From 8b66d99e73cf865758e54b9a28d2abc04e912465 Mon Sep 17 00:00:00 2001
From: DemonWav <demonwav@gmail.com>
Date: Fri, 1 Apr 2016 22:55:54 -0500
Subject: [PATCH] Cleanup and restructure the project

---
 .gitignore                                    | 17 +++--
 .gitmodules                                   | 22 +++---
 Paperclip                                     |  1 -
 build.sh                                      |  9 ---
 paperclip.sh                                  | 15 ----
 applyPatches.sh => scripts/applyPatches.sh    | 24 ++++---
 scripts/build.sh                              | 11 +++
 decompile.sh => scripts/decompile.sh          | 14 ++--
 scripts/envSetup.sh                           | 70 +++++++++++++++++++
 importmcdev.sh => scripts/importmcdev.sh      | 14 ++--
 init.sh => scripts/init.sh                    | 23 +++---
 makemcdevsrc.sh => scripts/makemcdevsrc.sh    | 16 ++---
 scripts/paperclip.sh                          | 17 +++++
 .../rebuildPatches.sh                         | 19 ++---
 remap.sh => scripts/remap.sh                  | 28 ++++----
 upstreamMerge.sh => scripts/upstreamMerge.sh  |  7 +-
 BuildData => work/BuildData                   |  0
 Bukkit => work/Bukkit                         |  0
 CraftBukkit => work/CraftBukkit               |  0
 work/Paperclip                                |  1 +
 Spigot => work/Spigot                         |  0
 21 files changed, 193 insertions(+), 115 deletions(-)
 delete mode 160000 Paperclip
 delete mode 100755 build.sh
 delete mode 100755 paperclip.sh
 rename applyPatches.sh => scripts/applyPatches.sh (78%)
 create mode 100755 scripts/build.sh
 rename decompile.sh => scripts/decompile.sh (60%)
 create mode 100644 scripts/envSetup.sh
 rename importmcdev.sh => scripts/importmcdev.sh (79%)
 rename init.sh => scripts/init.sh (57%)
 rename makemcdevsrc.sh => scripts/makemcdevsrc.sh (52%)
 create mode 100755 scripts/paperclip.sh
 rename rebuildPatches.sh => scripts/rebuildPatches.sh (65%)
 rename remap.sh => scripts/remap.sh (54%)
 rename upstreamMerge.sh => scripts/upstreamMerge.sh (66%)
 rename BuildData => work/BuildData (100%)
 rename Bukkit => work/Bukkit (100%)
 rename CraftBukkit => work/CraftBukkit (100%)
 create mode 160000 work/Paperclip
 rename Spigot => work/Spigot (100%)

diff --git a/.gitignore b/.gitignore
index 658890931..143c73b2a 100644
--- a/.gitignore
+++ b/.gitignore
@@ -22,7 +22,16 @@ build/
 bin/
 dist/
 manifest.mf
-work/
+
+work/1.*
+work/BuildData
+work/Bukkit
+work/CraftBukkit
+work/Paperclip
+work/Spigot
+work/Spigot-Server
+work/Spigot-API
+work/*.jar
 
