running some graphics-saving code, and I got this error:

Connection closed unexpectedly. Last error was:
QLocalSocket: Remote closed
The R backend will be shut down immediately. This means, you can not use 
any more functions that rely on it. I.e. you can do hardly anything at 
all, not even save the workspace (but if you're lucky, R already did 
that). What you can do, however, is save any open command-files, the 
output, or copy data out of open data editors.
Quit RKWard after that.
Since this should never happen, please write a mail to 
rkw...@li..., and tell us what you were trying to 
do, when this happened. Sorry!

I had the following libraries loaded:

* plyr
* dplyr
* reshape2
* ggplot2
* scales

I was looping through a list of 2-length characters to generate pairwise 
plots.  Here is the code that was running near the end:

 > for (pair in support_pairs){
+   v1 = pair[1]
+   v2 = pair[2]
+   input_make_percent = all(na.omit(df[,v1])>= 0 & na.omit(df[,v1]) <= 1)
+   output_make_percent = all(na.omit(df[,v2])>= 0 & na.omit(df[,v2]) <= 1)
+   if (input_make_percent) {
+     v1p = scale_x_continuous(label=percent)
+   }
+   else{
+     v1p = NULL
+   }
+   if (output_make_percent) {
+     v2p = scale_y_continuous(label=percent)
+   }
+   else{
+     v2p = NULL
+   }
+   graphic = ifelse(is.factor(df[,v1]),geom_bar,geom_point)
+   png(fn_make(paste0(v1,'_',v2,'_','support.png')))
+   print(
+ 
ggplot(df,aes_string(x=v1,y=v2))+graphic(stat='identity')+geom_smooth(method='lm') 
+
+     xlab(input_descriptions[[v1]]) + ylab(results_descriptions[[v2]]) +
+     ggtitle(titlify(paste0(input_descriptions[[v1]],' vs. 
',results_descriptions[[v2]]))) +v1p + v2p
+   )
+   dev.off()
+ }
--- interrupted ---

I realize there was a bug (geom_smooth should not be used when I use 
geom_boxplot). When I removed this bug, the issue no longer persisted.

Here is the curious thing: When I added a print(pair) line in the second 
loop (where the error occurs), it did not initially print, but after the 
error was thrown, it started to print out each of the pairs, and when it 
finished, I could use the console again and resume work normally (even 
when I didn't remove the previous bug).

When I added print(1), print(2), print(3), print(4) to various points in 
the code, it did not thrown an error at all.  When I removed the 
additional print statements (whether they were inside the png() block or 
not), the error persisted.

This error occurred using Version 0.6.1, and I am running it on Ubuntu 
14.04 LTS.

I will send any additional information I can (or if I've found a way to 
resolve the issue.

Best,

Max Candocia

[rkward-devel] rkward crashes R backend

[Maureen A. <mar...@ve...>]

Hello team,

 

A new install of rkward crashes the R backend when it launches.  Rkward is
running on a Ubuntu 14.04 ("Trusty) 64 bit system.  The R version on the 64
bit machine is not known and is identified by the R team as "R under
development (unstable)".

 

As a point of reference, an installation of Rkward does NOT crash the
backend on a 32 bit Ubuntu 14.04 box. This version of R is 3.2.2.

 

Any help would be appreciated.  It's a nice software.  Compares favorably to
Rstudio.

 

Regards,

Mark Allyn

 

 

Re: [rkward-devel] rkward crash

[Thomas F. <tho...@ru...>]

Hi Ashley,

On Tue, 15 Sep 2015 20:45:45 +0930
Ashley Greenwood <ash...@st...> wrote:
> Now often getting a crash dialogue that says:
> 
> Connection closed unexpectedly. Last error was: QLocalSocket: Remote
> closed

this looks like the R backend is crashing. This could be a problem with
RKWard or it could be a crash in R / one of the packages involved. A
useful first approach to narrow the problem is to try running the same
thing in a plain R terminal session. If needed, you can refer to
RKWard's "Command Log"-Window and copy and paste all the steps
involved.

