In sh-mode, upon typing "<<", bracketing pairs of "EOF" are created
automatically in order to allow creation of a here document.
Unfortunately the fill-paragraph command, when used inside the correctly
syntax-highlighted here file region, will not take the trailing "EOF"
into account as a delimiter, but takes this and the following lines to
be ordinary text, thus garbling the content of the shell script.

What should be done:
fill-paragraph in sh-mode should recognize "^EOF$" as the end of paragraph

Note:
The same is true for the leading "<<EOF\n"


In GNU Emacs 24.4.1 (x86_64-pc-linux-gnu, GTK+ Version 3.14.5)
 of 2015-03-07 on trouble, modified by Debian
Windowing system distributor `The X.Org Foundation', version 11.0.11701000
System Description:	Debian GNU/Linux testing (stretch)

Configured using:
 `configure --build x86_64-linux-gnu --prefix=/usr
 --sharedstatedir=/var/lib --libexecdir=/usr/lib
 --localstatedir=/var/lib --infodir=/usr/share/info
 --mandir=/usr/share/man --with-pop=yes
 --enable-
locallisppath=/etc/emacs24:/etc/emacs:/usr/local/share/emacs/24.4/site-
lisp:/usr/local/share/emacs/site-lisp:/usr/share/emacs/24.4/site-
lisp:/usr/share/emacs/site-lisp
 --build x86_64-linux-gnu --prefix=/usr --sharedstatedir=/var/lib
 --libexecdir=/usr/lib --localstatedir=/var/lib
 --infodir=/usr/share/info --mandir=/usr/share/man --with-pop=yes
 --enable-
locallisppath=/etc/emacs24:/etc/emacs:/usr/local/share/emacs/24.4/site-
lisp:/usr/local/share/emacs/site-lisp:/usr/share/emacs/24.4/site-
lisp:/usr/share/emacs/site-lisp
 --with-x=yes --with-x-toolkit=gtk3 --with-toolkit-scroll-bars
 'CFLAGS=-g -O2 -fstack-protector-strong -Wformat
 -Werror=format-security -Wall' CPPFLAGS=-D_FORTIFY_SOURCE=2
 LDFLAGS=-Wl,-z,relro'

Important settings:
  value of $LANG: en_US.UTF-8
  locale-coding-system: utf-8-unix

Major mode: Shell-script

Minor modes in effect:
  sh-electric-here-document-mode: t
  show-paren-mode: t
  savehist-mode: t
  shell-dirtrack-mode: t
  tooltip-mode: t
  electric-indent-mode: t
  mouse-wheel-mode: t
  tool-bar-mode: t
  menu-bar-mode: t
  file-name-shadow-mode: t
  global-font-lock-mode: t
  font-lock-mode: t
  blink-cursor-mode: t
  auto-composition-mode: t
  auto-encryption-mode: t
  auto-compression-mode: t
  column-number-mode: t
  line-number-mode: t
  transient-mark-mode: t

Recent input:
SPC < < C o n v e r t SPC a SPC <backspace> n SPC O 
p e n D o c u m e n t SPC s p r e a d s h e e t SPC 
i n t o SPC a SPC t a b - s e p a r a t e d SPC t e 
x t SPC f i l e . <return> <return> U s a g e : <return> 
$ 0 SPC I N U <backspace> O U T _ F I L E <left> <left> 
<left> <left> <left> <left> <left> <backspace> P <end> 
<return> <return> A n SPC o u t p u t SPC f i l e SPC 
w i t h SPC t h e SPC b a s e SPC b a s e n a m e SPC 
a s SPC I N P U T _ F I L E SPC a n d SPC t h e SPC 
f i l e SPC e n d i n g SPC . t s v SPC w i l l SPC 
b e SPC c r e a t e d SPC a u t o m a t i c a l l y 
. M-b M-b M-b M-b M-b M-q <end> <C-left> <C-left> <C-left> 
<C-left> <C-right> <return> <return> <up> <C-left> 
<C-left> <C-right> <C-right> <C-left> <left> <left> 
<right> <right> <backspace> <backspace> <return> <down> 
<tab> <delete> <tab> <tab> <end> <left> <left> <left> 
<right> <backspace> <return> <return> <up> <up> <up> 
<down> <up> <left> <down> <down> <down> <right> <up> 
<up> <left> <return> <backspace> <backspace> C-x C-s 
C-h k M-q <help-echo> <help-echo> <help-echo> <down-mouse-1> 
<mouse-1> <double-down-mouse-1> <mouse-movement> <mouse-movement> 
<double-drag-mouse-1> <down-mouse-1> <mouse-1> q M-x 
r e p o r t - e m <tab> <return>

