With emacs -Q, and this org file: #+BEGIN_SRC emacs-lisp (org-babel-do-load-languages 'org-babel-load-languages '((emacs-lisp . t) (python . t))) #+END_SRC #+RESULTS: #+BEGIN_SRC python :session with_matplotlib :results file :exports both import matplotlib matplotlib.use('Agg') import matplotlib.pyplot as plt fig=plt.figure(figsize=(3,2)) plt.plot([1,3,2]) plt.savefig('myfig.png') 'myfig.png' #+END_SRC #+RESULTS: [[file:myfig.png]] I get what you expect to happen. In my customized emacs, I get something else that is more like you see. John ----------------------------------- Professor John Kitchin Doherty Hall A207F Department of Chemical Engineering Carnegie Mellon University Pittsburgh, PA 15213 412-268-7803 @johnkitchin http://kitchingroup.cheme.cmu.edu On Mon, May 25, 2015 at 2:22 PM, Dror Atariah wrote: > On Mon, May 25, 2015 at 7:29 PM, Ken Mankoff wrote: > >> >> On 2015-05-25 at 13:25, Dror Atariah wrote: >> > I am sorry for reposting, but I'm still in the dark. Am I the only one >> who >> > experience this kind of issue? >> >> Don't know. >> >> > Did someone managed to reproduce the problem? >> >> I could not reproduce it. >> >> > Does anyone see this message? :) >> >> Yes. >> > > Thanks for your reply!!!! :) > > >> >> I'm on Mac too, which is where your problem is. Are you starting with >> "emacs -Q"? I haven't seen you post a full MWE with both =init.el= and = >> test.org=. You did provide a test Org file but it wasn't clear to me if >> that was being used with emacs -Q. >> >> I tried to evaluate the problematic file using =emacs -Q= and the problem > is the same. > > Following is the section of my =init.el= that deals with org-mode (if you > need more, let me know): > > > ------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------ > ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; > ;; Org Mode related > ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;; > > (setq org-directory "~/Dropbox/org") > > ;; Set a location for the list of agena files > (setq org-agenda-files "~/.emacs.d/agenda_files") > > ;; Assigns org-mode to .org files > (add-to-list 'auto-mode-alist '("\\.org$" . org-mode)) > (define-key global-map "\C-cl" 'org-store-link) > (define-key global-map "\C-ca" 'org-agenda) > (setq org-log-done t) > (when window-system (require 'org-mouse)) > > ;; Auto enable flyspell-mode > (add-hook 'org-mode-hook 'turn-on-flyspell) > > ;; Auto fill minor mode in org files > (add-hook 'org-mode-hook 'turn-on-auto-fill) > > ;; Enable org-indent-mode for org buffers > (add-hook 'org-mode-hook > (lambda ()(org-indent-mode t)) t) > > ;; Use text-mode abbrev table in org-mode > (add-hook 'org-mode-hook '(lambda () (setq local-abbrev-table > text-mode-abbrev-table))) > > ;; Enables selection using SHIFT, while maintaining useful actions > ;; related to SHITF in org > (setq org-support-shift-select 't) > > ;; Enable smart qoutes (http://stackoverflow.com/q/15097114/671013) > (setq org-export-with-smart-quotes t) > > ;; Customize the TODO-like keywords > (setq org-use-fast-todo-selection t) > (setq org-todo-keywords > '((sequence "TODO(t)" "PROCESS(p@/!)" "|" "DONE(d!)" "CANCELED(c@ > /!)"))) > (setq org-todo-keyword-faces > (quote (("TODO" :foreground "red" :weight bold) > ("PROCESS" :foreground "blue" :weight bold) > ("DONE" :foreground "forest green" :weight bold) > ("CANCELLED" :foreground "forest green" :weight bold)))) > (setq org-log-into-drawer t) > > ;; Capture-org > (setq org-default-notes-file (concat org-directory "/notes.org")) > (define-key global-map "\C-cc" 'org-capture) > > (setq org-capture-templates > (quote (("t" "todo" entry (file (concat org-directory "/gtd.org")) > "* TODO %?