If you get crahes, there, you'll have to debug your R packages.
Typically, gctorture() helps a lot. If you cannot reproduce the crash
outside RKWard, please do get back to us, so we can track down and fix
the issue in our code.

Regards
Thomas

Re: [rkward-devel] rkward crash

[Ashley G. <ash...@st...>]

Hi Thomas,
Now often getting a crash dialogue that says:

Connection closed unexpectedly. Last error was: QLocalSocket: Remote closed

The R backend will be shut down immediately. This means, you can not use
any more functions that rely on it. I.e. you can do hardly anything at all,
not even save the workspace (but if you're lucky, R already did that). What
you can do, however, is save any open command-files, the output, or copy
data out of open data editors. Quit RKWard after that.

Since this should never happen, please write a mail to
rkw...@li..., and tell us, what you were trying to
do, when this happened. Sorry!


Thx


Ash


On Tue, Sep 15, 2015 at 8:16 AM, Ashley Greenwood <
ash...@st...> wrote:

> Hi Thomas,
> I am now running large ~100K iteration jobs using a Fortran executable.
> No trouble over last couple of days, however this morning the thing froze
> after completing one of these runs.  I re built the desktop as I read this
> could be a recurrent issue with OS Ubuntu 14.04. Now Rkward and possibly R
> loses its connection.
>
> When I start rkward from terminal
> > rkward
>
> I get
>
> Error: "/var/tmp/kdecache-ashleyjg" is owned by uid 1000 instead of uid 0.
> Connecting to deprecated signal
> QDBusConnectionInterface::serviceOwnerChanged(QString,QString,QString)
> QDBusConnection: session D-Bus connection created before QCoreApplication.
> Application may misbehave.
> QDBusConnection: session D-Bus connection created before QCoreApplication.
> Application may misbehave.
> Error: "/var/tmp/kdecache-ashleyjg" is owned by uid 1000 instead of uid 0.
> kbuildsycoca4 running...
> Error: "/var/tmp/kdecache-ashleyjg" is owned by uid 1000 instead of uid 0.
> kbuildsycoca4(2254) KBuildSycoca::checkTimestamps: checking file timestamps
> kbuildsycoca4(2254) KBuildSycoca::checkTimestamps: timestamps check ok
> kbuildsycoca4(2254) kdemain: Emitting notifyDatabaseChanged ()
> Error: "/var/tmp/kdecache-ashleyjg" is owned by uid 1000 instead of uid 0.
>
>
> Is that likely to be a problem?
>
> Am currently checking my R code for suspicious glitches.  R 3.2.2; rkward
> 6.2.2; Ubuntu 14.04; i5 Toshiba; 240 GB SSHD; 8 GB ram.
>
> Thanks
>
> Ash
>
> On Mon, Sep 7, 2015 at 9:04 PM, Thomas Friedrichsmeier <
> tho...@ru...> wrote:
>
>> Hi,
>>
>> On Mon, 7 Sep 2015 16:28:57 +0930
>> Ashley Greenwood <ash...@st...> wrote:
>> > I can confirm I DON'T have an "Analysis" menu.
>>
>> ok, likely your config got broken when running RKWard before it
>> was installed, correctly. Try
>>   mv ~/.kde/share/config/rkwardrc rkward.config.backup
>> to make RKWard forget about all settings (while it is not running).
>>
>> Regards
>> Thomas
>>
>

[rkward-devel] rkward crash

[Ashley G. <ash...@st...>]

Hi,
Running Ubuntu precise LTS thru Vbox on an now oldish Toshiba laptop.
Graphics card won't let me upgrade to more recent Ubuntu.  Consequently I'm
using rkward 0.5.7-2build1.
<https://launchpad.net/ubuntu/+source/rkward/0.5.7-2build1>

Last night I upgraded R to 3.2.2 from 2.15 ish to run more recent packages.

