* lisp/cedet/semantic/ia.el (semantic-ia--fast-jump-helper):
Use `pop-to-buffer-same-window' (bug#28645).

This catches some URLs I missed in my previous scan,
or perhaps were added after the scan.

Most of this change is to boilerplate commentary such as license URLs.
This change was prompted by ftp://ftp.gnu.org's going-away party,
planned for November.  Change these FTP URLs to https://ftp.gnu.org
instead.  Make similar changes for URLs to other organizations moving
away from FTP.  Also, change HTTP to HTTPS for URLs to gnu.org and
fsf.org when this works, as this will further help defend against
man-in-the-middle attacks (for this part I omitted the MS-DOS and
MS-Windows sources and the test tarballs to keep the workload down).
HTTPS is not fully working to lists.gnu.org so I left those URLs alone
for now.

* lisp/cedet/semantic/symref/grep.el
(semantic-symref-grep-use-template): Remove the workaround for
bug#20719, it's been fixed for a while now.

* lisp/cedet/semantic/symref/grep.el (greppattern): Remove.
(grepflags): Rename to semantic-symref-grep-flags.
(semantic-symref-grep-expand-keywords): Update accordingly.
(semantic-symref-grep-use-template): Remove the last two
arguments to make sure they don't shadow the (not renamed)
global variables.
(semantic-symref-perform-search)
(semantic-symref-parse-tool-output-one-line): Use slot names
instead of keywords, like the byte-compiler wants us to.

* lisp/progmodes/grep.el (grep-mode-font-lock-keywords): Allow for NUL
characters following filename in grep context lines.
(grep--regexp-alist-column, grep--regexp-alist-bin-matcher)
(grep-with-null-regexp-alist, grep-fallback-regexp-alist): Remove.
(grep-regexp-alist): Recombine their contents here.
(grep-mode):
* lisp/cedet/semantic/symref/grep.el
(semantic-symref-parse-tool-output-one-line):
* lisp/progmodes/xref.el (xref-collect-matches): Use the variable
`grep-regexp-alist' rather than the function.

* lisp/cedet/semantic/symref/grep.el
(semantic-symref-grep--line-re): Delete.
(semantic-symref-parse-tool-output-one-line):
Use regexp and group numbers from (grep-regexp-alist).

* lisp/textmodes/bib-mode.el (mark-bib):
* lisp/simple.el (mark-whole-buffer, yank):
* lisp/ses.el (ses--advice-yank, ses-mark-row, ses-mark-column):
* lisp/progmodes/xscheme.el (xscheme-yank):
* lisp/progmodes/verilog-mode.el (verilog-mark-defun):
* lisp/progmodes/perl-mode.el (perl-mark-function):
* lisp/progmodes/pascal.el (pascal-mark-defun):
* lisp/progmodes/meta-mode.el (meta-mark-defun):
* lisp/progmodes/icon.el (mark-icon-function):
* lisp/progmodes/cc-cmds.el (c-mark-function):
* lisp/obsolete/vip.el (ex-goto):
* lisp/obsolete/vi.el (vi-put-before):
* lisp/mouse.el (mouse-yank-primary):
* lisp/menu-bar.el (menu-bar-select-yank):
* lisp/mail/sendmail.el (mail-yank-original):
* lisp/hexl.el (hexl-beginning-of-buffer, hexl-end-of-buffer):
* lisp/emulation/viper-cmd.el (viper-mark-beginning-of-buffer)
(viper-mark-end-of-buffer):
* lisp/cedet/semantic/senator.el (senator-mark-defun):
* lisp/allout.el (allout-mark-topic): Remove unnecessary argument
`(point)' from calls to `push-mark'.  (Bug#25565)

* lisp/cedet/semantic/util.el (semantic-something-to-tag-table):
Avoid void-function error when bootstrapping and semantic/loaddefs.el
does not yet exist.

This should improve reproducibility of lisp/loaddefs.el.
* lisp/Makefile.in (gen-lisp): New phony target.
($(lisp)/loaddefs.el, compile-main): Depend on gen-lisp.
* src/Makefile.in ($(leimdir)/leim-list.el): Depend on all of ../leim.
* lisp/cedet/semantic.el (semantic-mode):
* lisp/cedet/semantic/fw.el (top-level):
* lisp/emacs-lisp/eieio-core.el (top-level):
Robustify to generated input files maybe not yet existing.