bug#66985: 29.1; Issue with `package.el` upgrading builtin (edge-case)

[Sylvain Bougerel]

The following issue seem to occur with emacs-29.1 only. Emacs-27.1 and
emacs-28.1 were also tested but do not seem to suffer from the problem.


Issue observed:

Likelihood of error in `package-compute-transaction` form `package.el`,
that could lead to builtin packages being upgraded even if it's not
necessary, due to an edge-case.


Background:

Unfortunately, authors/maintainers of `compat` likely made a
mistake setting its requirements (see:
https://github.com/emacs-compat/compat/blob/main/compat.el#L9):

    ;; Package-Requires: ((emacs "24.4") (seq "2.3"))

`(seq "2.3")` is a version in the future, since `seq.el` is currently at
version 2.24.

After installing this package, however, any package that depend
on `seq` too will result in `package.el` calculating that the built-in `seq`
must also be upgraded (and downloaded) even while, Emacs already has the
latest version (2.24) and when `package-install-upgrade-built-in` is not set.


Steps to reproduce:

This step shows that prior to installing `compat`, only `compat` is
requested:

     shell > [ -d ~/tmp-cache ] && rm -rf ~/tmp-cache
     shell > emacs --no-site-file --batch \
     --eval "(progn \
       (require 'package) \
       (setq package-user-dir \"~/tmp-cache\") \
       (add-to-list 'package-archives '(\"melpa\" .
\"http://melpa.org/packages/\";)) \
       (add-to-list 'package-archives '(\"nongnu\" .
\"https://elpa.nongnu.org/nongnu/\";)) \
       (package-initialize) \
       (package-refresh-contents) \
       (print (mapcar #'package-desc-name (package-compute-transaction
() (list (list 'compat))))))"
     ...
     (compat)

This step requests the package `git-commit` which depends on `compat`,
*on a fresh install without compat*:

    shell > [ -d ~/tmp-cache ] && rm -rf ~/tmp-cache
    shell > emacs --no-site-file --batch \
    --eval "(progn \
      (require 'package) \
      (setq package-user-dir \"~/tmp-cache\") \
      (add-to-list 'package-archives '(\"melpa\" .
\"http://melpa.org/packages/\";)) \
      (add-to-list 'package-archives '(\"nongnu\" .
\"https://elpa.nongnu.org/nongnu/\";)) \
      (package-initialize) \
      (package-refresh-contents) \
      (print (mapcar #'package-desc-name (package-compute-transaction
() (list (list 'git-commit))))))"
    ...
    (compat with-editor transient git-commit)

Again, we request the package `git-commit`, but this time, the install
is not "fresh", we install `compat` first.

    shell > [ -d ~/tmp-cache ] && rm -rf ~/tmp-cache
    shell > emacs --no-site-file --batch \
    --eval "(progn \
      (require 'package) \
      (setq package-user-dir \"~/tmp-cache\") \
      (add-to-list 'package-archives '(\"melpa\" .
\"http://melpa.org/packages/\";)) \
      (add-to-list 'package-archives '(\"nongnu\" .
\"https://elpa.nongnu.org/nongnu/\";)) \
      (package-initialize) \
      (package-refresh-contents) \
      (package-install 'compat) \
      (print (mapcar #'package-desc-name (package-compute-transaction
() (list (list 'git-commit))))))"
    ...
    (with-editor seq transient git-commit)

Here the issue shows itself, `seq` is now requested for installation,
which is incorrect, since Emacs already have the latest version.

Attempting to install `seq` does not install cleanly (See:
https://lists.gnu.org/archive/html/emacs-devel/2023-11/msg00235.html)



My own Emacs version information was included in the bug report, and thus is
kept as-is:


In GNU Emacs 29.1 (build 1, x86_64-pc-linux-gnu, GTK+ Version 3.24.38,
cairo version 1.17.8)
System Description: Arch Linux

Configured using:
 'configure --with-pgtk --with-native-compilation=aot --sysconfdir=/etc
 --prefix=/usr --libexecdir=/usr/lib --with-tree-sitter
 --localstatedir=/var --with-cairo --disable-build-details
 --with-harfbuzz --with-libsystemd --with-modules 'CFLAGS=-march=x86-64
 -mtune=generic -O2 -pipe -fno-plt -fexceptions -Wp,-D_FORTIFY_SOURCE=2
 -Wformat -Werror=format-security -fstack-clash-protection
 -fcf-protection -g
 -ffile-prefix-map=/build/emacs/src=/usr/src/debug/emacs -flto=auto'
 'LDFLAGS=-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -flto=auto'
 'CXXFLAGS=-march=x86-64 -mtune=generic -O2 -pipe -fno-plt -fexceptions
 -Wp,-D_FORTIFY_SOURCE=2 -Wformat -Werror=format-security
 -fstack-clash-protection -fcf-protection -Wp,-D_GLIBCXX_ASSERTIONS -g
 -ffile-prefix-map=/build/emacs/src=/usr/src/debug/emacs -flto=auto''

