Rainer M Krug <rai...@krugs.de> writes:
> OK - narrowed it down to a post tangle hook which I need for proper
> debugging of R (jumping to source line in org file and not tangled R file):
>
> ,----
> | #+begin_src emacs-lisp
> | (defvar org-babel-tangled-file nil
> | "If non-nill, current file was tangled with org-babel-tangle")
> | (put 'org-babel-tangled-file 'safe-local-variable 'booleanp)
> |
> | (defun org-babel-mark-file-as-tangled ()
> | (when (string-match "[.]R" (buffer-file-name))
> | (add-file-local-variable 'org-babel-tangled-file t)
> | (add-file-local-variable 'buffer-read-only t)
> | (add-file-local-variable 'eval: '(auto-revert-mode))
> | (basic-save-buffer)))
> |
> | (add-hook 'org-babel-post-tangle-hook 'org-babel-mark-file-as-tangled)
> | #+end_src
> `----
>
> The question is now why is this function org-babel-mark-file-as-tangled
> receives NULL as a buffer-file-name?
I'm not sure, but perhaps you could wrap the body of buffer-file-name in
a (when (buffer-file-name) ...) form to protect against null files.
Hope this helps,
>
> I can't remove the "when" as I am also tangling some files which do
> not have any comment characters (DESCRIPTION file in R packages).
>
> Any suggestions welcome,
>
> Rainer
>
>
> Rainer M Krug <rai...@krugs.de> writes:
>
>> Forgot: tried with 8.2 stable release and with version from git - both
>> the same.
>>
>> Rainer M Krug <rai...@krugs.de> writes:
>>
>>> Hi
>>>
>>> I have a strange error when tangling.
>>>
>>> I have a large org file with several code blocks tangling in about
>>> 20 R files and one bash file. Usually tangling works perfectly, but
>>> sometimes one code block does not tangle a code block to a file. These
>>> are different blocks. When I change the name of the fiole to be tangled
>>> to, it works again. After d=some time, I can rename it again and it
>>> works again.
>>>
>>> The last time it happened, I was debugging the function. But even when
>>> deleting all the content of the code block, the problem persists.
>>>
>>> This persists over restarts of org.
>>>
>>> The code block looks as follow:
>>>
>>> ,----
>>> | *** dispProb2D (./R/dispProd2D.R)
>>> | :PROPERTIES:
>>> | :tangle: ./R/dispProd2D.R
>>> | :comments: yes
>>> | :no-expand: TRUE
>>> | :END:
>>> | #+begin_src R
>>> | cat(5)
>>> | #+end_src
>>> `----
>>>
>>> In the original version, there is obviously code in it, but the error
>>> occurs even in the empty block. I just renamed the block, and it is
>>> working again.
>>>
>>> Any idea what is causing this?
>>>
>>> Please find the backtrace below.