When starting dialogue 'R-engine has died' (graphic attached). The dialogue
said I should email you.

I've re-installed 0.5.7-2 a couple of times.  I will now be trying to
install and run version  0.6.2.

This small piece of work is all I need to get rid of my PhD.  Hope it can
be easily surmounted.

-- 
#---
Ashley Greenwood

PhD candidate
Department of Forest and Ecosystem Science
School of Land and Environment
The University of Melbourne
Level 1, 221 Bouverie Street
Parkville, Victoria 3010
ash...@st...
mb: 0457 219 937

Forest and Landscape Processes and Risks
CSIRO Land and Water Flagship
15 College Road
Sandy Bay, Tasmania 7005
Private Bag 12
Hobart, Tasmania 7001
em: ash...@cs...
ph: 03 6237 5626
fx:   03 6237 5601

[rkward-devel] Consulta..

[Juan L. G. <ju...@ho...>]

Estoy intentando ingresar al rKward y me sale el siguiente mensaje:

              

Por favor les pido que me puedan ayudar a la solución, soy
usuario de rkaward con fines estrictamente académico.
Gracias

Juan Luis Guzmán

 		 	   		  

Re: [rkward-devel] Error en RKWard

[Thomas F. <tho...@ru...>]

Hi!

On Fri, 6 Feb 2015 09:53:59 -0400
Juan Luis Guzmán <ju...@ho...> wrote:
> Estimados amigos de RKWard, estoy realizando un curso en XMiriada con
> la Universidad San Pablo CEU, al iniciar el RKWard, me sale el
> siguiente error:
> 
> Backend process has exited with code -1073741511

Here is my guess:

- You are running on Windows
- You installed the "Complete installation bundle", version 0.6.2 of
  RKWard

Please make sure you run the "rkward.exe"-file contained in this. Do
not run "rkward.frontend.exe", or - in case you have installed over a
previous installation "rkward.bat".

If you want a better guess, please provide more detail (which
operating system, how did you install, etc.). If possible at all, please
write in English. See http://rkward.kde.org/bugs .

Regards
Thomas

[rkward-devel] Error en RKWard

[Juan L. G. <ju...@ho...>]

Estimados amigos de RKWard, estoy realizando un curso en XMiriada con la Universidad San Pablo CEU, al iniciar
el RKWard, me sale el siguiente error:

Backend process has exited with code -1073741511
The R backend will be shut down immediately. This means, you can not use any more functions that rely on it. I.e. you can do hardly anything at all, not even save the workspace (but if you're lucky, R already did that). What you can do, however, is save any open command-files, the output, or copy data out of open data editors. Quit RKWard after that.
Since this should never happen, please write a mail to rkw...@li..., and tell us, what you were trying to do, when this happened. Sorry

Reinstalé el software, pero el error persiste.
Por favor, ayudenme, deseo continuar el curso.
Saludos

Juan Luis Guzmán

 		 	   		  

Re: [rkward-devel] Review Request 121245: Change rkward-devel macport to build from git repo

[Thomas F. <tho...@ru...>]

-----------------------------------------------------------
This is an automatically generated e-mail. To reply, visit:
https://git.reviewboard.kde.org/r/121245/
-----------------------------------------------------------

(Updated Jan. 29, 2015, 10:04 a.m.)


Status
------

This change has been marked as submitted.


Review request for Rkward.


Repository: rkward


Description
-------

So we can shut down the svn repo on SF.net (actually not shutting it down, but marking it as out-of-date)


Diffs
-----

  macports/kde/rkward-devel/Portfile eb6f7a4 

Diff: https://git.reviewboard.kde.org/r/121245/diff/


Testing
-------

None. Which is the reason for this review request. (Well, another reason is that I wanted to test our reviewboard setup).


Thanks,

Thomas Friedrichsmeier

[rkward-devel] Backend process has exited with code -1073741515

[Rubén <rub...@ya...>]

Backend process has exited with code -1073741515.