Configured features:
ACL CAIRO DBUS FREETYPE GIF GLIB GMP GNUTLS GPM GSETTINGS HARFBUZZ JPEG
JSON LCMS2 LIBOTF LIBSYSTEMD LIBXML2 MODULES NATIVE_COMP NOTIFY INOTIFY
PDUMPER PGTK PNG RSVG SECCOMP SOUND SQLITE3 THREADS TIFF
TOOLKIT_SCROLL_BARS TREE_SITTER WEBP XIM GTK3 ZLIB

Important settings:
  value of $LC_MONETARY: en_GB.UTF-8
  value of $LC_NUMERIC: en_GB.UTF-8
  value of $LC_TIME: en_GB.UTF-8
  value of $LANG: en_US.UTF-8
  value of $XMODIFIERS: @im=ibus
  locale-coding-system: utf-8-unix

Major mode: Lisp Interaction

Minor modes in effect:
  highlight-quoted-mode: t
  rainbow-delimiters-mode: t
  solaire-global-mode: t
  solaire-mode: t
  persp-mode: t
  org-roam-db-autosync-mode: t
  outline-minor-mode: t
  yas-global-mode: t
  yas-minor-mode: t
  doom-modeline-mode: t
  eros-mode: t
  vi-tilde-fringe-mode: t
  highlight-numbers-mode: t
  display-line-numbers-mode: t
  hl-todo-mode: t
  highlight-indent-guides-mode: t
  copilot-mode: t
  which-key-mode: t
  savehist-mode: t
  better-jumper-mode: t
  better-jumper-local-mode: t
  company-box-mode: t
  global-company-mode: t
  company-mode: t
  vertico-mode: t
  marginalia-mode: t
  volatile-highlights-mode: t
  recentf-mode: t
  save-place-mode: t
  global-so-long-mode: t
  global-git-commit-mode: t
  shell-dirtrack-mode: t
  server-mode: t
  envrc-global-mode: t
  envrc-mode: t
  gcmh-mode: t
  global-hl-line-mode: t
  hl-line-mode: t
  winner-mode: t
  smartparens-global-mode: t
  smartparens-mode: t
  ws-butler-global-mode: t
  ws-butler-mode: t
  global-emojify-mode: t
  emojify-mode: t
  undo-fu-session-global-mode: t
  undo-fu-session-mode: t
  undo-fu-mode: t
  flycheck-popup-tip-mode: t
  global-flycheck-mode: t
  flycheck-mode: t
  repeat-mode: t
  delete-selection-mode: t
  projectile-mode: t
  +popup-mode: t
  global-ligature-mode: t
  ligature-mode: t
  override-global-mode: t
  general-override-mode: t
  apheleia-global-mode: t
  apheleia-mode: t
  global-eldoc-mode: t
  eldoc-mode: t
  show-paren-mode: t
  electric-indent-mode: t
  mouse-wheel-mode: t
  prettify-symbols-mode: t
  file-name-shadow-mode: t
  global-font-lock-mode: t
  font-lock-mode: t
  window-divider-mode: t
  size-indication-mode: t
  column-number-mode: t
  line-number-mode: t
  transient-mark-mode: t
  auto-composition-mode: t
  auto-encryption-mode: t
  auto-compression-mode: t

