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Date: Tue, 11 Oct 2022 15:08:47 -0400 User-agent: mu4e 1.8.9; emacs 28.2 Message-ID: <87y1tmxjkj.fsf@gmail.com> MIME-Version: 1.0 Content-Type: multipart/mixed; boundary="=-=-=" Received-SPF: pass client-ip=2607:f8b0:4864:20::831; envelope-from=jsilve24@gmail.com; helo=mail-qt1-x831.google.com X-Spam_score_int: -17 X-Spam_score: -1.8 X-Spam_bar: - X-Spam_report: (-1.8 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, FREEMAIL_ENVFROM_END_DIGIT=0.25, FREEMAIL_FROM=0.001, HTML_MESSAGE=0.001, RCVD_IN_DNSWL_NONE=-0.0001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-BeenThere: emacs-orgmode@gnu.org X-Mailman-Version: 2.1.29 Precedence: list List-Id: "General discussions about Org-mode." 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The problem also occurs when running `org-latex-export-to-pdf= '.=20 The bug can be reproduced using `emacs -Q' with the configuration provided = in `simple-config.el'. Note that the problem can be solved by commenting out the lines: (org-babel-do-load-languages 'org-babel-load-languages '((R . t) (emacs-lisp . t) (latex . t))) yet doing this then makes it not possible to run C-c C-c on the R src block= (without those lines you get an error about not being able to find ESS). Am I just setting up org-babel incorrectly or is this a bug? Best, Justin=20 Backtrace: Debugger entered--Lisp error: (wrong-type-argument number-or-marker-p nil) jit-lock--run-functions(1218 1284) jit-lock-fontify-now(1218 #>) #(1218 #>) polymode-inhibit-during-initialization(# 1218 #>) apply(polymode-inhibit-during-initialization # (12= 18 #>)) font-lock-ensure(1218 #>) org-table-align() org-babel-insert-result(((0.333333333333333) (0.333333333333333) (0.33333= 3333333333)) ("value" "replace") ("R" "w1 <- c(1, 1, 1) \nw2 <- c(1, 1, 5) = \n\nx1 <- w1/sum(..." ((:colname-names) (:rowname-names) (:result-params "v= alue" "replace") (:result-type . value) (:results . "value replace") (:expo= rts . "both") (:cache . "no") (:hlines . "no") (:noweb . "no") (:session . = "*R*") (:tangle . "no")) "" nil 1072 "(ref:%s)") nil "R" (0 0 257283 648000= )) org-babel-execute-src-block(nil ("R" "w1 <- c(1, 1, 1) \nw2 <- c(1, 1, 5)= \n\nx1 <- w1/sum(..." ((:colname-names) (:rowname-names) (:result-params "= replace" "value") (:result-type . value) (:results . "replace value") (:exp= orts . "both") (:tangle . "no") (:session . "*R*") (:noweb . "no") (:hlines= . "no") (:cache . "no")) "" nil 1072 "(ref:%s)")) org-babel-exp-results(("R" "w1 <- c(1, 1, 1) \nw2 <- c(1, 1, 5) \n\nx1 <-= w1/sum(..." ((:cache . "no") (:colname-names) (:exports . "both") (:hlines= . "no") (:noweb . "no") (:result-params "replace" "value") (:result-type .= value) (:results . "replace value") (:rowname-names) (:session . "*R*") (:= tangle . "no")) "" nil 1072 "(ref:%s)") block nil "2da1507400b1866895fab484= 0062db146ee4de1e") org-babel-exp-do-export(("R" "w1 <- c(1, 1, 1) \nw2 <- c(1, 1, 5) \n\nx1 = <- w1/sum(..." ((:cache . "no") (:colname-names) (:exports . "both") (:hlin= es . "no") (:noweb . "no") (:result-params "replace" "value") (:result-type= . value) (:results . "replace value") (:rowname-names) (:session . "*R*") = (:tangle . "no")) "" nil 1072 "(ref:%s)") block "2da1507400b1866895fab48400= 62db146ee4de1e") org-babel-exp-src-block((src-block (:language "R" :switches nil :paramete= rs ":exports both :results value :session \"*R*\"" :begin 1072 :end 1207 :n= umber-lines nil :preserve-indent nil :retain-labels t :use-labels t :label-= fmt nil :value " w1 <- c(1, 1, 1) \n w2 <- c(1, 1, 5) \n\n x1 <- w..." := post-blank 1 :post-affiliated 1072 :mode planning :granularity element :cac= hed nil :parent (section (:begin 1072 :end 1207 :contents-begin 1072 :conte= nts-end 1206 :robust-begin 1072 :robust-end 1204 :post-blank 1 :post-affili= ated 1072 :mode section :granularity element :cached nil :parent (headline = (:raw-value "Spurious Conclusions" :begin 1047 :end 1285 :pre-blank 1 :cont= ents-begin 1072 :contents-end 1284 :robust-begin 1074 :robust-end 1282 :lev= el 2 :priority nil :tags nil :todo-keyword nil :todo-type nil :post-blank 1= :footnote-section-p nil :archivedp nil :commentedp nil :post-affiliated 10= 47 :title (...) :parent (org-data ...) :cached t :org-element--cache-sync-k= ey (0 . 1047))) :org-element--cache-sync-key (0 . 1071))) :org-element--cac= he-sync-key (0 . 1072)))) org-babel-exp-process-buffer() org-export-as(beamer nil nil nil (:output-file "L4-6_CoDA.tex")) org-export-to-file(beamer "L4-6_CoDA.tex" nil nil nil nil nil org-latex-c= ompile) org-beamer-export-to-pdf() funcall-interactively(org-beamer-export-to-pdf) command-execute(org-beamer-export-to-pdf) --==-=-= Content-Type: text/html; charset=utf-8 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable

I am having a problem and getting a wrong-type-argument error when trying t= o run org-beamer-export-to-pdf on the attached file debug.org (se= e backtrace below). The problem also occurs when running org-latex-export-to-= pdf.