 # Mac filesystem dust
 .DS_Store/
@@ -37,15 +46,11 @@ work/
 *~
 
 # other stuff
-Spigot-API
-Spigot-Server
+
 Paper-Server
 Paper-API
 PaperSpigot-Server
 PaperSpigot-API
-Bukkit
-CraftBukkit
-Paperclip
 Paperclip.jar
 paperclip.jar
 paperclip-*.jar
diff --git a/.gitmodules b/.gitmodules
index f8d5e238f..758536e06 100644
--- a/.gitmodules
+++ b/.gitmodules
@@ -1,15 +1,15 @@
-[submodule "Bukkit"]
-	path = Bukkit
+[submodule "work/Bukkit"]
+	path = work/Bukkit
 	url = https://hub.spigotmc.org/stash/scm/spigot/bukkit.git
-[submodule "CraftBukkit"]
-	path = CraftBukkit
+[submodule "work/CraftBukkit"]
+	path = work/CraftBukkit
 	url = https://hub.spigotmc.org/stash/scm/spigot/craftbukkit.git
-[submodule "BuildData"]
-	path = BuildData
+[submodule "work/BuildData"]
+	path = work/BuildData
 	url = https://hub.spigotmc.org/stash/scm/spigot/builddata.git
-[submodule "Paperclip"]
-	path = Paperclip
-	url = https://github.com/PaperMC/Paperclip.git
-[submodule "Spigot"]
-	path = Spigot
+[submodule "work/Spigot"]
+	path = work/Spigot
 	url = https://hub.spigotmc.org/stash/scm/spigot/spigot.git
+[submodule "work/Paperclip"]
+	path = work/Paperclip
+	url = https://github.com/PaperMC/Paperclip.git
diff --git a/Paperclip b/Paperclip
deleted file mode 160000
index 6bff72410..000000000
--- a/Paperclip
+++ /dev/null
@@ -1 +0,0 @@
-Subproject commit 6bff72410effad0b2b0b0d8471a477f42bd484ff
diff --git a/build.sh b/build.sh
deleted file mode 100755
index 00eb9131e..000000000
--- a/build.sh
+++ /dev/null
@@ -1,9 +0,0 @@
-#!/bin/bash
-
-(git submodule update --init && ./remap.sh && ./decompile.sh && ./init.sh && ./applyPatches.sh) || (
-	echo "Failed to build Paper"
-	exit 1
-) || exit 1
-if [ "$1" == "--jar" ]; then
-	(mvn clean install && ./paperclip.sh) || exit 1
-fi
diff --git a/paperclip.sh b/paperclip.sh
deleted file mode 100755
index fe255bfa9..000000000
--- a/paperclip.sh
+++ /dev/null
@@ -1,15 +0,0 @@
-#!/usr/bin/env bash
-basedir=`pwd`
-workdir=$basedir/work
-mcver=$(cat BuildData/info.json | grep minecraftVersion | cut -d '"' -f 4)
-
-cd ./Paperclip
-mvn clean package
-cd ..
-cp ./Paperclip/target/paperclip-${mcver}.jar ./paperclip.jar
-
-echo ""
-echo ""
-echo ""
-echo "Build success!"
-echo "Copied final jar to $(pwd)/paperclip.jar"
diff --git a/applyPatches.sh b/scripts/applyPatches.sh
similarity index 78%
rename from applyPatches.sh
rename to scripts/applyPatches.sh
index 62b82e5b2..3c4d3a2a2 100755
--- a/applyPatches.sh
+++ b/scripts/applyPatches.sh
@@ -1,12 +1,13 @@
-#!/bin/bash
+#!/usr/bin/env bash
 
 PS1="$"
-basedir=`pwd`
+basedir="$1"
+workdir="$basedir/work"
 echo "Rebuilding Forked projects.... "
 
 function applyPatch {
     what=$1
-    what_name=$(basename $what)
+    what_name=$(basename "$what")
     target=$2
     branch=$3
 
@@ -21,7 +22,7 @@ function applyPatch {
     cd "$basedir/$target"
     echo "Resetting $target to $what_name..."
     git remote rm upstream > /dev/null 2>&1
-    git remote add upstream $basedir/$what >/dev/null 2>&1
+    git remote add upstream "$basedir/$what" >/dev/null 2>&1
     git checkout master 2>/dev/null || git checkout -b master
     git fetch upstream >/dev/null 2>&1
     git reset --hard upstream/upstream
@@ -39,8 +40,8 @@ function applyPatch {
 }
 
 # Move into spigot dir
-pushd Spigot
-basedir=$basedir/Spigot
+cd "$workdir/Spigot"
+basedir=$(pwd)
 # Apply Spigot
 (
 	applyPatch ../Bukkit Spigot-API HEAD &&
@@ -50,17 +51,18 @@ basedir=$basedir/Spigot
 	exit 1
 ) || exit 1
 # Move out of Spigot
-popd
-basedir=$(dirname "$basedir")
+basedir="$1"
+cd "$basedir"
 
 echo "Importing MC Dev"
 
