Ignore Cleanup & More ORG

.gitignore

@@ -14,3 +14,8 @@ tramp
 /result
 /transient/
 /BROWSE
+org-roam.db
+bookmarks
+.org-id-locations
+.lsp-session-v1
+.dap-breakpoints

hoc-mode.el

@@ -1,24 +0,0 @@
-;;; hoc-mode.el -- mode for editing NEURON hox files
-
-;; (setq hoc-mode-keywords "proc\\|objref\\|create\\|public\\|begintemplate\\|endtemplate\\|access\\|if\\|for")
-
-(setq hoc-mode-highlights
-      '(
-	( "proc\\|objref\\|create\\|public\\|begintemplate\\|endtemplate\\|access\\|if\\|for" . font-lock-keyword-face)
-	( "[a-z0-9A-Z_]+?[ \n\t]*\\((\\)" . font-lock-function-name-face)
-	( "//.+" . font-lock-comment-face)
-	( "/\*"  . font-lock-comment-start-skip)
-	( "\*/"  . font-lock-comment-end-skip)
-	)
-      )
-
-(define-derived-mode hoc-mode
-  prog-mode "hoc"
-  "Major mode for NEURON Hoc."
-  (setq comment-start "//")
-  (setq font-lock-defaults '(hoc-mode-highlights))
-  )
-
-(provide 'hoc-mode)
-
-;;; hoc-mode.el ends here

main.org

@@ -42,6 +42,9 @@ replacement for defining configs and relations between packages etc.
   :bind (("M-=" . transient-dwim-dispatch)))
 #+end_src
 
+#+RESULTS:
+: transient-dwim
+
 ** MacOS Specific
 
 #+begin_src elisp :tangle yes :exports code
@@ -396,13 +399,11 @@ dependent)
 We use org-ref because it provides some niceties, like doi-utils for
 updating our bibliography.
 
-#+begin_src elisp :tangle no :exports code
-(leaf org-ref :ensure t helm-bibtex
+#+begin_src elisp :tangle yes :exports code
+(leaf org-ref :ensure t helm-bibtex pdf-tools
   :after org
-  :init
-  (leaf pdf-tools :ensure t)
-  :bind
-  (("C-c ]" . org-ref-insert-link))
+  :bind*
+  ("C-c ]" . org-ref-insert-link)
   :config
   (setq org-bib-dir (concat document-dir "/Bibliography"))
   (setq org-bib-file (concat org-bib-dir "/references.bib"))
@@ -410,7 +411,7 @@ updating our bibliography.
   (setq bibtex-completion-library-path `(,(concat org-bib-dir "/bibtex-pdfs/"))
 	;; Where is the bibliography expected (org-ref & org-cite)
 	bibtex-completion-bibliography (list org-bib-file)
-	org-cite-global-bibliography org-bib-file
+	org-cite-global-bibliography (list org-bib-file)
 
 	bibtex-completion-notes-path (concat org-bib-dir "/notes")
 	bibtex-completion-notes-template-multiple-files "* ${author-or-editor}, ${title}, ${journal}, (${year}) :${=type=}: \n\nSee [[cite:&${=key=}]]\n"
@@ -442,11 +443,10 @@ updating our bibliography.
 
 We really do require latex
 
-#+begin_src elisp :tangle no :exports code
-(leaf ox-latex
-  :after org org-ref
+#+begin_src elisp :tangle yes :exports code
+(leaf ox-latex :require t
+  :after org
   :config
-  (add-to-list 'org-export-backends 'latex)
   (add-to-list 'org-latex-packages-alist '("" "minted"))
   (setq org-latex-listings 'minted) 
 
@@ -473,14 +473,34 @@ We really do require latex
 	  "%latex -shell-escape -interaction nonstopmode -output-directory %o %f")))
 #+end_src
 
+*** HTML Export
+
+#+begin_src elisp :tangle yes :exports code
+(leaf ox-html
+  :after org
+  :config
+  (setq org-html-head "
+<style type=\"text/css\">
+  pre.src {
+      background-color: #000;
+      color: #ccc;
+      border-radius: 2ch;
+  }
+  pre.src:before {
+      background-color: #ccc;
+      color: #000;
+      border-radius: 0.5ch;
+  }
+</style>
+"))
+#+end_src
+
 *** Pandoc the Panacea of Exports
 
 For more export formats we use pandoc:
-#+begin_src elisp :tangle no :exports code
-(leaf ox-pandoc :ensure t
-  :after org org-ref
-  :config
-  (add-to-list 'org-export-backends 'pandoc))
+#+begin_src elisp :tangle yes :exports code
+(leaf ox-pandoc :ensure t :require t
+  :after org)
 #+end_src
 
 *** Slideshows
@@ -491,10 +511,9 @@ Writing mockup presentations can be quicker when you focus on the text
 of the presentation first, and prettifying later. Reveal.js is a nice
 in between of these.
 
