- Update to 2005

PR:		ports/94671
Submitted by:	maintainer

8 files changed, 3324 insertions, 3263 deletions

diff --git a/math/isabelle/Makefile b/math/isabelle/Makefile
index 55300b44b9f2..a51cec1fd75a 100644
--- a/math/isabelle/Makefile
+++ b/math/isabelle/Makefile
@@ -6,46 +6,47 @@
 #
 
 PORTNAME=	isabelle
-PORTVERSION=	2004
+PORTVERSION=	2005
 CATEGORIES=	math
-MASTER_SITES=	http://isabelle.in.tum.de/dist/packages/ \
-		http://www.cl.cam.ac.uk/Research/HVG/Isabelle/dist/packages/ \
-		http://mirror.cse.unsw.edu.au/pub/isabelle/packages/
-DISTNAME=	Isabelle2004
+MASTER_SITES=	http://isabelle.in.tum.de/dist/ \
+		http://www.cl.cam.ac.uk/Research/HVG/Isabelle/dist/ \
+		http://mirror.cse.unsw.edu.au/pub/isabelle/dist/
+DISTNAME=	Isabelle2005
 .if !defined(NOPORTDOCS)
-DISTFILES=	Isabelle2004.tar.gz \
-		Isabelle2004_library.tar.gz \
-		Isabelle2004_pdf.tar.gz
+DISTFILES=	Isabelle2005.tar.gz \
+		Isabelle2005_library.tar.gz \
+		Isabelle2005_pdf.tar.gz
 .endif
 
 MAINTAINER=	timbob@bigpond.com
 COMMENT=	A generic proof assistant
 
+OPTIONS=	SMLNJ "Use SML/NJ (devel) instead of the faster Poly/ML" Off
+
+.include <bsd.port.pre.mk>
+
 .if defined(WITH_SMLNJ)
-ML_COMMENT=	Standard ML of New Jersey 110 or later
 ML_SYSTEM=	smlnj-110
-ML_HOME=	${LOCALBASE}/lib/sml-nj/bin
+ML_HOME=	${LOCALBASE}/smlnj/bin
 ML_OPTIONS=	@SMLdebug=/dev/null
-ML_DBASE=
 .else
-# Poly/ML 4.0, 4.1, 4.1.x
-ML_COMMENT=	Poly/ML 4.0, 4.1, 4.1.x
-ML_SYSTEM=	polyml-4.1.3
+ML_SYSTEM=	polyml-4.2.0
 ML_HOME=	${LOCALBASE}/lib/polyml/
-ML_OPTIONS=	-h 15000
-ML_DBASE=	${LOCALBASE}/lib/polyml/ML_dbase
+ML_OPTIONS=	-H 80
+ML_DBASE=	""
 .endif
 
 USE_PERL5=	yes
-HAS_CONFIGURE=	yes
 BUILD_DEPENDS+=	bash:${PORTSDIR}/shells/bash
 RUN_DEPENDS+=	proofgeneral:${PORTSDIR}/math/proofgeneral
 
-PORTDOCS=	Contents index.html *.pdf *.eps *.ps *.dvi
+DOCFILES=	Contents *.pdf *.eps *.ps *.dvi
+
+PLIST_SUB=	HEAPSUBDIR=${ML_SYSTEM}_x86-bsd
 
 .if defined(WITH_SMLNJ)
-BUILD_DEPENDS+=	sml:${PORTSDIR}/lang/sml-nj
-RUN_DEPENDS+=	sml:${PORTSDIR}/lang/sml-nj
+BUILD_DEPENDS+=	sml:${PORTSDIR}/lang/sml-nj-devel
+RUN_DEPENDS+=	sml:${PORTSDIR}/lang/sml-nj-devel
 .else
 BUILD_DEPENDS+=	poly:${PORTSDIR}/lang/polyml
 RUN_DEPENDS+=	poly:${PORTSDIR}/lang/polyml
@@ -55,11 +56,12 @@ NO_INSTALL_MANPAGES=yes
 
 post-extract:
 	@${CP} ${FILESDIR}/Makefile ${WRKSRC}
+	@${CP} ${FILESDIR}/polyml-4.1.4-patch.ML ${WRKSRC}/src/Pure/ML-Systems/
+	@${CP} ${FILESDIR}/polyml-4.2.0.ML ${WRKSRC}/src/Pure/ML-Systems/
 