-./importmcdev.sh
+./scripts/importmcdev.sh "$basedir"
 
 # Apply paper
+cd "$basedir"
 (
-	applyPatch Spigot/Spigot-API Paper-API HEAD &&
-	applyPatch Spigot/Spigot-Server Paper-Server HEAD
+	applyPatch "work/Spigot/Spigot-API" Paper-API HEAD &&
+	applyPatch "work/Spigot/Spigot-Server" Paper-Server HEAD
 ) || (
 	echo "Failed to apply Paper Patches"
 	exit 1
diff --git a/scripts/build.sh b/scripts/build.sh
new file mode 100755
index 000000000..e5281754b
--- /dev/null
+++ b/scripts/build.sh
@@ -0,0 +1,11 @@
+#!/usr/bin/env bash
+
+basedir="$1"
+
+(git submodule update --init && ./scripts/remap.sh "$basedir" && ./scripts/decompile.sh "$basedir" && ./scripts/init.sh "$basedir" && ./scripts/applyPatches.sh "$basedir") || (
+	echo "Failed to build Paper"
+	exit 1
+) || exit 1
+if [ "$2" == "--jar" ]; then
+	(mvn clean install && ./scripts/paperclip.sh "$basedir") || exit 1
+fi
diff --git a/decompile.sh b/scripts/decompile.sh
similarity index 60%
rename from decompile.sh
rename to scripts/decompile.sh
index 81947e1c7..9dc969169 100755
--- a/decompile.sh
+++ b/scripts/decompile.sh
@@ -1,11 +1,11 @@
-#!/bin/bash
+#!/usr/bin/env bash
 
 PS1="$"
-basedir=`pwd`
-workdir=$basedir/work
-minecraftversion=$(cat BuildData/info.json | grep minecraftVersion | cut -d '"' -f 4)
-decompiledir=$workdir/$minecraftversion
-classdir=$decompiledir/classes
+basedir="$1"
+workdir="$basedir/work"
+minecraftversion=$(cat "$workdir/BuildData/info.json"  | grep minecraftVersion | cut -d '"' -f 4)
+decompiledir="$workdir/$minecraftversion"
+classdir="$decompiledir/classes"
 
 echo "Extracting NMS classes..."
 if [ ! -d "$classdir" ]; then
@@ -22,7 +22,7 @@ fi
 echo "Decompiling classes..."
 if [ ! -d "$decompiledir/net/minecraft/server" ]; then
     cd "$basedir"
-    java -jar BuildData/bin/fernflower.jar -dgs=1 -hdc=0 -asc=1 -udv=0 "$classdir" "$decompiledir"
+    java -jar "$workdir/BuildData/bin/fernflower.jar" -dgs=1 -hdc=0 -asc=1 -udv=0 "$classdir" "$decompiledir"
     if [ "$?" != "0" ]; then
         echo "Failed to decompile classes."
         exit 1
diff --git a/scripts/envSetup.sh b/scripts/envSetup.sh
new file mode 100644
index 000000000..b2cd3d61c
--- /dev/null
+++ b/scripts/envSetup.sh
@@ -0,0 +1,70 @@
+#!/usr/bin/env bash
+
+# Set root project directory
+CWD=$(pwd)
+
+rbp() {
+    NEW_CWD=$(pwd)
+    cd "$CWD"
+    scripts/rebuildPatches.sh "$CWD"
+    cd "$NEW_CWD"
+}
+
+rebuildPatches() {
+    rbp
+}
+
+lunch() {
+    NEW_CWD=$(pwd)
+    cd "$CWD"
+
+    if [[ "$1" = "jar" ]] || [[ "$1" = "--jar" ]] ; then
+        ARG="--jar"
+    fi
+
+    scripts/build.sh "$CWD" "$ARG"
+    ARG=""
+
+    cd "$NEW_CWD"
+}
+
+root() {
+    cd "$CWD"
+}
+
+LAST_EDIT=""
+
+edit() {
+    if [[ "$1" = "server" ]] ; then
+        cd "$CWD/Paper-Server"
+        LAST_EDIT=$(pwd)
+
+        stash
+        git rebase -i upstream/upstream
+        unstash
+    elif [[ "$1" = "api" ]] ; then
+        cd "$CWD/Paper-API"
+        LAST_EDIT=$(pwd)
+
+        stash
+        git rebase -i upstream/upstream
+        unstash
+    elif [[ "$1" = "continue" ]] ; then
+        cd "$LAST_EDIT"
+        git add .
+        git commit --amend
+        git rebase --continue
+    else
+        echo "You must edit either the api or server."
+    fi
+}
+
+stash() {
+    STASHED=$(git stash)
+}
+
+unstash() {
+    if [[ "$STASHED" != "No local changes to save" ]] ; then
+        git stash pop
+    fi
+}
\ No newline at end of file
diff --git a/importmcdev.sh b/scripts/importmcdev.sh
similarity index 79%
rename from importmcdev.sh
rename to scripts/importmcdev.sh
index 9900c11dc..829a5ea1a 100755
--- a/importmcdev.sh
+++ b/scripts/importmcdev.sh
@@ -3,17 +3,17 @@
 nms="net/minecraft/server"
 export MODLOG=""
 PS1="$"
-basedir=`pwd`
+basedir="$1"
 
