Update TOC

README.md

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 ## Table of Contents
 
-1. [Introduction](#introduction)
-2. [SlowKey Key Derivation Scheme](#slowkey-key-derivation-scheme)
-   - [Definitions](#definitions)
-   - [Input](#input)
-   - [Output](#output)
-   - [Scheme](#scheme)
-3. [Usage](#usage)
-   - [General](#general)
-   - [Deriving](#deriving)
-   - [Restoring from a Checkpoint](#restoring-from-a-checkpoint)
-   - [Running Benchmarks](#running-benchmarks)
-   - [Running Stability Tests](#running-stability-tests)
-4. [Build](#build)
-   - [Mac OS ARM64](#mac-os-arm64)
-   - [Linux x64](#linux-x64)
-5. [Examples](#examples)
-   - [Checkpoints](#checkpoints)
-   - [Outputs](#outputs)
-6. [Benchmarks](#benchmarks)
-7. [Stability Tests](#stability-tests)
-8. [Sanity Mode](#sanity-mode)
-9. [License](#license)
+- [Introduction](#introduction)
+- [SlowKey Key Derivation Scheme](#slowkey-key-derivation-scheme)
+  - [Definitions](#definitions)
+  - [Input](#input)
+  - [Output](#output)
+  - [Scheme](#scheme)
+- [Usage](#usage)
+  - [General](#general)
+  - [Deriving](#deriving)
+  - [Checkpoints](#checkpoints)
+    - [Showing a Checkpoint](#showing-a-checkpoint)
+    - [Restoring from a Checkpoint](#restoring-from-a-checkpoint)
+    - [Reencrypting a Checkpoint](#reencrypting-a-checkpoint)
+  - [Outputs](#outputs)
+    - [Showing an Output](#showing-an-output)
+    - [Reencrypting an Output](#reencrypting-an-output)
+  - [Running Benchmarks](#running-benchmarks)
+  - [Running Stability Tests](#running-stability-tests)
+- [Build](#build)
+  - [Mac OS ARM64](#mac-os-arm64)
+  - [Linux x64](#linux-x64)
+- [Examples](#examples)
+  - [Checkpoint Operations](#checkpoint-operations)
+  - [Output Commands](#output-commands)
+- [Benchmarks](#benchmarks)
+- [Stability Tests](#stability-tests)
+- [Sanity Mode](#sanity-mode)
+- [License](#license)
 
 ## Introduction