Handle org-mode documents passed as args.

We were running into issues where the documents grew too large for being passed as a string to emacs, and we need to handle #+setupfile so we need to start handling org-mode documents as files and not just as anonymous streams of text.

The anonymous stream of text handling will remain because the automated tests use it.

scripts/callgrind.bash

@@ -7,7 +7,7 @@ DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
 cd "$DIR/../"
 
 RUSTFLAGS="-C opt-level=0" cargo build --no-default-features
-valgrind --tool=callgrind --callgrind-out-file=callgrind.out target/debug/compare
+valgrind --tool=callgrind --callgrind-out-file=callgrind.out target/debug/parse
 
 echo "You probably want to run:"
 echo "callgrind_annotate --auto=yes callgrind.out"

scripts/perf.bash

@@ -16,7 +16,7 @@ function main {
         additional_flags+=(--profile "$PROFILE")
     fi
     cargo build --no-default-features "${additional_flags[@]}"
-    perf record --freq=2000 --call-graph dwarf --output=perf.data target/${PROFILE}/compare
+    perf record --freq=2000 --call-graph dwarf --output=perf.data target/${PROFILE}/parse
 
     # Convert to a format firefox will read
     # flags to consider --show-info

scripts/time_parse.bash

@@ -17,7 +17,7 @@ function main {
         additional_flags+=(--profile "$PROFILE")
     fi
     cargo build --no-default-features "${additional_flags[@]}"
-    time ./target/${PROFILE}/compare
+    time ./target/${PROFILE}/parse
 }
 
 main "${@}"