This warning appears when the program is loaded.I impedes load jobs.Thanks.Ruben

[rkward-devel] rkward crash

[Francis, W. <w.f...@lr...>]

Dear developers,
I got this error when running rkward on Ubuntu 12.04.

I was trying to install R Bioconductor, which required upgrading to the 
most recent R version (just adding the apt repo in Ubuntu, installing 
the packages r-base and r-base-dev)
and then installation of several packages through the command line 
(running sudo R ...)

The error reads:
Connection closed unexpectedly. Last error was: QLocalSocket: Remote 
closed
The R backend will be shut down immediately. This means, you can not use 
any more functions that rely on it. I.e. you can do hardly anything at 
all, not even save the workspace (but if you're lucky, R already did 
that). What you can do, however, is save any open command-files, the 
output, or copy data out of open data editors. Quit RKWard after that.

Should I reinstall rkward or something?

Many thanks,
-Warren

[rkward-devel] Mailing list about to migrate

[Thomas F. <tho...@ru...>]

Dear subscriber of rkward-users,

as part of our migration from SF.net to KDE.org, we're also moving our
mailing lists. rkw...@li... will become
rkw...@kd... .

I will move your subscription to the new list, then deactivate the old
list. Note that individual settings such as receiving mails in daily
digests will be lost in the transition, and you will have to re-set
these. Sorry about the inconvenience. You should receive a mail
containing a new mailing list password, and a link to the subscription
configuration page shortly after this mail.

If you do not receive a notice of subscription to the new mailing
list, or if you need any other assistance, just let me know.

Regards
Thomas

Re: [rkward-devel] bug rkward

[Thomas F. <tho...@ru...>]

Hi,

thanks for reporting this issue:

On Sat, 17 Jan 2015 20:09:15 +0000
Alejandro Carriedo Cayón <ale...@ho...> wrote:
> ---Problem description---
> I cannot install any package
> 
> 
> Not even through console and after put a known issue:
> 
> 
> 
> 
> > "setInternet2(TRUE)"
> [1] "setInternet2(TRUE)"
> > install.packages("R2HTML")
> Warning in install.packages("R2HTML") :
>   'lib = "C:/Program Files/R/R-3.1.2/library"' is not writable

Probably the cause of the problem is just that, then: The location you
are trying to install to is not writable (with your current user
permissions). Before anything else, try this in the console:

  .libPaths (c ("D:/mystuff/Rlibs", .libPaths ())
  install.packages("R2HTML")

Where "D:/mystuff/Rlibs" should be an existing and writable folder. If
this works, add the call to .libPaths(...) to Settings->Configure
RKWard->R backend->"Further (option) commands to run in each session".

If problems persist, please let us know.

Thanks!
Thomas

[rkward-devel] Some mails apparently lost

[Thomas F. <tho...@ru...>]

Hi!

This is to let you know that mailing lists on SF.net are apparently
suffering from silent loss of some mails since approximately one week.
I know of at least one post that is missing from rkward-devel, but
there is no way of telling how many messages got lost. Other projects
are affected, too.

If you have recently posted to rkward-devel or rkward-users, please
check the list archives to make sure your mail arrived. If it did not,
consider re-posting. Links to the list archives:

http://sourceforge.net/p/rkward/mailman/rkward-devel/
http://sourceforge.net/p/rkward/mailman/rkward-users/

In somewhat related news, our lists will migrate to kde.org, shortly.
I'll let you know the details, then. In most cases no action will be
needed on our part. Given the timing of these two events I just want
to point out that the upcoming migration is neither a cause, nor a
consequence of the mail loss - although this new issue, and the
disturbing lack of support response from SF.net is certainly another
reason not to regret the move...

Regards
Thomas

[rkward-devel] bug rkward

[Alejandro C. C. <ale...@ho...>]

---Problem description---





I cannot install any package


Not even through console and after put a known issue:




> "setInternet2(TRUE)"
[1] "setInternet2(TRUE)"
> install.packages("R2HTML")
Warning in install.packages("R2HTML") :
  'lib = "C:/Program Files/R/R-3.1.2/library"' is not writable








-What - in detail - did you do directly before you encountered this problem?



