From 75d34d4d9c20b87d637b027900744da976c5f436 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Tue, 12 May 2020 14:03:59 +0200
Subject: tests: Add missing test data.

---
 tests/data/spool/archive/95/26095.log | 6099 +++++++++++++++++++++++++++++++++
 tests/data/spool/db-h/99/33299.log    | 1266 +++++++
 2 files changed, 7365 insertions(+)
 create mode 100644 tests/data/spool/archive/95/26095.log
 create mode 100644 tests/data/spool/db-h/99/33299.log

(limited to 'tests')

diff --git a/tests/data/spool/archive/95/26095.log b/tests/data/spool/archive/95/26095.log
new file mode 100644
index 0000000..0ce0092
--- /dev/null
+++ b/tests/data/spool/archive/95/26095.log
@@ -0,0 +1,6099 @@
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489480202 -->
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+
+
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+This relates to bug 25598 “R packages are not bit-reproducible”.  R
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+directory.  The build paths for each of these packages is then embedded
+in the packages’ “paths.rds” files.
+
+We don’t have this problem when building the packages with the
+“r-build-system” like any other R package.
+
+This patch set adds package expressions for each of the recommended
+packages, disables building of recommended packages, and adds some of
+these packages to those R packages that need them.
+
+I’ve successfully rebuilt all R packages to make sure that these changes
+don’t break anything.
+
+I also have an unpolished patch to fix bug 25598, but it depends on this
+patch set.
+
+--
+Ricardo
+
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+
+
+
+
+
+
+<!-- request_addr: Ricardo Wurmus &lt;rekado@example.com&gt; -->
+<!-- time:1489480202 -->
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+Subject: R: do not build recommended packages
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+
+This relates to bug 25598 “R packages are not bit-reproducible”.  R
+itself does not build reproducibly.  One of the reasons is that it
+includes recommended packages that are built in a random temporary
+directory.  The build paths for each of these packages is then embedded
+in the packages’ “paths.rds” files.
+
+We don’t have this problem when building the packages with the
+“r-build-system” like any other R package.
+
+This patch set adds package expressions for each of the recommended
+packages, disables building of recommended packages, and adds some of
+these packages to those R packages that need them.
+
+I’ve successfully rebuilt all R packages to make sure that these changes
+don’t break anything.
+
+I also have an unpolished patch to fix bug 25598, but it depends on this
+patch set.
+
+--
+Ricardo
+
+GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+https://example.com
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482241 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 02/17] gnu: Add r-mass.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:01 +0000
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+X-GNU-PR-Message: followup 26095
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+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948219010932
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:01 +0000
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+Date: Tue, 14 Mar 2017 10:02:41 +0100
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+
+* gnu/packages/statistics.scm (r-mass): New variable.
+---
+ gnu/packages/statistics.scm | 21 +++++++++++++++++++++
+ 1 file changed, 21 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 54305a2f8..189a1d299 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -241,6 +241,27 @@ D.V. Hinkley (1997, CUP), originally written by Angelo Canty for S.")
+     ;; Unlimited distribution
+     (license (license:non-copyleft "file://R/bootfuns.q"))))
+ 
++(define-public r-mass
++  (package
++    (name "r-mass")
++    (version "7.3-45")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "MASS" version))
++       (sha256
++        (base32
++         "13lp5919h2bnpmf8rbmkar8a41yx62fnx66pkvljvqf60wa29qsx"))))
++    (properties `((upstream-name . "MASS")))
++    (build-system r-build-system)
++    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
++    (synopsis "Support functions and datasets for Venables and Ripley's MASS")
++    (description
++     "This package provides functions and datasets for the book \"Modern
++Applied Statistics with S\" (4th edition, 2002) by Venables and Ripley.")
++    ;; Either version may be picked.
++    (license (list license:gpl2 license:gpl3))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:10 +0000
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+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 02/17] gnu: Add r-mass.
+Date: Tue, 14 Mar 2017 10:02:41 +0100
+Message-Id: <20170314090256.7695-2-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
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+
+* gnu/packages/statistics.scm (r-mass): New variable.
+---
+ gnu/packages/statistics.scm | 21 +++++++++++++++++++++
+ 1 file changed, 21 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 54305a2f8..189a1d299 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -241,6 +241,27 @@ D.V. Hinkley (1997, CUP), originally written by Angelo Canty for S.")
+     ;; Unlimited distribution
+     (license (license:non-copyleft "file://R/bootfuns.q"))))
+ 
++(define-public r-mass
++  (package
++    (name "r-mass")
++    (version "7.3-45")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "MASS" version))
++       (sha256
++        (base32
++         "13lp5919h2bnpmf8rbmkar8a41yx62fnx66pkvljvqf60wa29qsx"))))
++    (properties `((upstream-name . "MASS")))
++    (build-system r-build-system)
++    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
++    (synopsis "Support functions and datasets for Venables and Ripley's MASS")
++    (description
++     "This package provides functions and datasets for the book \"Modern
++Applied Statistics with S\" (4th edition, 2002) by Venables and Ripley.")
++    ;; Either version may be picked.