-workdir=$basedir/work
-minecraftversion=$(cat BuildData/info.json | grep minecraftVersion | cut -d '"' -f 4)
-decompiledir=$workdir/$minecraftversion
+workdir="$basedir/work"
+minecraftversion=$(cat "$workdir/BuildData/info.json"  | grep minecraftVersion | cut -d '"' -f 4)
+decompiledir="$workdir/$minecraftversion"
 
 export importedmcdev=""
 function import {
 	export importedmcdev="$importedmcdev $1"
 	file="${1}.java"
-	target="$basedir/Spigot/Spigot-Server/src/main/java/$nms/$file"
+	target="$workdir/Spigot/Spigot-Server/src/main/java/$nms/$file"
 	base="$decompiledir/$nms/$file"
 
 	if [[ ! -f "$target" ]]; then
@@ -24,7 +24,7 @@ function import {
 }
 
 (
-	cd Spigot/Spigot-Server/
+	cd "$workdir/Spigot/Spigot-Server/"
 	lastlog=$(git log -1 --oneline)
 	if [[ "$lastlog" = *"mc-dev Imports"* ]]; then
 		git reset --hard HEAD^
@@ -60,7 +60,7 @@ import PersistentVillage
 import TileEntityEnderChest
 
 (
-	cd Spigot/Spigot-Server/
+	cd "$workdir/Spigot/Spigot-Server/"
 	git add src -A
 	echo -e "mc-dev Imports\n\n$MODLOG" | git commit src -F -
 )
diff --git a/init.sh b/scripts/init.sh
similarity index 57%
rename from init.sh
rename to scripts/init.sh
index 95dc3b37c..af9b1b903 100755
--- a/init.sh
+++ b/scripts/init.sh
@@ -1,32 +1,27 @@
-#!/bin/bash
+#!/usr/bin/env bash
 
 PS1="$"
-basedir=`pwd`
+basedir="$1"
 workdir="$basedir/work"
-minecraftversion=$(cat BuildData/info.json | grep minecraftVersion | cut -d '"' -f 4)
+minecraftversion=$(cat "$workdir/BuildData/info.json"  | grep minecraftVersion | cut -d '"' -f 4)
 decompiledir="$workdir/$minecraftversion"
 nms="$decompiledir/net/minecraft/server"
-cb=src/main/java/net/minecraft/server
-
-paperjar="Paper-Server/target/paper-${minecraftversion}.jar"
-vanillajar="work/${minecraftversion}/${minecraftversion}.jar"
-
-echo -e "mcver=${minecraftversion}\npaperjar=../${paperjar}\nvanillajar=../${vanillajar}\n" > paperclip.properties
+cb="src/main/java/net/minecraft/server"
 