>>>
>>> Cheers,
>>>
>>> Rainer
>>>
>>> ,----
>>> | ebugger entered--Lisp error: (wrong-type-argument stringp nil)
>>> | set-buffer(nil)
>>> | (save-current-buffer (set-buffer (get-file-buffer file)) (revert-buffer
>>> t t t))
>>> | org-babel-find-file-noselect-refresh("./R/dispProd2D.R")
>>> | (let* ((temp-path file) (visited-p (get-file-buffer temp-path))
>>> | temp-result temp-file) (org-babel-find-file-noselect-refresh
>>> | temp-path) (setq temp-file (get-file-buffer temp-path))
>>> | (save-current-buffer (set-buffer temp-file) (setq temp-result (progn
>>> | (run-hooks (quote org-babel-post-tangle-hook))))) (if visited-p nil
>>> | (kill-buffer temp-file)) temp-result)
>>> | (lambda (file) (let* ((temp-path file) (visited-p (get-file-buffer
>>> | temp-path)) temp-result temp-file)
>>> | (org-babel-find-file-noselect-refresh temp-path) (setq temp-file
>>> | (get-file-buffer temp-path)) (save-current-buffer (set-buffer
>>> | temp-file) (setq temp-result (progn (run-hooks (quote
>>> | org-babel-post-tangle-hook))))) (if visited-p nil (kill-buffer
>>> | temp-file)) temp-result))("./R/dispProd2D.R")
>>> | mapc((lambda (file) (let* ((temp-path file) (visited-p
>>> | (get-file-buffer temp-path)) temp-result temp-file)
>>> | (org-babel-find-file-noselect-refresh temp-path) (setq temp-file
>>> | (get-file-buffer temp-path)) (save-current-buffer (set-buffer
>>> | temp-file) (setq temp-result (progn (run-hooks (quote
>>> | org-babel-post-tangle-hook))))) (if visited-p nil (kill-buffer
>>> | temp-file)) temp-result)) ("postTangleScript.sh" "./.gitignore"
>>> | "./DESCRIPTION" "./.Rbuildignore" "./R/parmsFire.R"
>>> | "./R/parmsPinus.R" "./R/parmsAcacia.R" "./R/parmsRubus.R"
>>> | "./R/parmsBudget.R" "./R/parameter.R" "./R/endYear.R"
>>> | "./R/germEst.R" "./R/seedDispersal.R" "./R/seedProduction.R"
>>> | "./R/fireAliens.R" "./R/clearAliens.R" "./R/prioritisation.R"
>>> | "./R/beginYear.R" "./R/main.R" "./R/cumulativeDc.R"
>>> | "./R/dcToIndLayer.R" "./R/competition.R" "./R/dispProd2D.R"
>>> | "./R/initfun.R" "./R/newInDrak.R" "./R/resetOptions.R" "./R/stats.R"
>>> | "./R/layerIO.R" "./R/layerNames.R" "./R/onLoad.R" "./NAMESPACE"
>>> | "./R/package.R"))
>>> | (progn (mapc (function (lambda (file) (let* ((temp-path file)
>>> | (visited-p (get-file-buffer temp-path)) temp-result temp-file)
>>> | (org-babel-find-file-noselect-refresh temp-path) (setq temp-file
>>> | (get-file-buffer temp-path)) (save-current-buffer (set-buffer
>>> | temp-file) (setq temp-result (progn ...))) (if visited-p nil
>>> | (kill-buffer temp-file)) temp-result))) (mapcar (function car)
>>> | path-collector)))
>>> | (if org-babel-post-tangle-hook (progn (mapc (function (lambda
>>> | (file) (let* ((temp-path file) (visited-p ...) temp-result
>>> | temp-file) (org-babel-find-file-noselect-refresh temp-path) (setq
>>> | temp-file (get-file-buffer temp-path)) (save-current-buffer
>>> | (set-buffer temp-file) (setq temp-result ...)) (if visited-p nil
>>> | (kill-buffer temp-file)) temp-result))) (mapcar (function car)
>>> | path-collector))))
>>> | (let ((block-counter 0) (org-babel-default-header-args (if
>>> | target-file (org-babel-merge-params org-babel-default-header-args
>>> | (list (cons :tangle target-file))) org-babel-default-header-args))
>>> | (tangle-file (if (equal arg (quote (16))) (progn (or (cdr (assoc
>>> | :tangle ...)) (user-error "Point is not in a source code block")))))
>>> | path-collector) (mapc (function (lambda (by-lang) (let* ((lang (car
>>> | by-lang)) (specs (cdr by-lang)) (ext (or ... lang)) (lang-f (intern
>>> | ...)) she-banged) (mapc (function (lambda ... ...)) specs)))) (if
>>> | (equal arg (quote (4))) (org-babel-tangle-single-block 1 t)
>>> | (org-babel-tangle-collect-blocks lang tangle-file))) (message
>>> | "Tangled %d code block%s from %s" block-counter (if (= block-counter
>>> | 1) "" "s") (file-name-nondirectory (buffer-file-name (or
>>> | (buffer-base-buffer) (current-buffer))))) (if
>>> | org-babel-post-tangle-hook (progn (mapc (function (lambda (file)
>>> | (let* (... ... temp-result temp-file)
>>> | (org-babel-find-file-noselect-refresh temp-path) (setq temp-file
>>> | ...) (save-current-buffer ... ...) (if visited-p nil ...)