++    (license (list license:gpl2 license:gpl3))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482242 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 01/17] gnu: Add r-boot.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:02 +0000
+Resent-Message-ID: <handler.26095.B26095.148948219110941@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948219110941
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:02 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:11 +0000
+Received: from localhost ([127.0.0.1]:54738 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMI-0002qH-0U
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:11 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21014)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMG-0002py-62
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:09 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482181810718.3930901673849;
+ Tue, 14 Mar 2017 02:03:01 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:40 +0100
+Message-Id: <20170314090256.7695-1-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <87h92w1cu0.fsf@example.com>
+References: <87h92w1cu0.fsf@example.com>
+X-Spam-Score: 1.0 (+)
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
+Precedence: list
+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=unsubscribe>
+List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/>
+List-Post: <mailto:debbugs-submit@debbugs.gnu.org>
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+List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=subscribe>
+Errors-To: debbugs-submit-bounces@debbugs.gnu.org
+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-boot): New variable.
+---
+ gnu/packages/statistics.scm | 21 +++++++++++++++++++++
+ 1 file changed, 21 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 75bdb5df8..54305a2f8 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -220,6 +220,27 @@ publication-quality data plots.  A large amount of 3rd-party packages are
+ available, greatly increasing its breadth and scope.")
+     (license license:gpl3+)))
+ 
++(define-public r-boot
++  (package
++    (name "r-boot")
++    (version "1.3-18")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "boot" version))
++       (sha256
++        (base32
++         "0pi348vvgzn1ny54yxhw6kq6nl7rx9bpr9ji1a6wqs8ah5zj7z8j"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/boot")
++    (synopsis "Bootstrap functions for R")
++    (description
++     "This package provides functions and datasets for bootstrapping from the
++book \"Bootstrap Methods and Their Application\" by A.C. Davison and
++D.V. Hinkley (1997, CUP), originally written by Angelo Canty for S.")
++    ;; Unlimited distribution
++    (license (license:non-copyleft "file://R/bootfuns.q"))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:11 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:11 2017
+Received: from localhost ([127.0.0.1]:54738 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMI-0002qH-0U
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:11 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21014)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMG-0002py-62
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:09 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482181810718.3930901673849;
+ Tue, 14 Mar 2017 02:03:01 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 01/17] gnu: Add r-boot.
+Date: Tue, 14 Mar 2017 10:02:40 +0100
+Message-Id: <20170314090256.7695-1-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <87h92w1cu0.fsf@example.com>
+References: <87h92w1cu0.fsf@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
+Precedence: list
+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=unsubscribe>
+List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/>
+List-Post: <mailto:debbugs-submit@debbugs.gnu.org>
+List-Help: <mailto:debbugs-submit-request@debbugs.gnu.org?subject=help>
+List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=subscribe>
+Errors-To: debbugs-submit-bounces@debbugs.gnu.org
+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-boot): New variable.
+---
+ gnu/packages/statistics.scm | 21 +++++++++++++++++++++
+ 1 file changed, 21 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 75bdb5df8..54305a2f8 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -220,6 +220,27 @@ publication-quality data plots.  A large amount of 3rd-party packages are
+ available, greatly increasing its breadth and scope.")
+     (license license:gpl3+)))
+ 
++(define-public r-boot
++  (package
++    (name "r-boot")
++    (version "1.3-18")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "boot" version))
++       (sha256
++        (base32
++         "0pi348vvgzn1ny54yxhw6kq6nl7rx9bpr9ji1a6wqs8ah5zj7z8j"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/boot")
++    (synopsis "Bootstrap functions for R")
++    (description
++     "This package provides functions and datasets for bootstrapping from the
++book \"Bootstrap Methods and Their Application\" by A.C. Davison and
++D.V. Hinkley (1997, CUP), originally written by Angelo Canty for S.")
++    ;; Unlimited distribution
++    (license (license:non-copyleft "file://R/bootfuns.q"))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482242 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 03/17] gnu: Add r-class.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:02 +0000
+Resent-Message-ID: <handler.26095.B26095.148948219310954@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948219310954
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:02 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:13 +0000
+Received: from localhost ([127.0.0.1]:54741 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniML-0002qc-9W
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:13 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21109)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMI-0002qN-MO
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:11 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482187941337.1994676040965;
+ Tue, 14 Mar 2017 02:03:07 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:42 +0100
+Message-Id: <20170314090256.7695-3-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
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+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
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+List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=subscribe>
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+
+* gnu/packages/statistics.scm (r-class): New variable.
+---
+ gnu/packages/statistics.scm | 22 ++++++++++++++++++++++
+ 1 file changed, 22 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 189a1d299..9199c0b9e 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -262,6 +262,28 @@ Applied Statistics with S\" (4th edition, 2002) by Venables and Ripley.")
+     ;; Either version may be picked.