The bug can be reproduced using emacs -Q with the configuration provid= ed in simple-config.el.

Note that the problem can be solved by commenting out the lines:
(org-babel-do-load-languages
'org-babel-load-languages
'((R . t)
(emacs-lisp . t)
(latex . t)))

yet doing this then makes it not possible to run C-c C-c on the R src block= (without those lines you get an error about not being able to find ESS).

Am I just setting up org-babel incorrectly or is this a bug?

Best,
Justin

Backtrace:

Debugger entered=E2=80=93Lisp error: (wrong-type-argument number-or-marker-= p nil)
jit-lock=E2=80=93run-functions(1218 1284)
jit-lock-fontify-now(1218 #<marker at 1284 in L4-6_CoDA.org<2>&g= t;)
#<subr font-lock-ensure>(1218 #<marker at 1284 in L4-6_CoDA.org&= lt;2>>)
polymode-inhibit-during-initialization(#<subr font-lock-ensure> 121= 8 #<marker at 1284 in L4-6_CoDA.org<2>>)
apply(polymode-inhibit-during-initialization #<subr font-lock-ensure&g= t; (1218 #<marker at 1284 in L4-6_CoDA.org<2>>))
font-lock-ensure(1218 #<marker at 1284 in L4-6_CoDA.org<2>>)<= br/> org-table-align()
org-babel-insert-result(((0.333333333333333) (0.333333333333333) (0.33333= 3333333333)) ("value" "replace") ("R" "w= 1 <- c(1, 1, 1) 2 <- c(1, 1, 5) 1 <- w1/sum(=E2=80=A6" ((:col= name-names) (:rowname-names) (:result-params "value" "replac= e") (:result-type . value) (:results . "value replace") (:ex= ports . "both") (:cache . "no") (:hlines . "no&quo= t;) (:noweb . "no") (:session . "R") (:tangle . = "no")) "" nil 1072 "(ref:%s)") nil "R&qu= ot; (0 0 257283 648000))
org-babel-execute-src-block(nil ("R" "w1 <- c(1, 1, 1) = 2 <- c(1, 1, 5) 1 <- w1/sum(=E2=80=A6" ((:colname-names) (:rowna= me-names) (:result-params "replace" "value") (:result-t= ype . value) (:results . "replace value") (:exports . "both&= quot;) (:tangle . "no") (:session . "R") (:noweb= . "no") (:hlines . "no") (:cache . "no")) &q= uot;" nil 1072 "(ref:%s)"))
org-babel-exp-results(("R" "w1 <- c(1, 1, 1) 2 <- c(= 1, 1, 5) 1 <- w1/sum(=E2=80=A6" ((:cache . "no") (:colnam= e-names) (:exports . "both") (:hlines . "no") (:noweb .= "no") (:result-params "replace" "value") (:r= esult-type . value) (:results . "replace value") (:rowname-names)= (:session . "R") (:tangle . "no")) ""= nil 1072 "(ref:%s)") block nil "2da1507400b1866895fab484006= 2db146ee4de1e")
org-babel-exp-do-export(("R" "w1 <- c(1, 1, 1) 2 <- = c(1, 1, 5) 1 <- w1/sum(=E2=80=A6" ((:cache . "no") (:coln= ame-names) (:exports . "both") (:hlines . "no") (:noweb= . "no") (:result-params "replace" "value") (= :result-type . value) (:results . "replace value") (:rowname-name= s) (:session . "R") (:tangle . "no")) "&quo= t; nil 1072 "(ref:%s)") block "2da1507400b1866895fab4840062d= b146ee4de1e")
org-babel-exp-src-block((src-block (:language "R" :switches nil= :parameters ":exports both :results value :session \"R\&q= uot;" :begin 1072 :end 1207 :number-lines nil :preserve-indent nil :re= tain-labels t :use-labels t :label-fmt nil :value " w1 <- c(1, 1, = 1) w2 <- c(1, 1, 5) x1 <- w=E2=80=A6" :post-blank 1 :post-affili= ated 1072 :mode planning :granularity element :cached nil :parent (section = (:begin 1072 :end 1207 :contents-begin 1072 :contents-end 1206 :robust-begi= n 1072 :robust-end 1204 :post-blank 1 :post-affiliated 1072 :mode section := granularity element :cached nil :parent (headline (:raw-value "Spuriou= s Conclusions" :begin 1047 :end 1285 :pre-blank 1 :contents-begin 1072= :contents-end 1284 :robust-begin 1074 :robust-end 1282 :level 2 :priority = nil :tags nil :todo-keyword nil :todo-type nil :post-blank 1 :footnote-sect= ion-p nil :archivedp nil :commentedp nil :post-affiliated 1047 :title (=E2= =80=A6) :parent (org-data =E2=80=A6) :cached t :org-element=E2=80=93cache-s= ync-key (0 . 1047))) :org-element=E2=80=93cache-sync-key (0 . 1071))) :org-= element=E2=80=93cache-sync-key (0 . 1072))))
org-babel-exp-process-buffer()
org-export-as(beamer nil nil nil (:output-file "L4-6_CoDA.tex")= )
org-export-to-file(beamer "L4-6_CoDA.tex" nil nil nil nil nil o= rg-latex-compile)
org-beamer-export-to-pdf()
funcall-interactively(org-beamer-export-to-pdf)
command-execute(org-beamer-export-to-pdf)

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