Re: [ESS] Possible problem with Org 9.6?
> William Denton via ESS-help writes: > On 2 December 2022, Colin Baxter wrote: >> I have now used your set-up, exactly I think, using "emacs-28.2 >> -q" and the latest ESS and I still cannot reproduce your >> error. For me, the src source block gives the expected >> result. I'm stuck! > Strange! But it's been fixed in Org, so whatever caused it can > remain a mystery. Excellent. I'm pleased R + org are now working to your satisfaction. __ ESS-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/ess-help
Re: [ESS] Possible problem with Org 9.6?
On 2 December 2022, Colin Baxter wrote: I have now used your set-up, exactly I think, using "emacs-28.2 -q" and the latest ESS and I still cannot reproduce your error. For me, the src source block gives the expected result. I'm stuck! Strange! But it's been fixed in Org, so whatever caused it can remain a mystery. R and Org are back to working nicely (except for a problem with images not being refreshed, but that's to do with images generally, not just R). commit 4564627415b1e609ac6e92b33d51c8e427c1 (origin/bugfix) Author: Ihor Radchenko Date: Fri Dec 2 13:57:14 2022 +0800 org-babel-comit-with-output: Fix when prompt is emitted partially * lisp/ob-comint.el (org-babel-comint-with-output): Do not rely on output filter when detecting prompt lines. Search for `comint-prompt-regexp' in the full output after applying the filter. This is needed when the filter is supplied with partial prompts. Cheers, Bill -- William Denton https://www.miskatonic.org/ Librarian, artist and licensed private investigator. Toronto, Canada __ ESS-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/ess-help
Re: [ESS] Possible problem with Org 9.6?
Dear William, > William Denton via ESS-help writes: > On 1 December 2022, Colin Baxter via ESS-help wrote: >> My last post was mangled. The "Nor me" referred to a satisfactory >> output of the R code - not to "haven't a clue"! >> >> Are you using the latest ESS from git? And have you set the >> "ess-startup-directory" to default-directory? > I retried with this and still have the problem. Here's how I did > it, with current Org (d500b406fc) and ESS (01e7f5b482) source > trees. > In the Org source, run "make repro". > In the *scratch* buffer, C-x C-e each of these lines (adjust path > for ESS source as needed): > (add-to-list 'load-path "/usr/local/src/ESS/lisp") (require > 'ess-r-mode) (require 'ob-R) > Load an Org file with this simple block: > #+begin_src R :results output :session *R* x <- 2:4 print(x) > #+end_src > C-c C-c on the begin line, say yes to executing the code, use the > default for the working directory. > Results: #+RESULTS line appears, but no output. > Change "output" to "value" and it works. Remove the :session > argument and it works. > Kill Emacs, execute the Lisp as above, but this time add: > (setq ess-startup-directory 'default-directory) > Perform the other steps, and #+RESULTS is still empty. > I hope this may help narrow it down. There's some discussion on > the Org list about this too: > https://lists.gnu.org/archive/html/emacs-orgmode/2022-12/msg1.html I have now used your set-up, exactly I think, using "emacs-28.2 -q" and the latest ESS and I still cannot reproduce your error. For me, the src source block gives the expected result. I'm stuck! Best wishes, Colin Baxter. __ ESS-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/ess-help
Re: [ESS] Possible problem with Org 9.6?
Ok, it's not ob-R. If I load ob-R I still get #+begin_src R :results output :session *R* :exports both x <- 2:4 print(x) #+end_src #+Results[5cafbcfc3677a0d07c696e39397c23e61ba0c021]: : [1] 2 3 4 __ ESS-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/ess-help
Re: [ESS] Possible problem with Org 9.6?