+     (license (list license:gpl2 license:gpl3))))
+ 
++(define-public r-class
++  (package
++    (name "r-class")
++    (version "7.3-14")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "class" version))
++       (sha256
++        (base32
++         "173b8a16lh1i0zjmr784l0xr0azp9v8bgslh12hfdswbq7dpdf0q"))))
++    (build-system r-build-system)
++    (propagated-inputs
++     `(("r-mass" ,r-mass)))
++    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
++    (synopsis "R functions for classification")
++    (description
++     "This package provides various functions for classification, including
++k-nearest neighbour, Learning Vector Quantization and Self-Organizing Maps.")
++    ;; Either of the two versions can be picked.
++    (license (list license:gpl2 license:gpl3))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:13 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:13 2017
+Received: from localhost ([127.0.0.1]:54741 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniML-0002qc-9W
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:13 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21109)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMI-0002qN-MO
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:11 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482187941337.1994676040965;
+ Tue, 14 Mar 2017 02:03:07 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 03/17] gnu: Add r-class.
+Date: Tue, 14 Mar 2017 10:02:42 +0100
+Message-Id: <20170314090256.7695-3-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
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+Precedence: list
+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=unsubscribe>
+List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/>
+List-Post: <mailto:debbugs-submit@debbugs.gnu.org>
+List-Help: <mailto:debbugs-submit-request@debbugs.gnu.org?subject=help>
+List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=subscribe>
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-class): New variable.
+---
+ gnu/packages/statistics.scm | 22 ++++++++++++++++++++++
+ 1 file changed, 22 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 189a1d299..9199c0b9e 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -262,6 +262,28 @@ Applied Statistics with S\" (4th edition, 2002) by Venables and Ripley.")
+     ;; Either version may be picked.
+     (license (list license:gpl2 license:gpl3))))
+ 
++(define-public r-class
++  (package
++    (name "r-class")
++    (version "7.3-14")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "class" version))
++       (sha256
++        (base32
++         "173b8a16lh1i0zjmr784l0xr0azp9v8bgslh12hfdswbq7dpdf0q"))))
++    (build-system r-build-system)
++    (propagated-inputs
++     `(("r-mass" ,r-mass)))
++    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
++    (synopsis "R functions for classification")
++    (description
++     "This package provides various functions for classification, including
++k-nearest neighbour, Learning Vector Quantization and Self-Organizing Maps.")
++    ;; Either of the two versions can be picked.
++    (license (list license:gpl2 license:gpl3))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482243 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 04/17] gnu: Add r-cluster.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:03 +0000
+Resent-Message-ID: <handler.26095.B26095.148948219610971@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948219610971
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:03 +0000
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+Received: from localhost ([127.0.0.1]:54744 helo=debbugs.gnu.org)
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+	id 1cniMO-0002qs-Ha
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:16 -0400
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:15 -0400
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+ Tue, 14 Mar 2017 02:03:11 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:43 +0100
+Message-Id: <20170314090256.7695-4-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
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+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-cluster): New variable.
+---
+ gnu/packages/statistics.scm | 20 ++++++++++++++++++++
+ 1 file changed, 20 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 9199c0b9e..1492dccfb 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -284,6 +284,26 @@ k-nearest neighbour, Learning Vector Quantization and Self-Organizing Maps.")
+     ;; Either of the two versions can be picked.
+     (license (list license:gpl2 license:gpl3))))
+ 
++(define-public r-cluster
++  (package
++    (name "r-cluster")
++    (version "2.0.5")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "cluster" version))
++       (sha256
++        (base32
++         "1bkvqmv8h2c423q9ag2afb6s9j2vcdlxsf559zzbimraphrr2c2b"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/cluster")
++    (synopsis "Methods for cluster analysis")
++    (description
++     "This package provides methods for cluster analysis.  It is a much
++extended version of the original from Peter Rousseeuw, Anja Struyf and Mia
++Hubert, based on Kaufman and Rousseeuw (1990) \"Finding Groups in Data\".")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:16 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:16 2017
+Received: from localhost ([127.0.0.1]:54744 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMO-0002qs-Ha
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:16 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:15 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482191021786.5984999866124;
+ Tue, 14 Mar 2017 02:03:11 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 04/17] gnu: Add r-cluster.
+Date: Tue, 14 Mar 2017 10:02:43 +0100
+Message-Id: <20170314090256.7695-4-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
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+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-cluster): New variable.
+---
+ gnu/packages/statistics.scm | 20 ++++++++++++++++++++
+ 1 file changed, 20 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 9199c0b9e..1492dccfb 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -284,6 +284,26 @@ k-nearest neighbour, Learning Vector Quantization and Self-Organizing Maps.")
+     ;; Either of the two versions can be picked.
+     (license (list license:gpl2 license:gpl3))))
+ 
++(define-public r-cluster
++  (package
++    (name "r-cluster")
++    (version "2.0.5")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "cluster" version))
++       (sha256
++        (base32
++         "1bkvqmv8h2c423q9ag2afb6s9j2vcdlxsf559zzbimraphrr2c2b"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/cluster")
++    (synopsis "Methods for cluster analysis")
++    (description
++     "This package provides methods for cluster analysis.  It is a much
++extended version of the original from Peter Rousseeuw, Anja Struyf and Mia
++Hubert, based on Kaufman and Rousseeuw (1990) \"Finding Groups in Data\".")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482243 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 05/17] gnu: Add r-codetools.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:03 +0000
+Resent-Message-ID: <handler.26095.B26095.148948219910986@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948219910986
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:03 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:19 +0000
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+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:18 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:17 -0400
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+ mx.zohomail.com with SMTPS id 1489482193896711.7762833516957;
+ Tue, 14 Mar 2017 02:03:13 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:44 +0100
+Message-Id: <20170314090256.7695-5-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
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+
+* gnu/packages/statistics.scm (r-codetools): New variable.