I have intalled last versions of R (3.1.2) KDE and Rkward in woindows 8.


 I got just one issue. When I tried to install rkward, it said that could not be possible to open this file " 
libgcc_s_sjlj-1.dll
I omited it and then It was installed.
When I run rkward i got the following message inside Ms-dos window (black window):
warning: QFileinfo: : absolute path: constructed with empty filenamewarning: QFileinfo: : absolute path: constructed with empty filenamewarning: QFileinfo: : absolute path: constructed with empty filenamewarning: QFileinfo: : absolute path: constructed with empty filenamewarning: QFileinfo: : absolute path: constructed with empty filename




But the progam runs









-When you try to repeat the above, does the problem occur again (no, sometimes, always)?



It happen always








-If applicable: When doing the same thing in an R session outside of RKWard, do you see the same problem?



I do not know how to use R





-Do you have any further information that might help us to track this problem down? In particular, if applicable, can you provide sample data and sample R code to reproduce this problem?

###Please fill in###




-RKWard is available in many different packagings, and sometimes problems are specific to one method of installation. How did you install RKWard (which file(s) did you download)?

###Please fill in###







---Session Info---

RKWard version: 0.6.2

KDE version (runtime): 4.10.2

KDE version (compile time): 4.10.2

Qt build key: Windows mingw release full-config

Windows runtime version (refer to QSysInfo documentation to translate code into human readable form): 0xa0

Local KDE directory: C:/Users/Alejandro Carriedo/AppData/Roaming/.kde/

RKWard storage directory: C:/Users/Alejandro Carriedo/.rkward/

Backend version (as known to the frontend): 3.1.2




Debug message file (this may contain relevant diagnostic output in case of trouble):

C:/Users/ALEJAN~1/AppData/Local/Temp/rkward.frontend.gq6028

- backend not available or rk.sessionInfo() canceled -
 		 	   		  

Re: [rkward-devel] Importing external plugins (rk.power)

[meik m. <Mei...@un...>]

Am Sonntag, 11. Januar 2015, 22:31:59 schrieb Thomas Friedrichsmeier:
> - Inheriting the version number from RKWard is a side-effect of
>   rkwarddev writing <about>-info to the .pluginmap, instead of the
>   plugin .xml. In general that is a good idea, too, unless - as in this
>   case - no pluginmap is being generated. Is there a way to control
>   this, already?

as it happens, rk.plugin.component() already does this if "about" is an 
<about> node. rk.plugin.skeleton() just strips this down to the component 
name, so it definitely needs a new switch to change this.


viele grüße :: m.eik

-- 
  dipl. psych. meik michalke
  institut f"ur experimentelle psychologie
  abt. f"ur diagnostik und differentielle psychologie
  heinrich-heine-universit"at d-40204 d"usseldorf

[rkward-devel] Importing external plugins (rk.power)

[Thomas F. <tho...@ru...>]

Hi!

So I have just imported the rk.power plugin from our external_plugins
repo, into the "main" sources. The import did not quite work quite as I
had hope, this time around, but essentially all relevant history was
preserved in the import.