Hello William, > William Denton via ESS-help writes: > On 1 December 2022, Colin Baxter via ESS-help wrote: >> My last post was mangled. The "Nor me" referred to a satisfactory >> output of the R code - not to "haven't a clue"! >> >> Are you using the latest ESS from git? And have you set the >> "ess-startup-directory" to default-directory? > I retried with this and still have the problem. Here's how I did > it, with current Org (d500b406fc) and ESS (01e7f5b482) source > trees. > In the Org source, run "make repro". > In the *scratch* buffer, C-x C-e each of these lines (adjust path > for ESS source as needed): > (add-to-list 'load-path "/usr/local/src/ESS/lisp") (require > 'ess-r-mode) (require 'ob-R) > Load an Org file with this simple block: > #+begin_src R :results output :session *R* x <- 2:4 print(x) > #+end_src > C-c C-c on the begin line, say yes to executing the code, use the > default for the working directory. > Results: #+RESULTS line appears, but no output. > Change "output" to "value" and it works. Remove the :session > argument and it works. > Kill Emacs, execute the Lisp as above, but this time add: > (setq ess-startup-directory 'default-directory) > Perform the other steps, and #+RESULTS is still empty. > I hope this may help narrow it down. There's some discussion on > the Org list about this too: > https://lists.gnu.org/archive/html/emacs-orgmode/2022-12/msg1.html I'll use your exactly setup later in the day and see if I can reproduce the problem. In the meanwhile, however, I notice you use ob-R. I do not. I have never used it. In my ~/.emacs, I just have #+begin_src emacs-lisp (org-babel-do-load-languages 'org-babel-load-languages '( (R . t) ;; Other settings )) #+end_src This has always worked. So perhaps the issue lies with ob-R, and this is what I'm missing. Best wishes, Colin Baxter. __ ESS-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/ess-help
Re: [ESS] Possible problem with Org 9.6?
On 1 December 2022, Colin Baxter via ESS-help wrote: My last post was mangled. The "Nor me" referred to a satisfactory output of the R code - not to "haven't a clue"! Are you using the latest ESS from git? And have you set the "ess-startup-directory" to default-directory? I retried with this and still have the problem. Here's how I did it, with current Org (d500b406fc) and ESS (01e7f5b482) source trees. In the Org source, run "make repro". In the *scratch* buffer, C-x C-e each of these lines (adjust path for ESS source as needed): (add-to-list 'load-path "/usr/local/src/ESS/lisp") (require 'ess-r-mode) (require 'ob-R) Load an Org file with this simple block: #+begin_src R :results output :session *R* x <- 2:4 print(x) #+end_src C-c C-c on the begin line, say yes to executing the code, use the default for the working directory. Results: #+RESULTS line appears, but no output. Change "output" to "value" and it works. Remove the :session argument and it works. Kill Emacs, execute the Lisp as above, but this time add: (setq ess-startup-directory 'default-directory) Perform the other steps, and #+RESULTS is still empty. I hope this may help narrow it down. There's some discussion on the Org list about this too: https://lists.gnu.org/archive/html/emacs-orgmode/2022-12/msg1.html Thanks, Bill -- William Denton https://www.miskatonic.org/ Librarian, artist and licensed private investigator. Toronto, Canada __ ESS-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/ess-help
Re: [ESS] Possible problem with Org 9.6?
> Colin Baxter via ESS-help writes: > William Denton via ESS-help writes: >> On 30 November 2022, Frederic Santos via ESS-help wrote: >>> 1) Can anyone reproduce the bug using the same Org and ESS >>> versions? >> Confirmed: no output from the R code block. >>> 2) If so, any clue? :) >> Not from me, I'm afraid. > Nor me. I get > #+begin_src R :results output :session *R* :exports both x <- 2:4 > print(x) #+end_src > #+Results[5cafbcfc3677a0d07c696e39397c23e61ba0c021]: : [1] 2 3 4 > using Org mode version 9.6 (release_9.6-6-gd500b4) and > emacs-30.0.50. My last post was mangled. The "Nor me" referred to a satisfactory output of the R code - not to "haven't a clue"! Are you using the latest ESS from git? And have you set the "ess-startup-directory" to default-directory? Best wishes, __ ESS-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/ess-help
Re: [ESS] Possible problem with Org 9.6?
> William Denton via ESS-help writes: > On 30 November 2022, Frederic Santos via ESS-help wrote: >> 1) Can anyone reproduce the bug using the same Org and ESS >> versions? > Confirmed: no output from the R code block. >> 2) If so, any clue? :) > Not from me, I'm afraid. Nor me. I get #+begin_src R :results output :session *R* :exports both x <- 2:4 print(x) #+end_src #+Results[5cafbcfc3677a0d07c696e39397c23e61ba0c021]: : [1] 2 3 4 using Org mode version 9.6 (release_9.6-6-gd500b4) and emacs-30.0.50. Best wishes, __ ESS-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/ess-help
Re: [ESS] Possible problem with Org 9.6?
On 30 November 2022, Frederic Santos via ESS-help wrote: 1) Can anyone reproduce the bug using the same Org and ESS versions? Confirmed: no output from the R code block. 2) If so, any clue? :) Not from me, I'm afraid. Bill -- William Denton https://www.miskatonic.org/ Librarian, artist and licensed private investigator. Toronto, Canada __ ESS-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/ess-help