+---
+ gnu/packages/statistics.scm | 18 ++++++++++++++++++
+ 1 file changed, 18 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 1492dccfb..cbf5c14b1 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -304,6 +304,24 @@ extended version of the original from Peter Rousseeuw, Anja Struyf and Mia
+ Hubert, based on Kaufman and Rousseeuw (1990) \"Finding Groups in Data\".")
+     (license license:gpl2+)))
+ 
++(define-public r-codetools
++  (package
++    (name "r-codetools")
++    (version "0.2-15")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "codetools" version))
++       (sha256
++        (base32
++         "0h7sjmvvsi35041jp47cxhsqzgf1y8jrw6fxii7n26i8g7nrh1sf"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/codetools")
++    (synopsis "Code analysis tools for R")
++    (description "This package provides code analysis tools for R.")
++    ;; Any version of the GPL.
++    (license (list license:gpl2+ license:gpl3+))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:19 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:19 2017
+Received: from localhost ([127.0.0.1]:54747 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMQ-0002r7-Ow
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:18 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMO-0002qt-Sg
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:17 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482193896711.7762833516957;
+ Tue, 14 Mar 2017 02:03:13 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 05/17] gnu: Add r-codetools.
+Date: Tue, 14 Mar 2017 10:02:44 +0100
+Message-Id: <20170314090256.7695-5-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-codetools): New variable.
+---
+ gnu/packages/statistics.scm | 18 ++++++++++++++++++
+ 1 file changed, 18 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 1492dccfb..cbf5c14b1 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -304,6 +304,24 @@ extended version of the original from Peter Rousseeuw, Anja Struyf and Mia
+ Hubert, based on Kaufman and Rousseeuw (1990) \"Finding Groups in Data\".")
+     (license license:gpl2+)))
+ 
++(define-public r-codetools
++  (package
++    (name "r-codetools")
++    (version "0.2-15")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "codetools" version))
++       (sha256
++        (base32
++         "0h7sjmvvsi35041jp47cxhsqzgf1y8jrw6fxii7n26i8g7nrh1sf"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/codetools")
++    (synopsis "Code analysis tools for R")
++    (description "This package provides code analysis tools for R.")
++    ;; Any version of the GPL.
++    (license (list license:gpl2+ license:gpl3+))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482243 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 06/17] gnu: Add r-foreign.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:03 +0000
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+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948220411010
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:03 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:24 +0000
+Received: from localhost ([127.0.0.1]:54751 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMW-0002rV-0b
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:24 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:23 -0400
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+ mx.zohomail.com with SMTPS id 1489482196923552.914063811571;
+ Tue, 14 Mar 2017 02:03:16 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:45 +0100
+Message-Id: <20170314090256.7695-6-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
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+
+* gnu/packages/statistics.scm (r-foreign): New variable.
+---
+ gnu/packages/statistics.scm | 20 ++++++++++++++++++++
+ 1 file changed, 20 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index cbf5c14b1..2317b37c3 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -322,6 +322,26 @@ Hubert, based on Kaufman and Rousseeuw (1990) \"Finding Groups in Data\".")
+     ;; Any version of the GPL.
+     (license (list license:gpl2+ license:gpl3+))))
+ 
++(define-public r-foreign
++  (package
++    (name "r-foreign")
++    (version "0.8-67")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "foreign" version))
++       (sha256
++        (base32
++         "1mcrm2pydimbyjhkrw5h380bifj1jhwzifph1xgh90asf3lvd1xd"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/foreign")
++    (synopsis "Read data stored by other statistics software")
++    (description
++     "This package provides functions for reading and writing data stored by
++some versions of Epi Info, Minitab, S, SAS, SPSS, Stata, Systat and Weka and
++for reading and writing some dBase files.")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:24 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:24 2017
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+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:24 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:23 -0400
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+ Tue, 14 Mar 2017 02:03:16 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 06/17] gnu: Add r-foreign.
+Date: Tue, 14 Mar 2017 10:02:45 +0100
+Message-Id: <20170314090256.7695-6-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-foreign): New variable.
+---
+ gnu/packages/statistics.scm | 20 ++++++++++++++++++++
+ 1 file changed, 20 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index cbf5c14b1..2317b37c3 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -322,6 +322,26 @@ Hubert, based on Kaufman and Rousseeuw (1990) \"Finding Groups in Data\".")
+     ;; Any version of the GPL.