Recent messages:

For information about GNU Emacs and the GNU system, type C-h C-a.
Setting up indent for shell type bash
Indentation variables are now local.
Indentation setup for shell type bash
Auto-saving...done
Making completion list...
Saving file /home/daniel/.local/bin/ods2tsv...
Wrote /home/daniel/.local/bin/ods2tsv
Type C-x 1 to delete the help window, C-M-v to scroll help.

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/home/daniel/.emacs.d/elpa/org-20150518/ob-matlab hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-indent hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-comint hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-eval hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-bbdb hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-scheme hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-mouse hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-fortran hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-R hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-install hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-tangle hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-timer hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-id hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ox-man hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-ref hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-perl hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-mscgen hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ox-beamer hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-gnus hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-rmail hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-macs hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-info hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-inlinetask hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-python hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-footnote hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-picolisp hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-agenda hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-bibtex hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-version hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-feed hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-sh hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-element hides 
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/home/daniel/.emacs.d/elpa/org-20150518/org-ctags hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-maxima hides 
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/home/daniel/.emacs.d/elpa/org-20150518/ob-java hides 
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/usr/share/emacs24/site-lisp/latex-cjk-thai/thai-word hides 
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/usr/share/emacs24/site-lisp/auctex/bib-cite hides /usr/share/emacs/site-
lisp/auctex/bib-cite
/usr/share/emacs24/site-lisp/auctex/context-en hides /usr/share/emacs/site-
lisp/auctex/context-en
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lisp/auctex/tex-bar
/usr/share/emacs24/site-lisp/auctex/tex-jp hides /usr/share/emacs/site-
lisp/auctex/tex-jp
/usr/share/emacs24/site-lisp/auctex/texmathp hides /usr/share/emacs/site-
lisp/auctex/texmathp
/usr/share/emacs24/site-lisp/auctex/font-latex hides /usr/share/emacs/site-
lisp/auctex/font-latex
/usr/share/emacs24/site-lisp/auctex/context hides /usr/share/emacs/site-
lisp/auctex/context
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lisp/auctex/latex
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lisp/auctex/plain-tex
/usr/share/emacs24/site-lisp/auctex/prv-emacs hides /usr/share/emacs/site-
lisp/auctex/prv-emacs
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lisp/auctex/tex-info
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lisp/auctex/tex-style
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lisp/auctex/tex
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lisp/auctex/preview
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lisp/auctex/multi-prompt
/usr/share/emacs24/site-lisp/auctex/tex-mik hides /usr/share/emacs/site-
lisp/auctex/tex-mik
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lisp/auctex/tex-fold
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lisp/auctex/tex-font
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lisp/auctex/tex-buf
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lisp/auctex/toolbar-x
/usr/share/emacs24/site-lisp/auctex/context-nl hides /usr/share/emacs/site-
lisp/auctex/context-nl