 patch=$(which patch 2>/dev/null)
 if [ "x$patch" == "x" ]; then
-    patch=$basedir/hctap.exe
+    patch="$basedir/hctap.exe"
 fi
 
 echo "Applying CraftBukkit patches to NMS..."
-cd "$basedir/CraftBukkit"
+cd "$workdir/CraftBukkit"
 git checkout -B patched HEAD >/dev/null 2>&1
-rm -rf $cb
-mkdir -p $cb
+rm -rf "$cb"
+mkdir -p "$cb"
 for file in $(ls nms-patches)
 do
     patchFile="nms-patches/$file"
-    file="$(echo $file | cut -d. -f1).java"
+    file="$(echo "$file" | cut -d. -f1).java"
 
     echo "Patching $file < $patchFile"
     sed -i 's/\r//' "$nms/$file" > /dev/null
diff --git a/makemcdevsrc.sh b/scripts/makemcdevsrc.sh
similarity index 52%
rename from makemcdevsrc.sh
rename to scripts/makemcdevsrc.sh
index 375127b05..b5ea7daea 100755
--- a/makemcdevsrc.sh
+++ b/scripts/makemcdevsrc.sh
@@ -1,14 +1,14 @@
-#!/bin/bash
+#!/usr/bin/env bash
 
 PS1="$"
 
-workdir=work
-minecraftversion=$(cat BuildData/info.json | grep minecraftVersion | cut -d '"' -f 4)
-decompiledir=$workdir/$minecraftversion
-nms=$decompiledir/net/minecraft/server
-cb=src/main/java/net/minecraft/server
-papernms=Paper-Server/src/main/java/net/minecraft/server
-mcdevsrc=${decompiledir}/src/net/minecraft/server
+basedir="$1"
+workdir="$basedir/work"
+minecraftversion=$(cat "$basedir/BuildData/info.json"  | grep minecraftVersion | cut -d '"' -f 4)
+decompiledir="$workdir/$minecraftversion"
+nms="$decompiledir/net/minecraft/server"
+papernms="Paper-Server/src/main/java/net/minecraft/server"
+mcdevsrc="${decompiledir}/src/net/minecraft/server"
 rm -rf "${mcdevsrc}"
 mkdir -p "${mcdevsrc}"
 cp ${nms}/*.java "${mcdevsrc}/"
diff --git a/scripts/paperclip.sh b/scripts/paperclip.sh
new file mode 100755
index 000000000..9840f3c94
--- /dev/null
+++ b/scripts/paperclip.sh
@@ -0,0 +1,17 @@
+#!/usr/bin/env bash
+basedir="$1"
+workdir="$basedir/work"
+mcver=$(cat "$workdir/BuildData/info.json" | grep minecraftVersion | cut -d '"' -f 4)
+paperjar="../../Paper-Server/target/paper-$mcver.jar"
+vanillajar="../$mcver/$mcver.jar"
+
+cd "$workdir/Paperclip"
+mvn clean package "-Dmcver=$mcver" "-Dpaperjar=$paperjar" "-Dvanillajar=$vanillajar"
+cd ..
+cp "$workdir/Paperclip/target/paperclip-${mcver}.jar" "$basedir/paperclip.jar"
+
+echo ""
+echo ""
+echo ""
+echo "Build success!"
+echo "Copied final jar to $basedir/paperclip.jar"
diff --git a/rebuildPatches.sh b/scripts/rebuildPatches.sh
similarity index 65%
rename from rebuildPatches.sh
rename to scripts/rebuildPatches.sh
index 003269f6a..6416e42e8 100755
--- a/rebuildPatches.sh
+++ b/scripts/rebuildPatches.sh
@@ -1,7 +1,8 @@
-#!/bin/bash
+#!/usr/bin/env bash
 
 PS1="$"
-basedir=`pwd`
+basedir="$1"
+workdir="$basedir/work"
 echo "Rebuilding patch files from current fork state..."
 git config core.safecrlf false
 