+     (license (list license:gpl2+ license:gpl3+))))
+ 
++(define-public r-foreign
++  (package
++    (name "r-foreign")
++    (version "0.8-67")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "foreign" version))
++       (sha256
++        (base32
++         "1mcrm2pydimbyjhkrw5h380bifj1jhwzifph1xgh90asf3lvd1xd"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/foreign")
++    (synopsis "Read data stored by other statistics software")
++    (description
++     "This package provides functions for reading and writing data stored by
++some versions of Epi Info, Minitab, S, SAS, SPSS, Stata, Systat and Weka and
++for reading and writing some dBase files.")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482244 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 07/17] gnu: Add r-kernsmooth.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:04 +0000
+Resent-Message-ID: <handler.26095.B26095.148948220411017@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948220411017
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:04 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:24 +0000
+Received: from localhost ([127.0.0.1]:54753 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMW-0002rX-8N
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:24 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21130)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMV-0002rI-17
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:23 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482199917634.0397872636701;
+ Tue, 14 Mar 2017 02:03:19 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:46 +0100
+Message-Id: <20170314090256.7695-7-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
+Precedence: list
+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=unsubscribe>
+List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/>
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+
+* gnu/packages/statistics.scm (r-kernsmooth): New variable.
+---
+ gnu/packages/statistics.scm | 22 ++++++++++++++++++++++
+ 1 file changed, 22 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 2317b37c3..0b092ed15 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -342,6 +342,28 @@ some versions of Epi Info, Minitab, S, SAS, SPSS, Stata, Systat and Weka and
+ for reading and writing some dBase files.")
+     (license license:gpl2+)))
+ 
++(define-public r-kernsmooth
++  (package
++    (name "r-kernsmooth")
++    (version "2.23-15")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "KernSmooth" version))
++       (sha256
++        (base32
++         "1xhha8kw10jv8pv8b61hb5in9qiw3r2a9kdji3qlm991s4zd4wlb"))))
++    (properties `((upstream-name . "KernSmooth")))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/KernSmooth")
++    (synopsis "Functions for kernel smoothing")
++    (description
++     "This package provides functions for kernel smoothing (and density
++estimation) corresponding to the book: Wand, M.P. and Jones, M.C. (1995)
++\"Kernel Smoothing\".")
++    ;; Unlimited distribution
++    (license (license:non-copyleft "file://LICENCE.note"))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:24 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:24 2017
+Received: from localhost ([127.0.0.1]:54753 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMW-0002rX-8N
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:24 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21130)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMV-0002rI-17
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:23 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482199917634.0397872636701;
+ Tue, 14 Mar 2017 02:03:19 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 07/17] gnu: Add r-kernsmooth.
+Date: Tue, 14 Mar 2017 10:02:46 +0100
+Message-Id: <20170314090256.7695-7-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
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+Precedence: list
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+Errors-To: debbugs-submit-bounces@debbugs.gnu.org
+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-kernsmooth): New variable.
+---
+ gnu/packages/statistics.scm | 22 ++++++++++++++++++++++
+ 1 file changed, 22 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 2317b37c3..0b092ed15 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -342,6 +342,28 @@ some versions of Epi Info, Minitab, S, SAS, SPSS, Stata, Systat and Weka and
+ for reading and writing some dBase files.")
+     (license license:gpl2+)))
+ 
++(define-public r-kernsmooth
++  (package
++    (name "r-kernsmooth")
++    (version "2.23-15")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "KernSmooth" version))
++       (sha256
++        (base32
++         "1xhha8kw10jv8pv8b61hb5in9qiw3r2a9kdji3qlm991s4zd4wlb"))))
++    (properties `((upstream-name . "KernSmooth")))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/KernSmooth")
++    (synopsis "Functions for kernel smoothing")
++    (description
++     "This package provides functions for kernel smoothing (and density
++estimation) corresponding to the book: Wand, M.P. and Jones, M.C. (1995)
++\"Kernel Smoothing\".")
++    ;; Unlimited distribution
++    (license (license:non-copyleft "file://LICENCE.note"))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482244 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 08/17] gnu: r-lattice: Move to other recommended R packages.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:04 +0000
+Resent-Message-ID: <handler.26095.B26095.148948220811040@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948220811040
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:04 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:28 +0000
+Received: from localhost ([127.0.0.1]:54757 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMa-0002rz-Ge
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:28 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMY-0002rl-AQ
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:26 -0400
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+ mx.zohomail.com with SMTPS id 148948220270532.832375765680126;
+ Tue, 14 Mar 2017 02:03:22 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:47 +0100
+Message-Id: <20170314090256.7695-8-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
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+
+* gnu/packages/statistics.scm (r-lattice): Move to the set of recommended R
+packages.
