Include git-receive-pack, git-upload-pack, and git wrappers in the Linux standalone build, and OSX app, so they will be available when it's added to PATH.

standalone/linux/skel/README

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+You can put this directory into your PATH, or symlink the programs in this
+directory to anyplace already in your PATH, and use git-annex the same
+as if you'd installed it using a package manager.
+
+Or, you can use the runshell script in this directory to start a shell
+that is configured to use git-annex and the other utilities included in
+this bundle, including git, gpg, rsync, ssh, etc.
+
+This should work on any Linux system of the appropriate architecture.
+More or less.
+
+
+How it works: This directory tree contains a lot of libraries and programs
+that git-annex needs. But it's not a chroot. Instead, runshell sets a lot
+of environment variables to cause files from here to be used, and a shim
+around the binaries arranges for them to be run with the libraries in here.
+
+It shouldn't even be dependent on the host system's glibc libraries.
+All that's needed is a kernel that supports the glibc included in this
+bundle.

standalone/linux/skel/git

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+#!/bin/sh
+link="$(readlink "$0")" || true
+if [ -n "$link" ]; then
+	base="$(dirname "$link")"
+else
+	base="$(dirname "$0")"
+fi
+
+if [ ! -d "$base" ]; then
+	echo "** cannot find base directory (I seem to be $0)" >&2
+	exit 1
+fi
+if [ ! -e "$base/runshell" ]; then
+	echo "** cannot find $base/runshell" >&2
+	exit 1
+fi
+
+# Get absolute path to base, to avoid breakage when things change directories.
+orig="$(pwd)"
+cd "$base"
+base="$(pwd)"
+cd "$orig"
+
+# If this is a standalone app, set a variable that git-annex can use to
+# install itself.
+if [ -e "$base/bin/git-annex" ]; then
+	GIT_ANNEX_APP_BASE="$base"
+	export GIT_ANNEX_APP_BASE
+fi
+
+exec "$base/runshell" git "$@"

standalone/linux/skel/git-annex

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+#!/bin/sh
+link="$(readlink "$0")" || true
+if [ -n "$link" ]; then
+	base="$(dirname "$link")"
+else
+	base="$(dirname "$0")"
+fi
+
+if [ ! -d "$base" ]; then
+	echo "** cannot find base directory (I seem to be $0)" >&2
+	exit 1
+fi
+if [ ! -e "$base/runshell" ]; then
+	echo "** cannot find $base/runshell" >&2
+	exit 1
+fi
+
+# Get absolute path to base, to avoid breakage when things change directories.
+orig="$(pwd)"
+cd "$base"
+base="$(pwd)"
+cd "$orig"
+
+# If this is a standalone app, set a variable that git-annex can use to
+# install itself.
+if [ -e "$base/bin/git-annex" ]; then
+	GIT_ANNEX_APP_BASE="$base"
+	export GIT_ANNEX_APP_BASE
+fi
+
+exec "$base/runshell" git-annex "$@"

standalone/linux/skel/git-annex-shell

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+#!/bin/sh
+link="$(readlink "$0")" || true
+if [ -n "$link" ]; then
+	base="$(dirname "$link")"
+else
+	base="$(dirname "$0")"
+fi
+
+if [ ! -d "$base" ]; then
+	echo "** cannot find base directory (I seem to be $0)" >&2
+	exit 1
+fi
+if [ ! -e "$base/runshell" ]; then
+	echo "** cannot find $base/runshell" >&2
+	exit 1
+fi
+
+# Get absolute path to base, to avoid breakage when things change directories.
+orig="$(pwd)"
+cd "$base"
+base="$(pwd)"
+cd "$orig"
+
+# If this is a standalone app, set a variable that git-annex can use to
+# install itself.
+if [ -e "$base/bin/git-annex" ]; then
+	GIT_ANNEX_APP_BASE="$base"
+	export GIT_ANNEX_APP_BASE
+fi
+
+exec "$base/runshell" git-annex-shell "$@"

standalone/linux/skel/git-annex-webapp

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+#!/bin/sh
+link="$(readlink "$0")" || true
+if [ -n "$link" ]; then
+	base="$(dirname "$link")"
+else
+	base="$(dirname "$0")"
+fi
+
+if [ ! -d "$base" ]; then
+	echo "** cannot find base directory (I seem to be $0)" >&2
+	exit 1
+fi
+if [ ! -e "$base/runshell" ]; then
+	echo "** cannot find $base/runshell" >&2
+	exit 1
+fi
+
+# Get absolute path to base, to avoid breakage when things change directories.
+orig="$(pwd)"
+cd "$base"
+base="$(pwd)"
+cd "$orig"
+
+# If this is a standalone app, set a variable that git-annex can use to
+# install itself.
+if [ -e "$base/bin/git-annex" ]; then
+	GIT_ANNEX_APP_BASE="$base"
+	export GIT_ANNEX_APP_BASE
+fi
+
+exec "$base/runshell" git-annex webapp "$@"