 post-patch:
 	@${MV} ${WRKSRC}/etc/settings ${WRKSRC}/etc/settings.presed
-	@${SED} "s|%%ML_COMMENT%%|${ML_COMMENT}|;	\
-		 s|%%ML_SYSTEM%%|${ML_SYSTEM}|;		\
+	@${SED} "s|%%ML_SYSTEM%%|${ML_SYSTEM}|;		\
 		 s|%%ML_HOME%%|${ML_HOME}|;		\
 		 s|%%ML_OPTIONS%%|\"${ML_OPTIONS}\"|;	\
 		 s|%%ML_DBASE%%|${ML_DBASE}|;		\
@@ -80,7 +82,7 @@ post-install:
 	${WRKSRC}/bin/isatool ${INSTALL} -d ${PREFIX}/share/isabelle -p ${PREFIX}/bin
 .if !defined(NOPORTDOCS)
 	${MKDIR} ${DOCSDIR}
-.for file in ${PORTDOCS}
+.for file in ${DOCFILES}
 	${INSTALL_DATA} ${WRKSRC}/doc/${file} ${DOCSDIR}
 .endfor
 	(cd ${WRKSRC}; \
@@ -88,4 +90,4 @@ post-install:
 	 ${FIND} -d browser_info -type f -exec ${INSTALL_DATA} {} ${DOCSDIR}/{} \;)
 .endif
 
-.include <bsd.port.mk>
+.include <bsd.port.post.mk>
diff --git a/math/isabelle/distinfo b/math/isabelle/distinfo
index cc4b0e8db3a1..f44c2b1e535d 100644
--- a/math/isabelle/distinfo
+++ b/math/isabelle/distinfo
@@ -1,6 +1,6 @@
-MD5 (Isabelle2004.tar.gz) = 8ea6985fde973453090abaa68aaa8446
-SIZE (Isabelle2004.tar.gz) = 5650889
-MD5 (Isabelle2004_library.tar.gz) = 21a8eaa3e9ba8125450bed00e684bab0
-SIZE (Isabelle2004_library.tar.gz) = 17131435
-MD5 (Isabelle2004_pdf.tar.gz) = 8ff71a6f755f45eae6247924f5571ff1
-SIZE (Isabelle2004_pdf.tar.gz) = 4500547
+MD5 (Isabelle2005.tar.gz) = b40a7eff0c9897753f80ffad976b6d2e
+SIZE (Isabelle2005.tar.gz) = 6168654
+MD5 (Isabelle2005_library.tar.gz) = 69ddee5572768865f132ccc38980a6e9
+SIZE (Isabelle2005_library.tar.gz) = 29778664
+MD5 (Isabelle2005_pdf.tar.gz) = ba3a1faa32d585e1d9d21e411452907b
+SIZE (Isabelle2005_pdf.tar.gz) = 4628889
diff --git a/math/isabelle/files/Makefile b/math/isabelle/files/Makefile
index 10d428934511..856f2210a630 100644
--- a/math/isabelle/files/Makefile
+++ b/math/isabelle/files/Makefile
@@ -3,29 +3,28 @@
 # Install Isabelle from within FreeBSD ports.
 
 DESTDIR=${PREFIX}/share/isabelle
-SRCDIRS=bin contrib etc lib src heaps
+SRCDIRS=bin contrib etc heaps lib src
 
 all:
 	./build -a -b
 
 install:
 	mkdir -p ${DESTDIR}
+	${BSD_INSTALL_DATA} ANNOUNCE ${DESTDIR}/
+	${BSD_INSTALL_DATA} CONTRIBUTORS ${DESTDIR}/
 	${BSD_INSTALL_DATA} COPYRIGHT ${DESTDIR}/
 	${BSD_INSTALL_DATA} NEWS ${DESTDIR}/
 	${BSD_INSTALL_DATA} README ${DESTDIR}/
-	${BSD_INSTALL_DATA} ANNOUNCE ${DESTDIR}/
 	${BSD_INSTALL_SCRIPT} build ${DESTDIR}/
-	${BSD_INSTALL_SCRIPT} configure ${DESTDIR}/
-	-rm lib/Tools/doc.orig
 	for f in ${SRCDIRS}; \
-		do for g in `find -d $$f -type d`;	\
-		   do mkdir -p ${DESTDIR}/$$g;		\
-		      files=`find $$g -depth 1 -type f \\! -perm +u+x`;	\
-		      if [ "$$files" != "" ]; then ${BSD_INSTALL_DATA}	\
+		do for g in `find -d $$f -type d`; \
+		   do mkdir -p ${DESTDIR}/$$g; \
+		      files=`find $$g -depth 1 -type f \\! -perm +u+x`; \
+			    if [ "$$files" != "" ]; then ${BSD_INSTALL_DATA} \
 			$$files ${DESTDIR}/$$g; fi; \
-		      scripts=`find $$g -depth 1 -type f -perm +u+x`;	\
-		     if [ "$$scripts" != "" ]; then ${BSD_INSTALL_SCRIPT}	\
+		      scripts=`find $$g -depth 1 -type f -perm +u+x`; \
+		     if [ "$$scripts" != "" ]; then ${BSD_INSTALL_SCRIPT} \
 			$$scripts ${DESTDIR}/$$g; fi; \
-		   done;	\
+		   done; \
 		done
 
