separate file_node vs. file_path, e.g. relevant on Windows for hyperlink to the latter;

--- a/src/Pure/PIDE/command.ML	Sun Apr 06 21:01:45 2014 +0200
+++ b/src/Pure/PIDE/command.ML	Mon Apr 07 13:06:34 2014 +0200
@@ -6,7 +6,7 @@
 
 signature COMMAND =
 sig
-  type blob = (string * (SHA1.digest * string list) option) Exn.result
+  type blob = (string * string * (SHA1.digest * string list) option) Exn.result
   val read_file: Path.T -> Position.T -> Path.T -> Token.file
   val read: (unit -> theory) -> Path.T -> blob list -> Token.T list -> Toplevel.transition
   type eval
@@ -87,7 +87,7 @@
 (* read *)
 
 type blob =
-  (string * (SHA1.digest * string list) option) Exn.result;  (*file node name, digest, lines*)
+  (string * string * (SHA1.digest * string list) option) Exn.result;  (*file, path, digest, lines*)
 
 fun read_file master_dir pos src_path =
   let
@@ -101,10 +101,10 @@
 
 local
 
-fun blob_file src_path lines digest file =
+fun blob_file src_path lines digest file_node =
   let
     val file_pos =
-      Position.file file (*sic!*) |>
+      Position.file file_node |>
       (case Position.get_id (Position.thread_data ()) of
         NONE => I
       | SOME exec_id => Position.put_id exec_id);
@@ -115,16 +115,16 @@
     [span] => span
       |> Thy_Syntax.resolve_files (fn cmd => fn (path, pos) =>
         let
-          fun make_file src_path (Exn.Res (_, NONE)) =
+          fun make_file src_path (Exn.Res (_, _, NONE)) =
                 Exn.interruptible_capture (fn () => read_file master_dir pos src_path) ()
-            | make_file src_path (Exn.Res (file, SOME (digest, lines))) =
-               (Position.reports [(pos, Markup.language_path), (pos, Markup.path file)];
-                Exn.Res (blob_file src_path lines digest file))
+            | make_file src_path (Exn.Res (file_node, file_path, SOME (digest, lines))) =
+               (Position.reports [(pos, Markup.language_path), (pos, Markup.path file_path)];
+                Exn.Res (blob_file src_path lines digest file_node))
             | make_file _ (Exn.Exn e) = Exn.Exn e;
           val src_paths = Keyword.command_files cmd path;
         in
           if null blobs then
-            map2 make_file src_paths (map (K (Exn.Res ("", NONE))) src_paths)
+            map2 make_file src_paths (map (K (Exn.Res ("", "", NONE))) src_paths)
           else if length src_paths = length blobs then
             map2 make_file src_paths blobs
           else error ("Misalignment of inlined files" ^ Position.here pos)

--- a/src/Pure/PIDE/document.ML	Sun Apr 06 21:01:45 2014 +0200
+++ b/src/Pure/PIDE/document.ML	Mon Apr 07 13:06:34 2014 +0200
@@ -18,7 +18,7 @@
   type state
   val init_state: state
   val define_blob: string -> string -> state -> state
-  type blob_digest = (string * string option) Exn.result
+  type blob_digest = (string * string * string option) Exn.result
   val define_command: Document_ID.command -> string -> blob_digest list -> string ->
     state -> state
   val remove_versions: Document_ID.version list -> state -> state
@@ -219,7 +219,8 @@
 
 (** main state -- document structure and execution process **)
 
-type blob_digest = (string * string option) Exn.result;  (* file node name, raw digest*)
+type blob_digest =
+  (string * string * string option) Exn.result;  (* file node name, path, raw digest*)
 
 type execution =
  {version_id: Document_ID.version,  (*static version id*)
@@ -291,6 +292,10 @@
     NONE => error ("Undefined blob: " ^ digest)
   | SOME content => content);
 
+fun resolve_blob state (blob_digest: blob_digest) =
+  blob_digest |> Exn.map_result (fn (file, path, raw_digest) =>
+    (file, path, Option.map (the_blob state) raw_digest));
+
 
 (* commands *)
 
@@ -338,7 +343,7 @@
     val blobs' =
       (commands', Symtab.empty) |->
         Inttab.fold (fn (_, (_, blobs, _)) => blobs |>
-          fold (fn Exn.Res (_, SOME b) => Symtab.update (b, the_blob state b) | _ => I));
+          fold (fn Exn.Res (_, _, SOME b) => Symtab.update (b, the_blob state b) | _ => I));
 
   in (versions', blobs', commands', execution) end);
 
@@ -505,7 +510,7 @@
       val command_visible = visible_command node command_id';
       val command_overlays = overlays node command_id';
       val (command_name, blob_digests, span0) = the_command state command_id';
-      val blobs = (map o Exn.map_result o apsnd o Option.map) (the_blob state) blob_digests;
+      val blobs = map (resolve_blob state) blob_digests;
       val span = Lazy.force span0;
 
       val eval' =

--- a/src/Pure/PIDE/protocol.ML	Sun Apr 06 21:01:45 2014 +0200
+++ b/src/Pure/PIDE/protocol.ML	Mon Apr 07 13:06:34 2014 +0200
@@ -34,7 +34,7 @@
           YXML.parse_body blobs_yxml |>
             let open XML.Decode in
               list (variant
-               [fn ([], a) => Exn.Res (pair string (option string) a),
+               [fn ([], a) => Exn.Res (triple string string (option string) a),
                 fn ([], a) => Exn.Exn (ERROR (string a))])
             end;
       in

--- a/src/Pure/PIDE/protocol.scala	Sun Apr 06 21:01:45 2014 +0200
+++ b/src/Pure/PIDE/protocol.scala	Mon Apr 07 13:06:34 2014 +0200
@@ -352,7 +352,8 @@
       val encode_blob: T[Command.Blob] =
         variant(List(
           { case Exn.Res((a, b)) =>
-              (Nil, pair(string, option(string))((a.node, b.map(p => p._1.toString)))) },
+              (Nil, triple(string, string, option(string))(
+                (a.node, Isabelle_System.posix_path(a.node), b.map(p => p._1.toString)))) },
           { case Exn.Exn(e) => (Nil, string(Exn.message(e))) }))
       YXML.string_of_body(list(encode_blob)(command.blobs))
     }