Some issues / questions:
- What do we do about the imported plugin in the external_plugins
  repository? In general all changes should go to our main repo from
  now on, so the plugin should be removed in external_plugins. OTOH, we
  may want to defer deletion until RKWard 0.6.3 is actually released
  with the plugin - or even some time longer. Meik, as the manager of
  our plugin packages: What's best for your workflow:
    - Delete the plugin in external_plugins, right away
    - Keep the plugin in external_plugins for some time, but move it to
      some subdirectory ("imported")
    - Keep the plugin in external_plugins in its current path?
- The development version of RKWard supports plugins from different
  sources overriding each other (the one specified to have the highest
  version, _and_ compatible with the runtime version of RKWard will
  "win"). Of course, this works for plugins having the same id, only.
  Now, as an "official" plugin, the power plugin has the version of
  RKWard (i.e. will have 0.6.3), and id "rkward::power_analysis". Would
  it make sense to adjust the id on the current (external) plugin
  package, so that users that have installed it will not get a
  duplicate menu entry (after they have updated it)?
- Inheriting the version number from RKWard is a side-effect of
  rkwarddev writing <about>-info to the .pluginmap, instead of the
  plugin .xml. In general that is a good idea, too, unless - as in this
  case - no pluginmap is being generated. Is there a way to control
  this, already?
- I placed the plugin in analysis.pluginmap. As written earlier, if we
  have a good idea on just how to split up plugins in a meaningful way,
  that can still be changed. However, having separate pluginmaps for
  each and every plugin (i.e. > 100 pluginmaps) would have quite
  an impact on performance (and would be somewhat questionable,
  usability-wise, too, IMO). So, for now, I keep following the "big"
  pluginmap approach. Meik, with the new plugin management UI, and
  rk.set.plugin.status(), do you still consider this an issue?

Regards
Thomas

[rkward-devel] Mailing list migration plan

[Thomas F. <tho...@ru...>]

Hi all!

Somehow I forgot to drop you a note, but if you have visited the
project web site, recently, you will have noticed, that the main web
pages are now at http://rkward.kde.org - and much faster, esp. as far
as editing is concerned.

Time for the next step in our migration: Mailing lists. We currently
have:

- rkward-devel. 67 subscribers, archive dating back to the very
  beginnings of RKWard. Our primary mailing list.
- rkward-users. 148 subscribers, created in 2007. Less active than we'd
  originally hoped for, but seems to be quite popular for subscriptions.
- rkward-cvs. 11 subscribers, created in 2004. Receives code commit
  messages.
- rkward-tracker. 10 subscribers, created in 2005. This currently
  receives notifications of bug tracker activity, and of daily build
  failures.
- rkward-announce. 9 subscribers, of whom 2 are also subscribed to
  rkward-users (and mails are fowarded to rkward-devel and
  rkward-users), created in 2011. For release announcements, and calls
  for translations.

I'd like to propose the following migration plan. Does this sound
reasonable to you?

- rkward-devel is migrated to kde.org including all subscribers and the
  mailing list archive. rkw...@li... is set up
  to forward to rkw...@kd..., and will be kept around for some
  time.
- rkward-users is migrated in the same way.
- rkward-cvs and rkward-tracker are merged into one list
  "rkward-tracker". This will continue to receive commit-notifications
  and daily build failures. Bug tracker activity will be directed to
  rkward-devel in the future. Since these two lists were never meant
  for manual posting, the old lists can be shut down rather quickly.
- rkward-announce is dropped, as it does not seem worth the effort.
  Calls for translations will be sent to kde...@kd... (where our
  translations are now managed). Calls for testing will be sent to
  rkward-devel and rkward-users as before. For those who are interested
  in strictly release announcements, only, I suppose the best hint will
  be to subscribe to the RSS feed on freshcode
  (http://freshcode.club/projects/rkward). Other ideas?

Lists may have to be set read-only during migration, briefly. We'll try
to make any such transition period as short as possible.

Regards
Thomas

[rkward-devel] Distribution plugins (was Re: feedback)

[Thomas F. <tho...@ru...>]

Hi Aaron, and others,

On Sun, 23 Nov 2014 10:35:24 +0900
Aaron Batty <ab...@sf...> wrote:
> Piggybacking on Meik's feedback comments, I though I'd let you guys
> know what's going on in my undergraduate stats class, where we're
> using RKWard.

well, while touching on various areas of the code, I'm trying to work
on some of your feedback. Right now, I'm working to add i18n() to the
distribution plugins. And - as this will mean touching quite a bit of
that code - I'm wondering how to best address your comments regarding
those.

As a small bit of background information, IIRC, Stefan
originally modeled these dialogs on Rcmdrs example - many years ago.