diff --git a/math/isabelle/files/patch-etc-settings b/math/isabelle/files/patch-etc-settings
index 5a16d33a34ff..7fa19cbfcb4e 100644
--- a/math/isabelle/files/patch-etc-settings
+++ b/math/isabelle/files/patch-etc-settings
@@ -1,65 +1,36 @@
---- etc/settings.orig	Tue Jun  8 10:29:49 2004
-+++ etc/settings	Fri Aug 12 17:22:30 2005
-@@ -13,61 +13,12 @@
- # binaries.  Do not invent new ML system names unless you know what
- # you are doing.  Only one of the sections below should be activated.
- 
--
--# try finding the poly packages from the Isabelle site in the usual places
--POLYML_HOME=$(choosefrom \
--  "$ISABELLE_HOME/contrib/polyml" \
--  "$ISABELLE_HOME/../polyml" \
--  "/usr/share/polyml" \
--  "/usr/local/polyml" \
--  "/opt/polyml")
--
--if [ -n "$POLYML_HOME" -a -e "$POLYML_HOME/bin/polyml-version" ]; then
--  # looks like Isabelle poly packages
--  ML_SYSTEM=$("$POLYML_HOME/bin/polyml-version" 2>/dev/null || echo polyml)
--  ML_PLATFORM=$("$POLYML_HOME/bin/polyml-platform" 2>/dev/null || echo unknown-platform)
--  ML_HOME="$POLYML_HOME/$ML_PLATFORM"
--  ML_OPTIONS="-h 15000"
--elif [ -e /usr/bin/poly -a -e /usr/lib/poly ]; then
--  # maybe a shrink-wrapped polyml on x86-linux ...
--
--  # Poly/ML 4.0, 4.1, 4.1.x
--  # include version number, needed for choosing right options
--  ML_SYSTEM=polyml-4.1.3    
--  # processor/OS type
--  ML_PLATFORM=x86-linux
--  # where to find binaries
--  ML_HOME=/usr/bin
--  # where to find the standard database
--  ML_DBASE=/usr/lib/poly/ML_dbase
--  # options to pass to poly
--  ML_OPTIONS="-h 15000"
--fi
+--- etc/settings.orig	Thu Nov 24 21:53:10 2005
++++ etc/settings	Thu Nov 24 22:07:36 2005
+@@ -16,33 +16,11 @@
+ # not invent new ML system names unless you know what you are doing.
+ # Only one of the sections below should be activated.
+ 
+-# Poly/ML 4.x
+-POLY_HOME="$(type -p poly)"; [ -n "$POLY_HOME" ] && POLY_HOME="$(dirname "$POLY_HOME")"
+-ML_PLATFORM=$("$ISABELLE_HOME/lib/scripts/polyml-platform")
+-ML_HOME=$(choosefrom \
+-  "$ISABELLE_HOME/contrib/polyml/$ML_PLATFORM" \
+-  "$ISABELLE_HOME/../polyml/$ML_PLATFORM" \
+-  "/usr/local/polyml/$ML_PLATFORM" \
+-  "/usr/share/polyml/$ML_PLATFORM" \
+-  "/opt/polyml/$ML_PLATFORM" \
+-  $POLY_HOME)
+-ML_SYSTEM=$("$ISABELLE_HOME/lib/scripts/polyml-version")
+-ML_OPTIONS="-H 80"
+-ML_DBASE=""
 -
 -# Standard ML of New Jersey 110 or later
+-#SMLNJ_CYGWIN_RUNTIME=1
 -#ML_SYSTEM=smlnj-110
--#ML_HOME="$ISABELLE_HOME/../smlnj/bin"
+-#ML_HOME="$ISABELLE_HOME/contrib/smlnj/bin"
 -#ML_OPTIONS="@SMLdebug=/dev/null"
 -#ML_PLATFORM=$(eval $("$ML_HOME/.arch-n-opsys" 2>/dev/null); echo "$HEAP_SUFFIX")
 -
--# MLWorks 2.0
--#ML_SYSTEM=mlworks
--#ML_HOME="$ISABELLE_HOME/../mlworks/bin"
--#ML_OPTIONS=""
--#ML_PLATFORM=""
--
 -# Moscow ML 2.00 or later (experimental!)
 -#ML_SYSTEM=mosml
--#ML_HOME="$ISABELLE_HOME/../mosml/bin"
+-#ML_HOME="$ISABELLE_HOME/contrib/mosml/bin"
 -#ML_PLATFORM=""
 -#ML_OPTIONS=""
 -
--# Standard ML of New Jersey 0.93
--#ML_SYSTEM=smlnj-0.93
--#ML_HOME=/usr/local/ldist/DIR/sml-0.93/src
--#ML_OPTIONS=""
--#ML_PLATFORM=""
--
-+# %%ML_COMMENT%%
 +ML_SYSTEM=%%ML_SYSTEM%%
 +ML_HOME=%%ML_HOME%%
 +ML_OPTIONS=%%ML_OPTIONS%%
@@ -67,56 +38,21 @@
 +ML_DBASE=%%ML_DBASE%%
  