standalone/linux/skel/git-receive-pack

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+#!/bin/sh
+link="$(readlink "$0")" || true
+if [ -n "$link" ]; then
+	base="$(dirname "$link")"
+else
+	base="$(dirname "$0")"
+fi
+
+if [ ! -d "$base" ]; then
+	echo "** cannot find base directory (I seem to be $0)" >&2
+	exit 1
+fi
+if [ ! -e "$base/runshell" ]; then
+	echo "** cannot find $base/runshell" >&2
+	exit 1
+fi
+
+# Get absolute path to base, to avoid breakage when things change directories.
+orig="$(pwd)"
+cd "$base"
+base="$(pwd)"
+cd "$orig"
+
+# If this is a standalone app, set a variable that git-annex can use to
+# install itself.
+if [ -e "$base/bin/git-annex" ]; then
+	GIT_ANNEX_APP_BASE="$base"
+	export GIT_ANNEX_APP_BASE
+fi
+
+exec "$base/runshell" git-receive-pack "$@"

standalone/linux/skel/git-upload-pack

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+#!/bin/sh
+link="$(readlink "$0")" || true
+if [ -n "$link" ]; then
+	base="$(dirname "$link")"
+else
+	base="$(dirname "$0")"
+fi
+
+if [ ! -d "$base" ]; then
+	echo "** cannot find base directory (I seem to be $0)" >&2
+	exit 1
+fi
+if [ ! -e "$base/runshell" ]; then
+	echo "** cannot find $base/runshell" >&2
+	exit 1
+fi
+
+# Get absolute path to base, to avoid breakage when things change directories.
+orig="$(pwd)"
+cd "$base"
+base="$(pwd)"
+cd "$orig"
+
+# If this is a standalone app, set a variable that git-annex can use to
+# install itself.
+if [ -e "$base/bin/git-annex" ]; then
+	GIT_ANNEX_APP_BASE="$base"
+	export GIT_ANNEX_APP_BASE
+fi
+
+exec "$base/runshell" git-upload-pack "$@"

standalone/linux/skel/runshell

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+#!/bin/sh
+# Runs a shell command (or interactive shell) using the binaries and
+# libraries bundled with this app.
+
+set -e
+
+base="$(dirname "$0")"
+
+if [ ! -d "$base" ]; then
+	echo "** cannot find base directory (I seem to be $0)" >&2
+	exit 1
+fi
+
+if [ ! -e "$base/bin/git-annex" ]; then
+	echo "** base directory $base does not contain bin/git-annex" >&2
+	exit 1
+fi
+if [ ! -e "$base/bin/git" ]; then
+	echo "** base directory $base does not contain bin/git" >&2
+	exit 1
+fi
+
+# Get absolute path to base, to avoid breakage when things change directories.
+orig="$(pwd)"
+cd "$base"
+base="$(pwd)"
+cd "$orig"
+
+# Install shim that's used to run git-annex-shell from ssh authorized_keys.
+# The assistant also does this when run, but the user may not be using the
+# assistant.
+if [ ! -e "$HOME/.ssh/git-annex-shell" ]; then
+	mkdir "$HOME/.ssh" >/dev/null 2>&1 || true
+	(
+		echo "#!/bin/sh"
+		echo "set -e"
+		echo "exec $base/runshell git-annex-shell -c \"\$SSH_ORIGINAL_COMMAND\""
+	) > "$HOME/.ssh/git-annex-shell"
+	chmod +x "$HOME/.ssh/git-annex-shell"
+fi
+
+# Put our binaries first, to avoid issues with out of date or incompatable
+# system binaries.
+ORIG_PATH="$PATH"
+export ORIG_PATH
+PATH=$base/bin:$PATH
+export PATH
+
+# This is used by the shim wrapper around each binary.
+for lib in $(cat $base/libdirs); do
+	GIT_ANNEX_LD_LIBRARY_PATH="$base/$lib:$GIT_ANNEX_LD_LIBRARY_PATH"
+done
+export GIT_ANNEX_LD_LIBRARY_PATH
+GIT_ANNEX_LINKER="$base/$(cat $base/linker)"
+export GIT_ANNEX_LINKER
+GIT_ANNEX_SHIMMED="$base/shimmed"
+export GIT_ANNEX_SHIMMED
+
+ORIG_GCONV_PATH="$GCONV_PATH"
+export ORIG_GCONV_PATH
+GCONV_PATH=$base/$(cat $base/gconvdir)
+export GCONV_PATH
+
+ORIG_GIT_EXEC_PATH="$GIT_EXEC_PATH"
+export ORIG_GIT_EXEC_PATH
+GIT_EXEC_PATH=$base/git-core
+export GIT_EXEC_PATH
+
+ORIG_GIT_TEMPLATE_DIR="$GIT_TEMPLATE_DIR"
+export ORIG_GIT_TEMPLATE_DIR
+GIT_TEMPLATE_DIR="$base/templates"
+export GIT_TEMPLATE_DIR
+
+ORIG_MANPATH="$MANPATH"
+export ORIG_MANPATH
+MANPATH="$base/usr/share/man:$MANPATH"
+export MANPATH
+
+# Indicate which variables were exported above and should be cleaned
+# when running non-bundled programs.
+GIT_ANNEX_STANDLONE_ENV="PATH GCONV_PATH GIT_EXEC_PATH GIT_TEMPLATE_DIR MANPATH"
+export GIT_ANNEX_STANDLONE_ENV
+
+if [ "$1" ]; then
+	cmd="$1"
+	shift 1
+	exec "$cmd" "$@"
+else
+	sh
+fi