+---
+ gnu/packages/statistics.scm | 40 ++++++++++++++++++++--------------------
+ 1 file changed, 20 insertions(+), 20 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 0b092ed15..0fa3be42c 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -364,6 +364,26 @@ estimation) corresponding to the book: Wand, M.P. and Jones, M.C. (1995)
+     ;; Unlimited distribution
+     (license (license:non-copyleft "file://LICENCE.note"))))
+ 
++(define-public r-lattice
++  (package
++    (name "r-lattice")
++    (version "0.20-34")
++    (source (origin
++              (method url-fetch)
++              (uri (cran-uri "lattice" version))
++              (sha256
++               (base32
++                "0615h69czr73k47whhzimf1qxv5qk0cabcrkljwhyrn6m6piq6ja"))))
++    (build-system r-build-system)
++    (home-page "http://lattice.r-forge.r-project.org/")
++    (synopsis "High-level data visualization system")
++    (description
++     "The lattice package provides a powerful and elegant high-level data
++visualization system inspired by Trellis graphics, with an emphasis on
++multivariate data.  Lattice is sufficient for typical graphics needs, and is
++also flexible enough to handle most nonstandard requirements.")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -2171,26 +2191,6 @@ scaling functions for R.")
+      "This package provides an integration of base and grid graphics for R.")
+     (license license:gpl2+)))
+ 
+-(define-public r-lattice
+-  (package
+-    (name "r-lattice")
+-    (version "0.20-34")
+-    (source (origin
+-              (method url-fetch)
+-              (uri (cran-uri "lattice" version))
+-              (sha256
+-               (base32
+-                "0615h69czr73k47whhzimf1qxv5qk0cabcrkljwhyrn6m6piq6ja"))))
+-    (build-system r-build-system)
+-    (home-page "http://lattice.r-forge.r-project.org/")
+-    (synopsis "High-level data visualization system")
+-    (description
+-     "The lattice package provides a powerful and elegant high-level data
+-visualization system inspired by Trellis graphics, with an emphasis on
+-multivariate data.  Lattice is sufficient for typical graphics needs, and is
+-also flexible enough to handle most nonstandard requirements.")
+-    (license license:gpl2+)))
+-
+ (define-public r-latticeextra
+   (package
+     (name "r-latticeextra")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:28 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:28 2017
+Received: from localhost ([127.0.0.1]:54757 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMa-0002rz-Ge
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:28 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMY-0002rl-AQ
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:26 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 148948220270532.832375765680126;
+ Tue, 14 Mar 2017 02:03:22 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 08/17] gnu: r-lattice: Move to other recommended R packages.
+Date: Tue, 14 Mar 2017 10:02:47 +0100
+Message-Id: <20170314090256.7695-8-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
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+Precedence: list
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-lattice): Move to the set of recommended R
+packages.
+---
+ gnu/packages/statistics.scm | 40 ++++++++++++++++++++--------------------
+ 1 file changed, 20 insertions(+), 20 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 0b092ed15..0fa3be42c 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -364,6 +364,26 @@ estimation) corresponding to the book: Wand, M.P. and Jones, M.C. (1995)
+     ;; Unlimited distribution
+     (license (license:non-copyleft "file://LICENCE.note"))))
+ 
++(define-public r-lattice
++  (package
++    (name "r-lattice")
++    (version "0.20-34")
++    (source (origin
++              (method url-fetch)
++              (uri (cran-uri "lattice" version))
++              (sha256
++               (base32
++                "0615h69czr73k47whhzimf1qxv5qk0cabcrkljwhyrn6m6piq6ja"))))
++    (build-system r-build-system)
++    (home-page "http://lattice.r-forge.r-project.org/")
++    (synopsis "High-level data visualization system")
++    (description
++     "The lattice package provides a powerful and elegant high-level data
++visualization system inspired by Trellis graphics, with an emphasis on
++multivariate data.  Lattice is sufficient for typical graphics needs, and is
++also flexible enough to handle most nonstandard requirements.")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -2171,26 +2191,6 @@ scaling functions for R.")
+      "This package provides an integration of base and grid graphics for R.")
+     (license license:gpl2+)))
+ 
+-(define-public r-lattice
+-  (package
+-    (name "r-lattice")
+-    (version "0.20-34")
+-    (source (origin
+-              (method url-fetch)
+-              (uri (cran-uri "lattice" version))
+-              (sha256
+-               (base32
+-                "0615h69czr73k47whhzimf1qxv5qk0cabcrkljwhyrn6m6piq6ja"))))
+-    (build-system r-build-system)
+-    (home-page "http://lattice.r-forge.r-project.org/")
+-    (synopsis "High-level data visualization system")
+-    (description
+-     "The lattice package provides a powerful and elegant high-level data
+-visualization system inspired by Trellis graphics, with an emphasis on
+-multivariate data.  Lattice is sufficient for typical graphics needs, and is
+-also flexible enough to handle most nonstandard requirements.")
+-    (license license:gpl2+)))
+-
+ (define-public r-latticeextra
+   (package
+     (name "r-latticeextra")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482245 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 09/17] gnu: r-matrix: Move to set of recommended R packages.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:05 +0000
+Resent-Message-ID: <handler.26095.B26095.148948221111051@debbugs.gnu.org>
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+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948221111051
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+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:48 +0100
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+
+* gnu/packages/statistics.scm (r-matrix): Move to set of recommended R
+packages.
+---
+ gnu/packages/statistics.scm | 44 ++++++++++++++++++++++----------------------
+ 1 file changed, 22 insertions(+), 22 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 0fa3be42c..23d6c9392 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -384,6 +384,28 @@ multivariate data.  Lattice is sufficient for typical graphics needs, and is
+ also flexible enough to handle most nonstandard requirements.")