  ###
- ### Compilation options for isatool usedir
-@@ -79,7 +30,6 @@
- # for overriding proof objects in HOL image
- HOL_PROOF_OBJECTS=""
- 
--
- ###
- ### Document preparation
- ###
-@@ -155,7 +105,7 @@
+ ### Compilation options (cf. isatool usedir)
+@@ -116,7 +94,7 @@
  ###
  
- #Where to look for docs (multiple dirs separated by ':').
+ # Where to look for docs (multiple dirs separated by ':').
 -ISABELLE_DOCS="$ISABELLE_HOME/doc"
 +ISABELLE_DOCS="%%PREFIX%%/share/doc/isabelle"
  
- #The dvi file viewer
- DVI_VIEWER=xdvi
-@@ -181,12 +131,7 @@
- 
- # Proof General path, look in a variety of places
- ISABELLE_INTERFACE=$(choosefrom \
--  "$ISABELLE_HOME/contrib/ProofGeneral/isar/interface" \
--  "$ISABELLE_HOME/../ProofGeneral/isar/interface" \
--  "/usr/share/ProofGeneral/isar/interface" \
--  "/usr/local/ProofGeneral/isar/interface" \
--  "/opt/ProofGeneral/isar/interface" \
--  "/usr/share/emacs/ProofGeneral/isar/interface" \
+ # Preferred document format
+ ISABELLE_DOC_FORMAT=pdf
+@@ -152,6 +130,7 @@
+   "/usr/share/ProofGeneral/isar/interface" \
+   "/opt/ProofGeneral/isar/interface" \
+   "/usr/share/emacs/ProofGeneral/isar/interface" \
 +  "%%PREFIX%%/bin/proofgeneral" \
    "$ISABELLE_INTERFACE")
  
