Add mongodb.

This package was rejected upstream because it contains the sources of libraries that
are also available as shared libraries.

gn/packages/mongodb.scm

@@ -0,0 +1,74 @@
+;;; GNU Guix --- Functional package management for GNU
+;;; Copyright © 2016 Roel Janssen <roel@gnu.org>
+;;;
+;;; This file is part of GNU Guix.
+;;;
+;;; GNU Guix is free software; you can redistribute it and/or modify it
+;;; under the terms of the GNU General Public License as published by
+;;; the Free Software Foundation; either version 3 of the License, or (at
+;;; your option) any later version.
+;;;
+;;; GNU Guix is distributed in the hope that it will be useful, but
+;;; WITHOUT ANY WARRANTY; without even the implied warranty of
+;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;;; GNU General Public License for more details.
+;;;
+;;; You should have received a copy of the GNU General Public License
+;;; along with GNU Guix.  If not, see <http://www.gnu.org/licenses/>.
+
+(define-module (gn packages bioinformatics)
+  #:use-module ((guix licenses) #:prefix license:)
+  #:use-module (guix packages)
+  #:use-module (guix utils)
+  #:use-module (guix download)
+  #:use-module (guix build-system gnu)
+  #:use-module (gnu packages)
+  #:use-module (gnu packages perl)
+  #:use-module (gnu packages pkg-config)
+  #:use-module (gnu packages python))
+
+(define-public mongodb
+  (package
+    (name "mongodb")
+    (version "3.3.3")
+    (source (origin
+              (method url-fetch)
+              (uri (string-append "https://github.com/mongodb/mongo/archive/r"
+                                  version ".tar.gz"))
+              (file-name (string-append name "-" version ".tar.gz"))
+              (sha256
+               (base32 "01v16j8xbry7m7apwlhiqhgx3zyyk2kadyk2sr9m6k20wnh5j24y"))
+              (patches (list (search-patch "mongodb-add-version-file.patch")))))
+    (build-system gnu-build-system)
+    (native-inputs
+     `(("scons" ,scons)
+       ("python" ,python-2)
+       ("perl" ,perl)))
+    (arguments
+     `(#:tests? #f ; There is no 'check' target.
+       #:phases
+       (modify-phases %standard-phases
+         (delete 'configure) ; There is no configure phase
+         (add-after 'unpack 'scons-propagate-environment
+           (lambda _
+             ;; Modify the SConstruct file to arrange for
+             ;; environment variables to be propagated.
+             (substitute* "SConstruct"
+               (("^env = Environment\\(")
+                "env = Environment(ENV=os.environ, "))))
+         (replace 'build
+           (lambda _
+             (zero? (system* "scons" "mongod" "mongo" "mongos"))))
+         (replace 'install
+           (lambda _
+             (let ((bin  (string-append (assoc-ref %outputs "out") "/bin")))
+               (install-file "mongod" bin)
+               (install-file "mongos" bin)
+               (install-file "mongo" bin)))))))
+    (home-page "https://www.mongodb.org/")
+    (synopsis "High performance and high availability document database")
+    (description "Mongo is a high-performance, high availability,
+schema-free document-oriented database.  A key goal of MongoDB is to bridge
+the gap between key/value stores (which are fast and highly scalable) and
+traditional RDBMS systems (which are deep in functionality).")
+    (license (list agpl3 asl2.0))))

mongodb-add-version-file.patch

@@ -0,0 +1,10 @@
+This patch is used to replace the need for git.  It's a work-around
+for a problem described here: https://jira.mongodb.org/browse/SERVER-21317
+
+Patch by Roel Janssen <roel@gnu.org>
+--- a/version.json	1970-01-01 01:00:00.000000000 +0100
++++ b/version.json	2016-03-16 15:10:23.933578071 +0100
+@@ -0,0 +1,3 @@
++{
++    "version": "3.3.3-guix-"
++}