@@ -9,8 +10,8 @@ function cleanupPatches {
     cd "$1"
     for patch in *.patch; do
         echo "$patch"
-        gitver=$(tail -n 2 $patch | grep -ve "^$" | tail -n 1)
-        diffs=$(git diff --staged $patch | grep -E "^(\+|\-)" | grep -Ev "(From [a-z0-9]{32,}|\-\-\- a|\+\+\+ b|.index)")
+        gitver=$(tail -n 2 "$patch" | grep -ve "^$" | tail -n 1)
+        diffs=$(git diff --staged "$patch" | grep -E "^(\+|\-)" | grep -Ev "(From [a-z0-9]{32,}|\-\-\- a|\+\+\+ b|.index)")
 
         testver=$(echo "$diffs" | tail -n 2 | grep -ve "^$" | tail -n 1 | grep "$gitver")
         if [ "x$testver" != "x" ]; then
@@ -18,15 +19,15 @@ function cleanupPatches {
         fi
 
         if [ "x$diffs" == "x" ] ; then
-            git reset HEAD $patch >/dev/null
-            git checkout -- $patch >/dev/null
+            git reset HEAD "$patch" >/dev/null
+            git checkout -- "$patch" >/dev/null
         fi
     done
 }
 
 function savePatches {
     what=$1
-    what_name=$(basename $what)
+    what_name=$(basename "$what")
     target=$2
     echo "Formatting patches for $what..."
 
@@ -42,5 +43,5 @@ function savePatches {
     echo "  Patches saved for $what to $what_name-Patches/"
 }
 
-savePatches Spigot/Spigot-API Paper-API
-savePatches Spigot/Spigot-Server Paper-Server
+savePatches "$workdir/Spigot/Spigot-API" "Paper-API"
+savePatches "$workdir/Spigot/Spigot-Server" "Paper-Server"
diff --git a/remap.sh b/scripts/remap.sh
similarity index 54%
rename from remap.sh
rename to scripts/remap.sh
index 3bd79f3ba..abfde02e6 100755
--- a/remap.sh
+++ b/scripts/remap.sh
@@ -1,15 +1,15 @@
-#!/bin/bash
+#!/usr/bin/env bash
 
 PS1="$"
-basedir=`pwd`
-workdir=$basedir/work
-minecraftversion=$(cat BuildData/info.json | grep minecraftVersion | cut -d '"' -f 4)
-minecrafthash=$(cat BuildData/info.json | grep minecraftHash | cut -d '"' -f 4)
-accesstransforms=BuildData/mappings/$(cat BuildData/info.json | grep accessTransforms | cut -d '"' -f 4)
-classmappings=BuildData/mappings/$(cat BuildData/info.json | grep classMappings | cut -d '"' -f 4)
-membermappings=BuildData/mappings/$(cat BuildData/info.json | grep memberMappings | cut -d '"' -f 4)
-packagemappings=BuildData/mappings/$(cat BuildData/info.json | grep packageMappings | cut -d '"' -f 4)
-jarpath=$workdir/$minecraftversion/$minecraftversion
+basedir="$1"
+workdir="$basedir/work"
+minecraftversion=$(cat ${workdir}/BuildData/info.json | grep minecraftVersion | cut -d '"' -f 4)
+minecrafthash=$(cat ${workdir}/BuildData/info.json | grep minecraftHash | cut -d '"' -f 4)
+accesstransforms="$workdir/BuildData/mappings/"$(cat ${workdir}/BuildData/info.json | grep accessTransforms | cut -d '"' -f 4)
+classmappings="$workdir/BuildData/mappings/"$(cat ${workdir}/BuildData/info.json | grep classMappings | cut -d '"' -f 4)
+membermappings="$workdir/BuildData/mappings/"$(cat ${workdir}/BuildData/info.json | grep memberMappings | cut -d '"' -f 4)
+packagemappings="$workdir/BuildData/mappings/"$(cat ${workdir}/BuildData/info.json | grep packageMappings | cut -d '"' -f 4)
+jarpath="$workdir/$minecraftversion/$minecraftversion"
 
 echo "Downloading unmapped vanilla jar..."
 if [ ! -f  "$jarpath.jar" ]; then
@@ -36,7 +36,7 @@ fi
 