-#+begin_src elisp :tangle no :exports code
-(leaf ox-reveal :ensure t
+#+begin_src elisp :tangle yes :exports code
+(leaf ox-reveal :ensure t :require t
   :config
-  (add-to-list 'org-export-backends 'reveal)
   (setq org-reveal-root "https://cdn.jsdelivr.net/npm/reveal.js"))
 #+end_src
 
@@ -521,12 +540,12 @@ And in case we want to make some (GNU)?plots?
 
 *** Agenda Location
 
-Make it so that all files in the " src_elisp{org-agenda-files} " variable (e.g. "=~/Documents=") will be
-included in the tablutation and collation of all the dates and todos
-etc.
+# Make it so that all files in the " src_elisp{org-agenda-files} " variable (e.g. "=~/Documents=") will be
+# included in the tablutation and collation of all the dates and todos
+# etc.
 
 #+begin_src elisp :tangle yes :exports code
-(leaf org-agenda :require t
+(leaf org-agenda
   :after org
   :config
   (setq org-agenda-files `(,(concat org-directory))))
@@ -556,24 +575,63 @@ e.g. meetings, deadlines and whatever else:
 (leaf org-capture
   :after org-capture
   :config
+  (add-hook 'org-capture-mode-hook #'org-id-get-create)
   (setq org-capture-templates
 	'(("t" "Todo" entry (file+headline "todo.org" "Tasks")
-	   "* TODO %?\n  %i\n  %a")
+	   "* TODO %^{Todo?} %^G\nSCHEDULED: %^t\n:PROPERTIES:\n:ADDED: %U\n:END:\n  %i\n  %a \n%?\n")
+	  ("h" "Habit" entry (file+headline "todo.org" "Habits")
+	   "* TODO %^{Habit} %^G\nSCHEDULED: %^T\n:PROPERTIES:\n:STYLE: habit\n:ADDED: %U\n:END:\n%?\n")
 	  ("j" "Journal" entry (file+datetree "journal.org")
-	   "* %?\nEntered on %U\n  %i\n  %a")
+	   "* %^{Journal Entry:} %^G\nEntered on %U\n  %i\n:PROPERTIES:\n:ADDED: %U\n:END:\n  %a\n%?\n")
 	  ("m" "Meeting" entry (file+headline "dates.org" "Meetings")
-	   "* %^{prompt} :meeting:%^G\n:PROPERTIES:\n:CATEGORY: Meeting\n:LOCATION: %^{LOCATION}\n:ADDED: %U\n:END:\nMeeting is scheduled for: %^t\n%?\n\n"))))
+	   "* %^{Meeting Title:} %^G\nSCHEDULED: %^t\n:PROPERTIES:\n:CATEGORY: Meeting\n:LOCATION: %^{LOCATION}\n:ADDED: %U\n:END:\n%?\n"))))
 #+end_src
 
-** Org Mobile
+*** Habits
 
 #+begin_src elisp :tangle yes :exports code
-(leaf org-mobile
+(leaf org-habit
+  :after org
+  :require t
+  :config
+  (add-to-list 'org-modules 'org-habit t)
+  (setq org-habit-graph-column 80))
+#+end_src
+
+*** Org Mobile
+
+So that we can edit and view things on the go. We could use the proper =org-mobile= module of org,
+instead we synchronize w/ Nextcloud, as to have it be the format we like when using =Orgzly Revived=
+
+** Org Notes (Roam)
+
+Let alone being able to maintain dates and times and journal entries: having notes for consolidating
+a personal wiki (separately) is also rather useful. For this we use Org-roam, a slip-note style note
+taking package.
+
+*** Org Roam
+
+#+begin_src elisp :tangle yes :exports code
+(leaf org-roam :ensure t
+  :after org
+  :require t
+  :config
+  (setq org-roam-directory (file-truename org-directory))
+  (org-roam-db-autosync-mode))
+#+end_src
+
+**** Org Roam Babel (ORB)
+
+** Org Babel
+
+#+begin_src elisp :tangle yes :exports code
+(leaf org-babel
   :after org
   :config
-  (setq org-mobile-directory "/scpx:webdav@server:/srv/webdav"
-	org-mobile-inbox-for-pull (concat org-directory "/mobileorg.org")
-	org-mobile-agendas nil))
+  (org-babel-do-load-languages
+   'org-babel-load-languages
+   '((emacs-lisp . t)
+     (python . t))))
 #+end_src
 
 * Flutter