- # Options to pass to Isabelle command when PG is selected as interface
-@@ -196,20 +141,9 @@
- # try xemacs first, else emacs
- type -path xemacs >/dev/null || PROOFGENERAL_OPTIONS="-p emacs $PROOFGENERAL_OPTIONS"
- 
--
--# X-Symbol installation location (for Proof General, obsolete for PG >= 3.5)
--XSYMBOL_HOME=$(choosefrom \
--  "$ISABELLE_HOME/contrib/x-symbol" \
--  "$ISABELLE_HOME/../x-symbol" \
--  "/usr/share/x-symbol" \
--  "/usr/local/x-symbol" \
--  "/opt/x-symbol" \
--  "")
--
- # Executed before xemacs with ProofGeneral is called.
- # Required for remote fonts only.
- #XSYMBOL_INSTALLFONTS="xset fp+ tcp/isafonts.informatik.tu-muenchen.de:7200"
--
- 
- ###
- ### External reasoning tools
+ PROOFGENERAL_OPTIONS=""
diff --git a/math/isabelle/files/patch-lib-Tools-doc b/math/isabelle/files/patch-lib-Tools-doc
deleted file mode 100644
index 490f01b47d05..000000000000
--- a/math/isabelle/files/patch-lib-Tools-doc
+++ /dev/null
@@ -1,10 +0,0 @@
---- lib/Tools/doc.orig	Tue Jun  8 10:29:49 2004
-+++ lib/Tools/doc	Sat Aug 13 10:47:40 2005
-@@ -32,6 +32,7 @@
- 
- [ "$#" -ne 0 -o "$DOC" = "-?" ] && usage
- 
-+DOC=`expr "$DOC" : '^[ 	]*\(.*\)'`
- 
- ## main
- 
diff --git a/math/isabelle/files/polyml-4.1.4-patch.ML b/math/isabelle/files/polyml-4.1.4-patch.ML
new file mode 100644
index 000000000000..196d23b7fda8
--- /dev/null
+++ b/math/isabelle/files/polyml-4.1.4-patch.ML
@@ -0,0 +1,31 @@
+(*  Title:      Pure/ML-Systems/polyml-4.1.4-patch.ML
+    ID:         $Id$
+    Author:     Makarius
+
+Patch for PolyML 4.1.4 to make it work with Isabelle2005.  We commit
+this into ML_dbase!
+*)
+
+structure Posix =
+struct
+  open Posix;
+  structure IO =
+  struct
+    open IO;
+    val mkReader = mkTextReader;
+    val mkWriter = mkTextWriter;
+  end;
+end;
+
+structure TextIO =
+struct
+  open TextIO;
+  fun inputLine is = Option.getOpt (TextIO.inputLine is, "");
+end;
+
+structure Substring =
+struct
+  open Substring;
+  val all = full;
+end;
+
diff --git a/math/isabelle/files/polyml-4.2.0.ML b/math/isabelle/files/polyml-4.2.0.ML
new file mode 100644
index 000000000000..20f0eb472278
--- /dev/null
+++ b/math/isabelle/files/polyml-4.2.0.ML
@@ -0,0 +1,9 @@
+(*  Title:      Pure/ML-Systems/polyml-4.2.0.ML
+    ID:         $Id: polyml-4.2.0.ML,v 1.1 2005/11/14 13:36:46 wenzelm Exp $
+    Author:     Makarius
+
+Compatibility wrapper for Poly/ML 4.2.0.
+*)
+
+use "ML-Systems/polyml-4.1.4-patch.ML";
+use "ML-Systems/polyml.ML";
diff --git a/math/isabelle/pkg-plist b/math/isabelle/pkg-plist
index 967be5d4a306..4237e62802f6 100644
--- a/math/isabelle/pkg-plist
+++ b/math/isabelle/pkg-plist
@@ -3,28 +3,2015 @@ bin/isabelle
 bin/isabelle-interface
 bin/isabelle-process
 bin/isatool
+%%PORTDOCS%%%%DOCSDIR%%/Contents
+%%PORTDOCS%%%%DOCSDIR%%/axclass.dvi
+%%PORTDOCS%%%%DOCSDIR%%/axclass.pdf
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/.session/entries
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/.session/pre-index
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/CCL.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/CCL.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Fix.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Fix.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Gfp.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Gfp.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/GraphBrowser.jar
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Hered.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Hered.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Lfp.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Lfp.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Set.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Set.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Term.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Term.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Trancl.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Trancl.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Type.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Type.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/Wfd.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/coinduction.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/equalities.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/eval.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/.session/entries
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/.session/pre-index
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/Flag.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/Flag.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/GraphBrowser.jar
