The Debian packaging of cider is maintained in git, using the merging workflow
described in dgit-maint-merge(7).  There isn't a patch queue that can be
represented as a quilt series.

A detailed breakdown of the changes is available from their canonical
representation - git commits in the packaging repository.  For example, to see
the changes made by the Debian maintainer in the first upload of upstream
version 1.2.3, you could use:

    % git clone https://git.dgit.debian.org/cider
    % cd cider
    % git log --oneline 1.2.3..debian/1.2.3-1 -- . ':!debian'

(If you have dgit, use `dgit clone cider`, rather than plain `git clone`.)

A single combined diff, containing all the changes, follows.
--- cider-0.16.0+dfsg.orig/cider-repl.el
+++ cider-0.16.0+dfsg/cider-repl.el
@@ -336,7 +336,9 @@ client process connection.  Unless NO-BA
   (substitute-command-keys
    "\n;; ======================================================================
 ;; If you're new to CIDER it is highly recommended to go through its
-;; manual first. Type <M-x cider-view-manual> to view it.
+;; manual first. Install the cider-doc apt package and then type
+;; <M-x cider-view-manual> to view it.
+;; You should also read /usr/share/doc/elpa-cider/README.Debian
 ;; In case you're seeing any warnings you should consult the manual's
 ;; \"Troubleshooting\" section.
 ;;
--- cider-0.16.0+dfsg.orig/cider-util.el
+++ cider-0.16.0+dfsg/cider-util.el
@@ -399,7 +399,7 @@ plugin or dependency with:
 
 (defvar cider-version)
 
-(defconst cider-manual-url "http://cider.readthedocs.org/en/%s/"
+(defconst cider-manual-url "file:///usr/share/doc/elpa-cider/html/index.html"
   "The URL to CIDER's manual.")
 
 (defun cider--manual-version ()
@@ -410,7 +410,7 @@ plugin or dependency with:
 
 (defun cider-manual-url ()
   "The CIDER manual's url."
-  (format cider-manual-url (cider--manual-version)))
+  cider-manual-url)
 
 ;;;###autoload
 (defun cider-view-manual ()
--- cider-0.16.0+dfsg.orig/cider.el
+++ cider-0.16.0+dfsg/cider.el
@@ -230,7 +230,7 @@ This variable is used by `cider-connect'
   :type 'boolean
   :package-version '(cider . "0.9.0"))
 
-(defcustom cider-inject-dependencies-at-jack-in t
+(defcustom cider-inject-dependencies-at-jack-in nil
   "When nil, do not inject repl dependencies (most likely nREPL middlewares) at `cider-jack-in' time."
   :type 'boolean
   :safe #'stringp
--- cider-0.16.0+dfsg.orig/doc/about/contributing.md
+++ cider-0.16.0+dfsg/doc/about/contributing.md
@@ -71,7 +71,7 @@ You can support the development of CIDER
 [Patreon](https://www.patreon.com/bbatsov),
 [Liberapay](https://liberapay.com/bbatsov/donate) and PayPal.
 
-[![Paypal](https://www.paypalobjects.com/en_US/i/btn/btn_donate_SM.gif)](https://www.paypal.com/cgi-bin/webscr?cmd=_s-xclick&hosted_button_id=GRQKNBM6P8VRQ)
+[Paypal](https://www.paypal.com/cgi-bin/webscr?cmd=_s-xclick&hosted_button_id=GRQKNBM6P8VRQ)
 
 ### Open Collective
 
--- cider-0.16.0+dfsg.orig/doc/index.md
+++ cider-0.16.0+dfsg/doc/index.md
@@ -1,7 +1,3 @@
-<p align="center">
-  <img src="https://raw.github.com/clojure-emacs/cider/master/logo/cider-logo-w640.png" alt="CIDER Logo"/>
-</p>
-
 CIDER is the **C**lojure(Script) **I**nteractive **D**evelopment **E**nvironment
 that **R**ocks!
 