+     (license license:gpl2+)))
+ 
++(define-public r-matrix
++  (package
++    (name "r-matrix")
++    (version "1.2-7.1")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "Matrix" version))
++       (sha256
++        (base32
++         "09rd51na9spz0lm1lylkfhw43w7c922b83m4jsggmpg3pbd6dssa"))))
++    (properties `((upstream-name . "Matrix")))
++    (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
++    (home-page "http://Matrix.R-forge.R-project.org/")
++    (synopsis "Sparse and dense matrix classes and methods")
++    (description
++     "This package provides classes and methods for dense and sparse matrices
++and operations on them using LAPACK and SuiteSparse.")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -623,28 +645,6 @@ and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see
+ 'citation(\"Rcpp\")' for details on these last two.")
+     (license license:gpl2+)))
+ 
+-(define-public r-matrix
+-  (package
+-    (name "r-matrix")
+-    (version "1.2-7.1")
+-    (source
+-     (origin
+-       (method url-fetch)
+-       (uri (cran-uri "Matrix" version))
+-       (sha256
+-        (base32
+-         "09rd51na9spz0lm1lylkfhw43w7c922b83m4jsggmpg3pbd6dssa"))))
+-    (properties `((upstream-name . "Matrix")))
+-    (build-system r-build-system)
+-    (propagated-inputs
+-     `(("r-lattice" ,r-lattice)))
+-    (home-page "http://Matrix.R-forge.R-project.org/")
+-    (synopsis "Sparse and dense matrix classes and methods")
+-    (description
+-     "This package provides classes and methods for dense and sparse matrices
+-and operations on them using LAPACK and SuiteSparse.")
+-    (license license:gpl2+)))
+-
+ (define-public r-mgcv
+   (package
+    (name "r-mgcv")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:31 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:31 2017
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:28 -0400
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+ Tue, 14 Mar 2017 02:03:25 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 09/17] gnu: r-matrix: Move to set of recommended R packages.
+Date: Tue, 14 Mar 2017 10:02:48 +0100
+Message-Id: <20170314090256.7695-9-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-matrix): Move to set of recommended R
+packages.
+---
+ gnu/packages/statistics.scm | 44 ++++++++++++++++++++++----------------------
+ 1 file changed, 22 insertions(+), 22 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 0fa3be42c..23d6c9392 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -384,6 +384,28 @@ multivariate data.  Lattice is sufficient for typical graphics needs, and is
+ also flexible enough to handle most nonstandard requirements.")
+     (license license:gpl2+)))
+ 
++(define-public r-matrix
++  (package
++    (name "r-matrix")
++    (version "1.2-7.1")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "Matrix" version))
++       (sha256
++        (base32
++         "09rd51na9spz0lm1lylkfhw43w7c922b83m4jsggmpg3pbd6dssa"))))
++    (properties `((upstream-name . "Matrix")))
++    (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
++    (home-page "http://Matrix.R-forge.R-project.org/")
++    (synopsis "Sparse and dense matrix classes and methods")
++    (description
++     "This package provides classes and methods for dense and sparse matrices
++and operations on them using LAPACK and SuiteSparse.")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -623,28 +645,6 @@ and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see
+ 'citation(\"Rcpp\")' for details on these last two.")
+     (license license:gpl2+)))
+ 
+-(define-public r-matrix
+-  (package
+-    (name "r-matrix")
+-    (version "1.2-7.1")
+-    (source
+-     (origin
+-       (method url-fetch)
+-       (uri (cran-uri "Matrix" version))
+-       (sha256
+-        (base32
+-         "09rd51na9spz0lm1lylkfhw43w7c922b83m4jsggmpg3pbd6dssa"))))
+-    (properties `((upstream-name . "Matrix")))
+-    (build-system r-build-system)
+-    (propagated-inputs
+-     `(("r-lattice" ,r-lattice)))
+-    (home-page "http://Matrix.R-forge.R-project.org/")
+-    (synopsis "Sparse and dense matrix classes and methods")
+-    (description
+-     "This package provides classes and methods for dense and sparse matrices
+-and operations on them using LAPACK and SuiteSparse.")
+-    (license license:gpl2+)))
+-
+ (define-public r-mgcv
+   (package
+    (name "r-mgcv")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482245 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 10/17] gnu: Add r-nlme.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:05 +0000
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+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948221211064
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:05 +0000
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+ Tue, 14 Mar 2017 02:03:28 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:49 +0100
+Message-Id: <20170314090256.7695-10-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
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+
+* gnu/packages/statistics.scm (r-nlme): New variable.
+---
+ gnu/packages/statistics.scm | 23 +++++++++++++++++++++++
+ 1 file changed, 23 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 23d6c9392..c072bcbcb 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -406,6 +406,29 @@ also flexible enough to handle most nonstandard requirements.")
+ and operations on them using LAPACK and SuiteSparse.")