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/List.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/List.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/Nat.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/Nat.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/Stream.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/Stream.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/index.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/isabelle.css
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/large.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/medium.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/session.graph
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/ex/small.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/genrec.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/index.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/isabelle.css
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/large.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/medium.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/mono.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/session.graph
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/small.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/subset.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/typecheck.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CCL/wfd.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/.session/entries
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/.session/pre-index
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/Arith.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/Arith.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/Bool.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/Bool.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/CTT.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/CTT.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/GraphBrowser.jar
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/Main.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/README.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/ex/.session/entries
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/ex/.session/pre-index
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/ex/GraphBrowser.jar
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/ex/index.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/ex/isabelle.css
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/ex/large.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/ex/medium.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/ex/session.graph
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/ex/small.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/index.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/isabelle.css
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/large.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/medium.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/rew.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/session.graph
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/small.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/CTT/typedsimp.ML.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/Cube/.session/entries
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/Cube/.session/pre-index
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/Cube/Cube.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/Cube/Example.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/Cube/GraphBrowser.jar
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/Cube/README.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/Cube/index.html
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/Cube/isabelle.css
+%%PORTDOCS%%%%DOCSDIR%%/browser_info/Cube/large.html
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+%%DATADIR%%/src/Provers/eqsubst.ML
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+%%DATADIR%%/src/Pure/Isar/constdefs.ML
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+%%DATADIR%%/src/Pure/Isar/find_theorems.ML
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@@ -1479,54 +3453,18 @@ bin/isatool
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@@ -1542,15 +3480,25 @@ bin/isatool
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@@ -1569,39 +3517,114 @@ bin/isatool
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+%%DATADIR%%/src/ZF/Tools/inductive_package.ML
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-%%DATADIR%%/src/ZF/UNITY/WFair.ML
-%%DATADIR%%/src/ZF/UNITY/AllocBase.thy