>>> | temp-result))) (mapcar (function car) path-collector)))) (mapc
>>> | (function (lambda (pair) (if (cdr pair) (progn (set-file-modes (car
>>> | pair) (cdr pair)))))) path-collector) (mapcar (function car)
>>> | path-collector))
>>> | (save-excursion (let ((block-counter 0)
>>> | (org-babel-default-header-args (if target-file
>>> | (org-babel-merge-params org-babel-default-header-args (list (cons
>>> | :tangle target-file))) org-babel-default-header-args)) (tangle-file
>>> | (if (equal arg (quote (16))) (progn (or (cdr ...) (user-error "Point
>>> | is not in a source code block"))))) path-collector) (mapc (function
>>> | (lambda (by-lang) (let* ((lang ...) (specs ...) (ext ...) (lang-f
>>> | ...) she-banged) (mapc (function ...) specs)))) (if (equal arg
>>> | (quote (4))) (org-babel-tangle-single-block 1 t)
>>> | (org-babel-tangle-collect-blocks lang tangle-file))) (message
>>> | "Tangled %d code block%s from %s" block-counter (if (= block-counter
>>> | 1) "" "s") (file-name-nondirectory (buffer-file-name (or
>>> | (buffer-base-buffer) (current-buffer))))) (if
>>> | org-babel-post-tangle-hook (progn (mapc (function (lambda (file)
>>> | (let* ... ... ... ... ... temp-result))) (mapcar (function car)
>>> | path-collector)))) (mapc (function (lambda (pair) (if (cdr pair)
>>> | (progn (set-file-modes ... ...))))) path-collector) (mapcar
>>> | (function car) path-collector)))
>>> | (save-restriction (if (equal arg (quote (4))) (progn (let ((head
>>> | (org-babel-where-is-src-block-head))) (if head (goto-char head)
>>> | (user-error "Point is not in a source code block")))))
>>> | (save-excursion (let ((block-counter 0)
>>> | (org-babel-default-header-args (if target-file
>>> | (org-babel-merge-params org-babel-default-header-args (list ...))
>>> | org-babel-default-header-args)) (tangle-file (if (equal arg (quote
>>> | ...)) (progn (or ... ...)))) path-collector) (mapc (function (lambda
>>> | (by-lang) (let* (... ... ... ... she-banged) (mapc ... specs)))) (if
>>> | (equal arg (quote (4))) (org-babel-tangle-single-block 1 t)
>>> | (org-babel-tangle-collect-blocks lang tangle-file))) (message
>>> | "Tangled %d code block%s from %s" block-counter (if (= block-counter
>>> | 1) "" "s") (file-name-nondirectory (buffer-file-name (or
>>> | (buffer-base-buffer) (current-buffer))))) (if
>>> | org-babel-post-tangle-hook (progn (mapc (function (lambda ... ...))
>>> | (mapcar (function car) path-collector)))) (mapc (function (lambda
>>> | (pair) (if (cdr pair) (progn ...)))) path-collector) (mapcar
>>> | (function car) path-collector))))
>>> | org-babel-tangle(nil)
>>> | call-interactively(org-babel-tangle nil nil)
>>> `----
>> <#secure method=pgpmime mode=sign>
>>
> <#secure method=pgpmime mode=sign>
>
>
--
Eric Schulte
https://cs.unm.edu/~eschulte
PGP: 0x614CA05D