Features:
(shadow sort mail-extr emacsbug message rfc822 mml mml-sec mm-decode
mm-bodies mm-encode mail-parse rfc2231 mailabbrev gmm-utils mailheader
sendmail rfc2047 rfc2045 ietf-drums mail-utils eieio-opt speedbar
sb-image ezimage dframe help-mode tramp-cache sh-script smie info
package epg-config ox-taskjuggler ox-org ox-odt ox-md ox-latex
ox-icalendar ox-html ox-ascii ox-publish ox org-element ob-dot org
org-macro org-footnote org-pcomplete org-list org-faces org-entities
noutline outline org-version ob-emacs-lisp ob ob-tangle ob-ref ob-lob
ob-table ob-exp org-src ob-keys ob-comint ob-core ob-eval org-compat
org-macs org-loaddefs find-func cal-menu calendar cal-loaddefs edmacro
kmacro rng-nxml rng-valid rng-loc rng-uri rng-parse nxml-parse rng-match
rng-dt rng-util rng-pttrn nxml-ns nxml-mode nxml-outln nxml-rap
nxml-util nxml-glyph nxml-enc xmltok sgml-mode taskjuggler-mode skeleton
textile-mode derived graphviz-dot-mode server paren savehist cus-start
cus-load pylint tramp tramp-compat auth-source eieio byte-opt bytecomp
byte-compile cconv eieio-core gnus-util mm-util mail-prsvr
password-cache tramp-loaddefs cl-macs trampver org-install mmm-auto
mmm-vars mmm-compat cl gv cl-loaddefs cl-lib 50magit ido ess-toolbar
ess-mouse mouseme thingatpt browse-url ess-menu ess-swv ess-noweb
ess-noweb-font-lock-mode ess-bugs-l essd-els ess-sas-d ess-sas-l
ess-sas-a shell pcomplete ess-sta-d ess-sta-l cc-vars cc-defs
make-regexp ess-sp6-d ess-sp3-d ess-julia ess-r-d ess-r-completion
compile ess-tracebug format-spec ess-roxy advice hideshow ess-help
ess-developer eldoc help-fns ess-s-l ess ess-inf comint ansi-color ring
ess-mode ess-noweb-mode ess-utils ess-custom executable easymenu
ess-compat ess-site emacs-goodies-el emacs-goodies-custom
emacs-goodies-loaddefs easy-mmode preview-latex tex-site auto-loads
time-date tooltip electric uniquify ediff-hook vc-hooks lisp-float-type
mwheel x-win x-dnd tool-bar dnd fontset image regexp-opt fringe
tabulated-list newcomment lisp-mode prog-mode register page menu-bar
rfn-eshadow timer select scroll-bar mouse jit-lock font-lock syntax
facemenu font-core frame cham georgian utf-8-lang misc-lang vietnamese
tibetan thai tai-viet lao korean japanese hebrew greek romanian slovak
czech european ethiopic indian cyrillic chinese case-table epa-hook
jka-cmpr-hook help simple abbrev minibuffer nadvice loaddefs button
faces cus-face macroexp files text-properties overlay sha1 md5 base64
format env code-pages mule custom widget hashtable-print-readable
backquote make-network-process dbusbind gfilenotify dynamic-setting
system-font-setting font-render-setting move-toolbar gtk x-toolkit x
multi-tty emacs)

Memory information:
((conses 16 306093 17112)
 (symbols 48 39925 0)
 (miscs 40 94 252)
 (strings 32 81420 10712)
 (string-bytes 1 2408423)
 (vectors 16 29571)
 (vector-slots 8 613174 7306)
 (floats 8 184 389)
 (intervals 56 12817 0)
 (buffers 960 15)
 (heap 1024 48827 1634))
-- 
Max-Planck-Institute for Dynamics and Self-Organization
Research Group Biomedical Physics

Am Fassberg 17
D-37077 Goettingen
(+49) 551 5176 373

You can obtain my public key 0xF197B128 from all keyservers, e.g. pgp.mit.edu
Fingerprint: 9698 BDD4 71CC 1274 B7E2  2049 1EDD 012D F197 B128