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+%%DATADIR%%/src/ZF/arith_data.ML
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+%%DATADIR%%/src/ZF/ex/Group.thy
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-%%DATADIR%%/src/ZF/equalities.thy
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-@dirrm share/isabelle/lib/browser/awtUtilities
-@dirrm share/isabelle/lib/browser
-@dirrm share/isabelle/lib/fonts
-@dirrm share/isabelle/lib/html
-@dirrm share/isabelle/lib/Tools
-@dirrm share/isabelle/lib/logo
-@dirrm share/isabelle/lib/scripts
-@dirrm share/isabelle/lib/texinputs
-@dirrm share/isabelle/lib
+@dirrm share/nls/en_US.US-ASCII
+@dirrm share/nls/POSIX
+@dirrm share/isabelle/src/ZF/ex
+@dirrm share/isabelle/src/ZF/document
+@dirrm share/isabelle/src/ZF/UNITY
+@dirrm share/isabelle/src/ZF/Tools
+@dirrm share/isabelle/src/ZF/Resid
+@dirrm share/isabelle/src/ZF/Integ
+@dirrm share/isabelle/src/ZF/Induct/document
+@dirrm share/isabelle/src/ZF/Induct
+@dirrm share/isabelle/src/ZF/IMP/document
+@dirrm share/isabelle/src/ZF/IMP
+@dirrm share/isabelle/src/ZF/Constructible/document
+@dirrm share/isabelle/src/ZF/Constructible
+@dirrm share/isabelle/src/ZF/Coind
+@dirrm share/isabelle/src/ZF/AC/document
+@dirrm share/isabelle/src/ZF/AC
+@dirrm share/isabelle/src/ZF
+@dirrm share/isabelle/src/TFL
+@dirrm share/isabelle/src/Sequents/Modal
+@dirrm share/isabelle/src/Sequents/LK
+@dirrm share/isabelle/src/Sequents/ILL
+@dirrm share/isabelle/src/Sequents
+@dirrm share/isabelle/src/Pure/Tools
+@dirrm share/isabelle/src/Pure/Thy
+@dirrm share/isabelle/src/Pure/Syntax
+@dirrm share/isabelle/src/Pure/Proof
+@dirrm share/isabelle/src/Pure/ML-Systems
+@dirrm share/isabelle/src/Pure/Isar
+@dirrm share/isabelle/src/Pure/IsaPlanner
+@dirrm share/isabelle/src/Pure/General
+@dirrm share/isabelle/src/Pure
+@dirrm share/isabelle/src/Provers/Arith
+@dirrm share/isabelle/src/Provers
 @dirrm share/isabelle/src/LCF/ex
 @dirrm share/isabelle/src/LCF
-@dirrm share/isabelle/src/CTT/ex
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-@dirrm share/isabelle/src/FOLP
-@dirrm share/isabelle/src/HOL/HoareParallel/document
-@dirrm share/isabelle/src/HOL/HoareParallel
+@dirrm share/isabelle/src/HOLCF/ex
+@dirrm share/isabelle/src/HOLCF/domain
+@dirrm share/isabelle/src/HOLCF/document
+@dirrm share/isabelle/src/HOLCF/IOA/meta_theory
+@dirrm share/isabelle/src/HOLCF/IOA/ex
+@dirrm share/isabelle/src/HOLCF/IOA/Storage
+@dirrm share/isabelle/src/HOLCF/IOA/NTP
+@dirrm share/isabelle/src/HOLCF/IOA/Modelcheck
+@dirrm share/isabelle/src/HOLCF/IOA/ABP
+@dirrm share/isabelle/src/HOLCF/IOA
+@dirrm share/isabelle/src/HOLCF/IMP/document
+@dirrm share/isabelle/src/HOLCF/IMP
+@dirrm share/isabelle/src/HOLCF/FOCUS
+@dirrm share/isabelle/src/HOLCF
+@dirrm share/isabelle/src/HOL/ex/document
+@dirrm share/isabelle/src/HOL/ex
+@dirrm share/isabelle/src/HOL/document
+@dirrm share/isabelle/src/HOL/W0/document
+@dirrm share/isabelle/src/HOL/W0
+@dirrm share/isabelle/src/HOL/Unix/document
+@dirrm share/isabelle/src/HOL/Unix
+@dirrm share/isabelle/src/HOL/UNITY/document
+@dirrm share/isabelle/src/HOL/UNITY/Simple
+@dirrm share/isabelle/src/HOL/UNITY/Comp
+@dirrm share/isabelle/src/HOL/UNITY
+@dirrm share/isabelle/src/HOL/Tools/ATP
+@dirrm share/isabelle/src/HOL/Tools
+@dirrm share/isabelle/src/HOL/TLA/Memory
+@dirrm share/isabelle/src/HOL/TLA/Inc
+@dirrm share/isabelle/src/HOL/TLA/Buffer
+@dirrm share/isabelle/src/HOL/TLA
+@dirrm share/isabelle/src/HOL/Subst
+@dirrm share/isabelle/src/HOL/SET-Protocol/document
+@dirrm share/isabelle/src/HOL/SET-Protocol
 @dirrm share/isabelle/src/HOL/Real/document
 @dirrm share/isabelle/src/HOL/Real/HahnBanach/document
 @dirrm share/isabelle/src/HOL/Real/HahnBanach
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-@dirrm share/isabelle/src/HOL/TLA/Inc
-@dirrm share/isabelle/src/HOL/TLA/Memory
-@dirrm share/isabelle/src/HOL/TLA
+@dirrm share/isabelle/src/HOL/Prolog
+@dirrm share/isabelle/src/HOL/NumberTheory/document
+@dirrm share/isabelle/src/HOL/NumberTheory
+@dirrm share/isabelle/src/HOL/NanoJava/document
+@dirrm share/isabelle/src/HOL/NanoJava
+@dirrm share/isabelle/src/HOL/Modelcheck
+@dirrm share/isabelle/src/HOL/MicroJava/document
+@dirrm share/isabelle/src/HOL/MicroJava/JVM
+@dirrm share/isabelle/src/HOL/MicroJava/J
+@dirrm share/isabelle/src/HOL/MicroJava/Comp
+@dirrm share/isabelle/src/HOL/MicroJava/BV
+@dirrm share/isabelle/src/HOL/MicroJava
+@dirrm share/isabelle/src/HOL/Matrix/document
+@dirrm share/isabelle/src/HOL/Matrix/cplex
+@dirrm share/isabelle/src/HOL/Matrix
+@dirrm share/isabelle/src/HOL/Library/Library/document
+@dirrm share/isabelle/src/HOL/Library/Library