> 3) Distributions dialogs
> 
> I only started using these this semester, so I hadn't noticed, but
> these are unintuitive enough that I decided to just get the students
> to do them in the R Console.
> 
> In the "r" dialogs (i.e., the ones that call rbinom and rgeom, etc.),
> the values that will be fed into R are filled in by default. Why?
> That seems to communicate, for example, that the "normal" thing to do
> when looking at a binomial probability is to set the number of
> "successes" to 0.95, and only 1 trial, and with a 50% probability,
> when actually, these are likely to all be different. I think these
> should just be blank.

You mean the p and q dialogs (pbinom, qbinom), right? Clearly for some
things, default values do not make too much sense. For "vector of
probabilities/quantiles", quite obviously so. For number of trials,
arguably, too - but that would mean it cannot be represented in a
spinbox (which simply does not have a "blank" value). For probability
of success in each trial, .5 sounds like a sensible enough default to
me, even if you are quite likely to adjust it.

So what are your thoughts on how to deal with this (also for all the
other distributions)?
 
> "Vector of quantiles" really ought to be renamed "Number of
> successes." I'll be honest here: I couldn't figure out what I was
> supposed to do here, so the only way I figured out how to use these
> dialogs was by clicking the "Code" button to see what commands it
> would be calling, and then reading the CRAN documentation on those
> functions. The CRAN documentation was much clearer.
>
> It would be nice if there was another calculator that called the "d"
> functions as well... Not that I've really ever used either of these,
> but they are pretty important for teaching undergraduate stats.

Well, what I have in mind so far is the following:
- Merge probabilities and quantiles plugins into one (which could also
  calculate density), with a <radio>-control on top to select the mode
  of operation (
    calculate:
     O probabilities of given quantiles
     O density at given quantiles
     O quantiles for given probabilities
  )
- For the discrete distributions, add a UI label below this, reading:
  "Note: Quantiles correspond to number of successes in 'size' trials in
  the context of the binomial distribution" (and appropriately for the
  other discrete distributions, or at least the ones I understand).
- Change the input of probabilities / quantiles to use a
  <matrix>-element (i.e. a column of spreadsheet cells)
- This will be empty by default.
- Change the output to be tabular, i.e. a table with columns
  for quantiles and probs (or densities), and rows for each input value.

Does that sound like a useful plan?

Regards
Thomas

Re: [rkward-devel] Quering R from dialogs

[Thomas F. <tho...@ru...>]

Hi!

On Wed, 7 Jan 2015 00:26:47 +0000
"SANCHEZ ALBERCA, ALFREDO" <as...@ce...> wrote:
> Hi and Happy New Year for everybody!

Same to you!

> I've been trying to use the new property for querying R from dialogs
> (http://api.kde.org/doc/rkwardplugins/querying_r_for_info.html). As
> my requirements (for the moment) are only to list the levels of a
> factor, I've tried to embed the rkward::level_select plugin, but it
> doesn't work, exept if you embed it inside a optionset. For example,
> the following dialog works perfectly
[...]
> But if you put the embed outside the optionset, it fails.
> 
> Probably I don't have a full understanding of the mechanism to query
> R. ¿What I'm doing wrong? Thanks!

Perhaps you simply forgot to adjust the id of the embedded plugin in
<connect>, when moving it to outside the optionset? The following works
for me:

<!DOCTYPE rkplugin>
<document>
        <code file="example.js" />
        <logic>
                <connect governor="x.available"
                    client="levels.variable" />
        </logic>
        <dialog label="Example">
                <varselector id="vars" />
                <varslot id="x" source="vars" label="Select variable"
                    num_dimensions="1" required="true" />
                <embed id="levels" component="rkward::level_select" />
                <valueslot required="true" id="values" label=""
                    source="levels.selector" />
        </dialog>
</document>

(Although, admittedly, the <valueslot> seems to be quirky in that it
does not show in red, initially; I'll look into that.)

Regards
Thomas