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Features:
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network-stream url-cache url-http url-auth url-gw nsm magit-extras
company-ispell company-dabbrev vc-hg vc-svn vc bug-reference vterm tramp
tramp-loaddefs trampver tramp-integration files-x tramp-compat
parse-time term ehelp vterm-module term/xterm xterm apheleia-core
apheleia apheleia-utils tabify misearch multi-isearch anzu
company-yasnippet elisp-demos helpful cc-langs cc-vars cc-defs trace
edebug debug backtrace info-look info help-fns radix-tree elisp-refs
consult-flycheck consult magit-bookmark bookmark vertico-directory
mule-util smartparens-markdown markdown-mode edit-indirect goto-addr
hide-mode-line org-eldoc writegood-mode toc-org org-superstar
org-fancy-priorities org-appear mixed-pitch org-crypt org-indent
image-file image-converter oc-basic ol-bibtex bibtex iso8601
highlight-quoted rainbow-delimiters dired-aux diredfl dired-x disp-table
spell-fu ispell yaml-mode git-gutter-fringe fringe-helper git-gutter
vc-git vc-dispatcher jka-compr auto-minor-mode whitespace make-mode
vertico-repeat pulse doom-themes-ext-org solaire-mode face-remap
doom-one-theme doom-themes doom-themes-base persp-mode org-agenda
org-roam-logseq org-roam-migrate org-roam-log org-roam-mode
org-roam-capture org-roam-id org-roam-node org-roam-db
emacsql-sqlite-builtin sqlite org-roam-utils org-roam-compat org-roam
org-capture org-attach smartparens-org org-yt org-element org-persist
xdg org-id org-refile org-element-ast inline avl-tree org noutline
outline ob-emacs-lisp org-table ob ob-tangle ol ob-ref ob-lob ob-table
ob-exp org-macro org-src company-shell sh-script smie treesit executable
org-keys oc ob-comint org-pcomplete org-list org-footnote org-entities
org-faces cal-menu calendar cal-loaddefs emacsql-sqlite
emacsql-sqlite-common emacsql emacsql-compiler magit-todos pcre2el rxt
re-builder async magit-autoloads magit-submodule magit-blame magit-stash
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magit-remote magit-commit magit-sequence magit-notes magit-worktree
magit-tag magit-merge magit-branch magit-reset magit-files magit-refs
magit-status magit magit-repos magit-apply magit-wip magit-log
which-func magit-diff smerge-mode diff diff-mode magit-core
magit-autorevert autorevert filenotify magit-margin magit-transient
magit-process magit-mode doom-snippets doom-snippets-lib yasnippet
elisp-mode doom-modeline doom-modeline-segments doom-modeline-env
doom-modeline-core shrink-path f f-shortdoc flycheck-cask eros
vi-tilde-fringe highlight-numbers parent-mode display-line-numbers
hl-todo highlight-indent-guides color copilot copilot-balancer
editorconfig editorconfig-core editorconfig-core-handle
editorconfig-fnmatch s jsonrpc which-key savehist better-jumper
nerd-icons nerd-icons-faces nerd-icons-data nerd-icons-data-mdicon
nerd-icons-data-flicon nerd-icons-data-codicon nerd-icons-data-devicon
nerd-icons-data-sucicon nerd-icons-data-wicon nerd-icons-data-faicon
nerd-icons-data-powerline nerd-icons-data-octicon
nerd-icons-data-pomicon nerd-icons-data-ipsicon company-box
company-box-doc frame-local company-box-icons all-the-icons
all-the-icons-faces data-material data-weathericons data-octicons
data-fileicons data-faicons data-alltheicons company-capf company
vertico orderless marginalia etags fileloop generator xref
volatile-highlights recentf tree-widget wid-edit saveplace so-long
git-commit magit-git magit-base magit-section cursor-sensor crm
with-editor shell pcomplete transient server log-edit message sendmail
yank-media puny dired dired-loaddefs rfc822 mml mml-sec epa epg rfc6068
epg-config gnus-util mm-decode mm-bodies mm-encode mail-parse rfc2231
rfc2047 rfc2045 mm-util ietf-drums mail-prsvr mailabbrev mail-utils
gmm-utils mailheader pcvs-util add-log compat envrc inheritenv gcmh
hl-line winner smartparens-config smartparens-text smartparens loadhist
ws-butler emojify apropos tar-mode arc-mode archive-mode ht
undo-fu-session undo-fu flycheck-popup-tip popup flycheck-package
package-lint imenu finder finder-inf doom-packages package browse-url
url-handlers flycheck find-func dash autosync-magit gptel gptel-openai
url url-proxy url-privacy url-expand url-methods url-history url-cookie
generate-lisp-file url-domsuf url-util url-parse auth-source eieio
eieio-core password-cache json map url-vars mailcap repeat delsel
projectile project byte-opt lisp-mnt grep compile text-property-search
comint ansi-osc ansi-color ring ibuf-ext ibuffer ibuffer-loaddefs
thingatpt let-alist ob-core org-cycle org-fold org-fold-core org-compat
ob-eval org-version org-macs format-spec ligature derived edmacro kmacro
use-package-bind-key bind-key dtrt-indent advice time-date comp
comp-cstr warnings icons doom-editor doom-projects doom-ui easy-mmode
doom-keybinds pp cl-extra help-mode use-package-core bytecomp
byte-compile general tex-site rx realgud-recursive-autoloads doom-start
doom-modules cl-seq doom doom-lib cl-macs cl-loaddefs cl-lib pcase gv
harfbuzz jansson dynamic-modules subr-x rmc iso-transl tooltip cconv
eldoc paren electric uniquify ediff-hook vc-hooks lisp-float-type mwheel
term/pgtk-win pgtk-win term/common-win pgtk-dnd tool-bar dnd fontset
image regexp-opt fringe tabulated-list replace newcomment text-mode
lisp-mode prog-mode register page tab-bar menu-bar rfn-eshadow isearch
easymenu timer select scroll-bar mouse jit-lock font-lock syntax
font-core term/tty-colors frame minibuffer nadvice seq simple cl-generic
indonesian philippine cham georgian utf-8-lang misc-lang vietnamese
tibetan thai tai-viet lao korean japanese eucjp-ms cp51932 hebrew greek
romanian slovak czech european ethiopic indian cyrillic chinese
composite emoji-zwj charscript charprop case-table epa-hook
jka-cmpr-hook help abbrev obarray oclosure cl-preloaded button loaddefs
theme-loaddefs faces cus-face macroexp files window text-properties
overlay sha1 md5 base64 format env code-pages mule custom widget keymap
hashtable-print-readable backquote threads dbusbind inotify
dynamic-setting system-font-setting font-render-setting cairo gtk pgtk
lcms2 multi-tty make-network-process native-compile emacs)

Memory information:
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