+@dirrm share/isabelle/src/HOL/Library
 @dirrm share/isabelle/src/HOL/Lattice/document
 @dirrm share/isabelle/src/HOL/Lattice
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-@dirrm share/isabelle/src/HOL/AxClasses
-@dirrm share/isabelle/src/HOL/Bali/document
-@dirrm share/isabelle/src/HOL/Bali
+@dirrm share/isabelle/src/HOL/Lambda/document
+@dirrm share/isabelle/src/HOL/Lambda
+@dirrm share/isabelle/src/HOL/Isar_examples/document
+@dirrm share/isabelle/src/HOL/Isar_examples
+@dirrm share/isabelle/src/HOL/Integ
+@dirrm share/isabelle/src/HOL/Induct/document
+@dirrm share/isabelle/src/HOL/Induct
+@dirrm share/isabelle/src/HOL/Import/HOLLight
+@dirrm share/isabelle/src/HOL/Import/HOL
+@dirrm share/isabelle/src/HOL/Import/Generate-HOLLight
+@dirrm share/isabelle/src/HOL/Import/Generate-HOL
+@dirrm share/isabelle/src/HOL/Import
+@dirrm share/isabelle/src/HOL/IOA
+@dirrm share/isabelle/src/HOL/IMPP
+@dirrm share/isabelle/src/HOL/IMP/document
+@dirrm share/isabelle/src/HOL/IMP
+@dirrm share/isabelle/src/HOL/Hyperreal
+@dirrm share/isabelle/src/HOL/HoareParallel/document
+@dirrm share/isabelle/src/HOL/HoareParallel
+@dirrm share/isabelle/src/HOL/Hoare
+@dirrm share/isabelle/src/HOL/Extraction/document
+@dirrm share/isabelle/src/HOL/Extraction
 @dirrm share/isabelle/src/HOL/Complex/ex/document
 @dirrm share/isabelle/src/HOL/Complex/ex
+@dirrm share/isabelle/src/HOL/Complex/document
 @dirrm share/isabelle/src/HOL/Complex
-@dirrm share/isabelle/src/HOL/Extraction/document
-@dirrm share/isabelle/src/HOL/Extraction
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-@dirrm share/isabelle/src/HOL/Isar_examples
-@dirrm share/isabelle/src/HOL/Lambda/document
-@dirrm share/isabelle/src/HOL/Lambda
+@dirrm share/isabelle/src/HOL/Bali/document
+@dirrm share/isabelle/src/HOL/Bali
+@dirrm share/isabelle/src/HOL/AxClasses/Lattice
+@dirrm share/isabelle/src/HOL/AxClasses
+@dirrm share/isabelle/src/HOL/Auth/document
+@dirrm share/isabelle/src/HOL/Auth/Guard
+@dirrm share/isabelle/src/HOL/Auth
 @dirrm share/isabelle/src/HOL/Algebra/poly
-@dirrm share/isabelle/src/HOL/Algebra/abstract
 @dirrm share/isabelle/src/HOL/Algebra/document
+@dirrm share/isabelle/src/HOL/Algebra/abstract
 @dirrm share/isabelle/src/HOL/Algebra
-@dirrm share/isabelle/src/HOL/Library/Library/document
-@dirrm share/isabelle/src/HOL/Library/Library
-@dirrm share/isabelle/src/HOL/Library
-@dirrm share/isabelle/src/HOL/Matrix
-@dirrm share/isabelle/src/HOL/MicroJava/BV
-@dirrm share/isabelle/src/HOL/MicroJava/Comp
-@dirrm share/isabelle/src/HOL/MicroJava/J
-@dirrm share/isabelle/src/HOL/MicroJava/JVM
-@dirrm share/isabelle/src/HOL/MicroJava/document
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-@dirrm share/isabelle/src/HOL/NumberTheory/document
-@dirrm share/isabelle/src/HOL/NumberTheory
-@dirrm share/isabelle/src/HOL/Import/HOL
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-@dirrm share/isabelle/src/HOLCF/FOCUS
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-@dirrm share/isabelle/src/HOLCF/IOA/ex
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-@dirrm share/isabelle/src/HOLCF/ex
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-@dirrm share/isabelle/src/HOLCF/IMP
-@dirrm share/isabelle/src/HOLCF/domain
-@dirrm share/isabelle/src/HOLCF
+@dirrm share/isabelle/src/FOLP/ex
+@dirrm share/isabelle/src/FOLP
+@dirrm share/isabelle/src/FOL/ex/document
+@dirrm share/isabelle/src/FOL/ex
+@dirrm share/isabelle/src/FOL/document
+@dirrm share/isabelle/src/FOL
+@dirrm share/isabelle/src/Cube
+@dirrm share/isabelle/src/CTT/ex
+@dirrm share/isabelle/src/CTT
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-@dirrm share/isabelle/src/Provers/Arith
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-@dirrm share/isabelle/src/ZF/Coind
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-@dirrm share/isabelle/heaps/polyml-4.1.3_x86-bsd/log
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+@dirrm share/isabelle/lib/texinputs
+@dirrm share/isabelle/lib/scripts
+@dirrm share/isabelle/lib/logo
+@dirrm share/isabelle/lib/icons
+@dirrm share/isabelle/lib/html
+@dirrm share/isabelle/lib/fonts
+@dirrm share/isabelle/lib/browser/awtUtilities
+@dirrm share/isabelle/lib/browser/GraphBrowser
+@dirrm share/isabelle/lib/browser
+@dirrm share/isabelle/lib/Tools
+@dirrm share/isabelle/lib/ProofGeneral
+@dirrm share/isabelle/lib
+@dirrm share/isabelle/heaps/%%HEAPSUBDIR%%/log
+@dirrm share/isabelle/heaps/%%HEAPSUBDIR%%
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+@dirrm share/isabelle/etc
+@dirrm share/isabelle/contrib
+@dirrm share/isabelle/bin
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