--- cider-0.16.0+dfsg.orig/doc/installation.md
+++ cider-0.16.0+dfsg/doc/installation.md
@@ -1,120 +1,3 @@
-The canonical way to install CIDER is via `package.el` (Emacs's built-in package
-manager), but it can be installed manually or via alternative package managers such
-as `el-get`.
-
-## Prerequisites
-
-You'll need to have Emacs installed (preferably the latest stable
-release). If you're new to Emacs you might want to go through
-[the guided tour of Emacs](https://www.gnu.org/software/emacs/tour/index.html)
-and the built-in tutorial (just press <kbd>C-h t</kbd>).
-
-CIDER officially supports Emacs 24.4+, Java 7+ and Clojure(Script) 1.7+.
-CIDER 0.10 was the final release which supported Java 6 and Clojure 1.5 and 1.6.
-
-You'll also need a recent version of your favorite build tool (Leiningen, Boot
-or Gradle) to be able to start CIDER via `cider-jack-in`. Generally it's a good
-idea to use their latest stable versions.
-
-**CIDER does not support ClojureCLR.**
-
-## Installation via package.el
-
-CIDER is available on the two major `package.el` community
-maintained repos -
-[MELPA Stable](http://stable.melpa.org)
-and [MELPA](http://melpa.org).
-
-You can install CIDER with the following command:
-
-<kbd>M-x package-install [RET] cider [RET]</kbd>
-
-or by adding this bit of Emacs Lisp code to your Emacs initialization file
-(`.emacs` or `init.el`):
-
-```el
-(unless (package-installed-p 'cider)
-  (package-install 'cider))
-```
-
-If the installation doesn't work try refreshing the package list:
-
-<kbd>M-x package-refresh-contents [RET]</kbd>
-
-Keep in mind that MELPA packages are built automatically from
-the `master` branch, meaning bugs might creep in there from time to
-time. Never-the-less, installing from MELPA is a reasonable way of
-obtaining CIDER, as the `master` branch is normally quite stable
-and serious regressions there are usually fixed pretty quickly.
-
-Generally, users of the non-adventurous kind are advised to stick
-with the stable releases, available from MELPA Stable.
-In Emacs 24.4+, you can pin CIDER to always use MELPA
-Stable by adding this to your Emacs initialization:
-
-```el
-(add-to-list 'package-pinned-packages '(cider . "melpa-stable") t)
-```
-
-**CIDER has dependencies (e.g. `queue` & `seq`) that are only available in the
-  [GNU ELPA repository](https://elpa.gnu.org/). It's the only package repository
-  enabled by default in Emacs and you should not disable it!**
-
-## Installation via use-package
-
-`use-package` can be used to install CIDER via the `package.el`'s repositories
-[MELPA Stable](http://stable.melpa.org) and [MELPA](http://melpa.org).
-
-If you wanted to install the version of CIDER which is what is to be found in
-the `master` branch, declare the following in your Emacs initialization file
-(`.emacs` or `init.el`):
-
-```el
-(use-package cider
-  :ensure t)
-```
-
-However, if you wanted to be a bit more conservative and only use the stable
-releases of CIDER, you'd declare the following:
-
-```el
-(use-package cider
-  :ensure t
-  :pin melpa-stable)
-```
-
-After placing one of the above s-expressions, evaluate it, for it to take effect
-by entering: <kbd>C-x C-e</kbd>.
-
-For further configuration options with `use-package`, consult the
-official [use-package repository](https://github.com/jwiegley/use-package).
-
-
-## Installation via el-get
-
-CIDER is also available for installation from
-the [el-get](https://github.com/dimitri/el-get) package manager.
-
-Provided you've already installed `el-get` you can install CIDER with the
-following command:
-
-<kbd>M-x el-get-install [RET] cider [RET]</kbd>
-
-## Manual installation
-
-Alternatively you can simply load CIDER in your Emacs straight from its source
-repo. Assuming you've already obtained the code you should add something like
-this to your Emacs configuration:
-
-```el
-;; load CIDER from its source code
-(add-to-list 'load-path "~/projects/cider")
-(require 'cider)
-```
-
-Just keep in mind that you'll have to manually install all the packages CIDER
-depends on in advance.
-
 ## CIDER's nREPL middleware
 
 Much of CIDER's functionality depends on the presence of CIDER's
--- cider-0.16.0+dfsg.orig/mkdocs.yml
+++ cider-0.16.0+dfsg/mkdocs.yml
@@ -1,6 +1,6 @@
 site_name: "CIDER: The Clojure Interactive Development Environment that Rocks"
 repo_url: https://github.com/clojure-emacs/cider
-site_favicon: favicon.ico
+site_dir: html
 copyright: "Copyright (C) 2016-2017 Bozhidar Batsov, Artur Malabarba and CIDER contributors"
 docs_dir: doc
 pages:
@@ -33,4 +33,5 @@ pages:
     - License: about/license.md
 extra_css:
   - css/extra.css
-theme: readthedocs
+theme_dir: /usr/share/mkdocs/themes/mkdocs_bootstrap
+use_directory_urls: false
--- cider-0.16.0+dfsg.orig/test/cider-util-tests.el
+++ cider-0.16.0+dfsg/test/cider-util-tests.el
@@ -180,15 +180,15 @@
     (expect (cider--deep-vector-to-list '[bug]) :to-equal '(bug))
     (expect (cider--deep-vector-to-list '(bug)) :to-equal '(bug))))
 
-(describe "cider-manual-url"
-  :var (cider-version)
-  (it "returns the manual correct url for stable cider versions"
-    (setq cider-version "0.11.0")
-    (expect (cider-manual-url) :to-equal "http://cider.readthedocs.org/en/stable/"))
+;; (describe "cider-manual-url"
+;;   :var (cider-version)
+;;   (it "returns the manual correct url for stable cider versions"
+;;     (setq cider-version "0.11.0")
+;;     (expect (cider-manual-url) :to-equal "http://cider.readthedocs.org/en/stable/"))
 
-  (it "returns the manual correct url for snapshot cider versions"
-    (setq cider-version "0.11.0-snapshot")
-    (expect (cider-manual-url) :to-equal "http://cider.readthedocs.org/en/latest/")))
+;;   (it "returns the manual correct url for snapshot cider versions"
+;;     (setq cider-version "0.11.0-snapshot")
+;;     (expect (cider-manual-url) :to-equal "http://cider.readthedocs.org/en/latest/")))
 
 (describe "cider-refcard-url"
   :var (cider-version)