\n%U\n%a\n" :clock-in t :clock-resume t) > ("n" "note" entry (file (concat org-directory "/gtd.org")) > "* %? :NOTE:\n%U\n%a\n" :clock-in t :clock-resume t) > ("j" "Journal" entry (file+datetree (concat org-directory "/ > diary.org")) > "* %?\n%U\n" :clock-in t :clock-resume t) > ("v" "Vocabulary" entry > (file+headline (concat org-directory "/vocab.org") > "Vocabulary") > "* %^{The word} :drill:\n:PROPERTIES:\n:Part-of-speech: > %^{Part of speech|verb|noun|adj|adv}\n:END:\n %t\n %^{Extended word (may be > empty)} \n** Answer \n%^{The definition}") > ))) > > ;; Make use of refTeX in org-mode > (defun org-mode-reftex-setup () > "Setups RefTeX to be used with a org file. Code is based on > http://www.mfasold.net/blog/2009/02/using-emacs-org-mode-to-draft-papers/. > > Once you run this, you will be asked to set a master file of the org." > (interactive) > (load-library "reftex") > (and (buffer-file-name) > (file-exists-p (buffer-file-name)) > (reftex-parse-all)) > (define-key org-mode-map (kbd "C-c )") 'reftex-citation) > ) > > ;; Open indirect buffer in new frame > (setq org-indirect-buffer-display 'new-frame) > > ;; Set common TAGS > ;; Check: > http://sachachua.com/blog/2008/01/tagging-in-org-plus-bonus-code-for-timeclocks-and-tags/ > (setq org-tag-alist '( > ("PRIVATE" . ?p) > (:startgroup . nil) > ("WORK" .?w) > (:grouptags . nil) > ("WORK@mittagseminar" . ?m) > ("WORK@open_questions" . ?i) > ("WORK@diss" . ?d) > ("WORK@CV" . nil) > (:endgroup . nil) > (:startgroup . nil) > ("IT" . ?I) > (:grouptags . nil) > ("IT@emacs" . nil) > ("IT@git" . nil) > ("IT@TeX" . nil) > (:endgroup . nil) > (:startgroup . nil) > ("PROG" . ?p) > (:grouptags . nil) > ("PROG@mathematica" . nil) > ("PROG@cgal" . nil) > (:endgroup . nil) > (:endgroup . nil) > ("4freeTime" . ?4) > )) > > ;; Targets include this file and any file contributing to the agenda - up > to 9 levels deep > (setq org-refile-targets (quote ((nil :maxlevel . 9) > (org-agenda-files :maxlevel . 9)))) > > ;; Add time stamp of refiling > (setq org-log-refile 'time) > > ;; Use full outline paths for refile targets - we file directly with IDO > (setq org-refile-use-outline-path t) > > ;; Targets complete directly with IDO > (setq org-outline-path-complete-in-steps nil) > > ;; Allow refile to create parent tasks with confirmation > (setq org-refile-allow-creating-parent-nodes (quote confirm)) > > ;; Use IDO for both buffer and file completion and ido-everywhere to t > (setq org-completion-use-ido t) > (setq ido-everywhere t) > (setq ido-max-directory-size 100000) > (ido-mode (quote both)) > > ;; set latexmk the default LaTeX compiler for org-mode and in general > (setq org-latex-to-pdf-process (list "latexmk -f -pdf %f")) > > ;; Enable clocking across sessions > (setq org-clock-persist 'history) > (org-clock-persistence-insinuate) > > ;; Set the number of clock items before wrapping them in a LOGBOOK drawer > (setq org-clock-into-drawer '2) > > ;; Set the number of clock items before wrapping them in a LOGBOOK drawer > (setq org-clock-into-drawer '2) > > ;; MobileOrg > (load "mobileorg-setup") > > ;; Org drill > (require 'org-drill) > (setq org-drill-save-buffers-after-drill-sessions-p nil) > (setq org-drill-scope 'file-no-restriction) > > ;; org2blog > (require 'metaweblog) > (require 'org2blog-autoloads) > > ;; Babel > (setq org-src-preserve-indentation t) ;; > http://stackoverflow.com/a/20903001/671013 > > (setq org-src-fontify-natively t) > > (setq org-confirm-babel-evaluate nil) > > (org-babel-do-load-languages > 'org-babel-load-languages > '((elasticsearch . t) > (emacs-lisp . t) > (python . t) > (R . t))) > > ------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------8<------ > > Best, > Dror >