 echo "Applying class mappings..."
 if [ ! -f "$jarpath-cl.jar" ]; then
-    java -jar BuildData/bin/SpecialSource-2.jar map -i "$jarpath.jar" -m "$classmappings" -o "$jarpath-cl.jar" 1>/dev/null
+    java -jar "$workdir/BuildData/bin/SpecialSource-2.jar" map -i "$jarpath.jar" -m "$classmappings" -o "$jarpath-cl.jar" 1>/dev/null
     if [ "$?" != "0" ]; then
         echo "Failed to apply class mappings."
         exit 1
@@ -45,7 +45,7 @@ fi
 
 echo "Applying member mappings..."
 if [ ! -f "$jarpath-m.jar" ]; then
-    java -jar BuildData/bin/SpecialSource-2.jar map -i "$jarpath-cl.jar" -m "$membermappings" -o "$jarpath-m.jar" 1>/dev/null
+    java -jar "$workdir/BuildData/bin/SpecialSource-2.jar" map -i "$jarpath-cl.jar" -m "$membermappings" -o "$jarpath-m.jar" 1>/dev/null
     if [ "$?" != "0" ]; then
         echo "Failed to apply member mappings."
         exit 1
@@ -54,7 +54,7 @@ fi
 
 echo "Creating remapped jar..."
 if [ ! -f "$jarpath-mapped.jar" ]; then
-    java -jar BuildData/bin/SpecialSource.jar --kill-lvt -i "$jarpath-m.jar" --access-transformer "$accesstransforms" -m "$packagemappings" -o "$jarpath-mapped.jar" 1>/dev/null
+    java -jar "$workdir/BuildData/bin/SpecialSource.jar" --kill-lvt -i "$jarpath-m.jar" --access-transformer "$accesstransforms" -m "$packagemappings" -o "$jarpath-mapped.jar" 1>/dev/null
     if [ "$?" != "0" ]; then
         echo "Failed to create remapped jar."
         exit 1
@@ -62,7 +62,7 @@ if [ ! -f "$jarpath-mapped.jar" ]; then
 fi
 
 echo "Installing remapped jar..."
-cd CraftBukkit # Need to be in a directory with a valid POM at the time of install.
+cd "$workdir/CraftBukkit" # Need to be in a directory with a valid POM at the time of install.
 mvn install:install-file -q -Dfile="$jarpath-mapped.jar" -Dpackaging=jar -DgroupId=org.spigotmc -DartifactId=minecraft-server -Dversion="$minecraftversion-SNAPSHOT"
 if [ "$?" != "0" ]; then
     echo "Failed to install remapped jar."
diff --git a/upstreamMerge.sh b/scripts/upstreamMerge.sh
similarity index 66%
rename from upstreamMerge.sh
rename to scripts/upstreamMerge.sh
index c3d5db20a..16dfaf48d 100755
--- a/upstreamMerge.sh
+++ b/scripts/upstreamMerge.sh
@@ -1,10 +1,11 @@
-#!/bin/bash
+#!/usr/bin/env bash
 
 PS1="$"
-basedir=`pwd`
+basedir="$1"
+workdir="$basedir/work"
 
 function update {
-    cd "$basedir/$1"
+    cd "$workdir/$1"
     git fetch && git reset --hard origin/master
     cd ../
     git add $1
diff --git a/BuildData b/work/BuildData
similarity index 100%
rename from BuildData
rename to work/BuildData
diff --git a/Bukkit b/work/Bukkit
similarity index 100%
rename from Bukkit
rename to work/Bukkit
diff --git a/CraftBukkit b/work/CraftBukkit
similarity index 100%
rename from CraftBukkit
rename to work/CraftBukkit
diff --git a/work/Paperclip b/work/Paperclip
new file mode 160000
index 000000000..1fb6fefbe
--- /dev/null
+++ b/work/Paperclip
@@ -0,0 +1 @@
+Subproject commit 1fb6fefbe36461552cd263092d7700a57bb1f7c3
diff --git a/Spigot b/work/Spigot
similarity index 100%
rename from Spigot
rename to work/Spigot