+     (license license:gpl2+)))
+ 
++(define-public r-nlme
++  (package
++    (name "r-nlme")
++    (version "3.1-131")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "nlme" version))
++       (sha256
++        (base32
++         "0k2nvdzhic6bzhfsbq6la6q6a1i5nlj4pnh6lpdxiiwvxdks3nkr"))))
++    (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
++    (native-inputs
++     `(("gfortran" ,gfortran)))
++    (home-page "http://cran.r-project.org/web/packages/nlme")
++    (synopsis "Linear and nonlinear mixed effects models")
++    (description
++     "This package provides tools to fit and compare Gaussian linear and
++nonlinear mixed-effects models.")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:32 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:32 2017
+Received: from localhost ([127.0.0.1]:54762 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+	id 1cniMe-0002sO-67
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:32 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:31 -0400
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+ Tue, 14 Mar 2017 02:03:28 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 10/17] gnu: Add r-nlme.
+Date: Tue, 14 Mar 2017 10:02:49 +0100
+Message-Id: <20170314090256.7695-10-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
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+
+* gnu/packages/statistics.scm (r-nlme): New variable.
+---
+ gnu/packages/statistics.scm | 23 +++++++++++++++++++++++
+ 1 file changed, 23 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 23d6c9392..c072bcbcb 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -406,6 +406,29 @@ also flexible enough to handle most nonstandard requirements.")
+ and operations on them using LAPACK and SuiteSparse.")
+     (license license:gpl2+)))
+ 
++(define-public r-nlme
++  (package
++    (name "r-nlme")
++    (version "3.1-131")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "nlme" version))
++       (sha256
++        (base32
++         "0k2nvdzhic6bzhfsbq6la6q6a1i5nlj4pnh6lpdxiiwvxdks3nkr"))))
++    (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
++    (native-inputs
++     `(("gfortran" ,gfortran)))
++    (home-page "http://cran.r-project.org/web/packages/nlme")
++    (synopsis "Linear and nonlinear mixed effects models")
++    (description
++     "This package provides tools to fit and compare Gaussian linear and
++nonlinear mixed-effects models.")
++    (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482246 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 11/17] gnu: r-mgcv: Move to set of recommended R packages.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
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+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948221511080
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+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:50 +0100
+Message-Id: <20170314090256.7695-11-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
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+Precedence: list
+List-Id: <debbugs-submit.debbugs.gnu.org>
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-mgcv): Move up to set of recommended R
+packages.
+---
+ gnu/packages/statistics.scm | 45 ++++++++++++++++++++++++---------------------
+ 1 file changed, 24 insertions(+), 21 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index c072bcbcb..e5237d509 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -429,6 +429,30 @@ and operations on them using LAPACK and SuiteSparse.")
+ nonlinear mixed-effects models.")
+     (license license:gpl2+)))
+ 
++(define-public r-mgcv
++  (package
++   (name "r-mgcv")
++   (version "1.8-16")
++   (source
++    (origin
++     (method url-fetch)
++     (uri (cran-uri "mgcv" version))
++     (sha256
++      (base32
++       "0pj31gdwra7nv8spys4pfcbmsik99q1y1d0d2g37ywc3sz5s0rlj"))))
++   (build-system r-build-system)
++   (propagated-inputs
++    `(("r-matrix" ,r-matrix)
++      ("r-nlme" ,r-nlme)))
++   (home-page "http://cran.r-project.org/web/packages/mgcv")
++   (synopsis "Mixed generalised additive model computation")
++   (description
++    "GAMs, GAMMs and other generalized ridge regression with multiple smoothing
++parameter estimation by GCV, REML or UBRE/AIC.  The library includes a
++@code{gam()} function, a wide variety of smoothers, JAGS support and
++distributions beyond the exponential family.")
++   (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -668,27 +692,6 @@ and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see
+ 'citation(\"Rcpp\")' for details on these last two.")
+     (license license:gpl2+)))
+ 
+-(define-public r-mgcv
+-  (package
+-   (name "r-mgcv")
+-   (version "1.8-16")
+-   (source
+-    (origin
+-     (method url-fetch)
+-     (uri (cran-uri "mgcv" version))
+-     (sha256
+-      (base32
+-       "0pj31gdwra7nv8spys4pfcbmsik99q1y1d0d2g37ywc3sz5s0rlj"))))
+-   (build-system r-build-system)
+-   (home-page "http://cran.r-project.org/web/packages/mgcv")
+-   (synopsis "Mixed generalised additive model computation")
+-   (description
+-    "GAMs, GAMMs and other generalized ridge regression with multiple smoothing
+-parameter estimation by GCV, REML or UBRE/AIC.  The library includes a
+-@code{gam()} function, a wide variety of smoothers, JAGS support and
+-distributions beyond the exponential family.")
+-   (license license:gpl2+)))
+-
+ (define-public r-permute
+   (package
+    (name "r-permute")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:35 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:35 2017
+Received: from localhost ([127.0.0.1]:54765 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMh-0002sd-DZ
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:35 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21064)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:34 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482211038530.2017426969343;
+ Tue, 14 Mar 2017 02:03:31 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 11/17] gnu: r-mgcv: Move to set of recommended R packages.
+Date: Tue, 14 Mar 2017 10:02:50 +0100
+Message-Id: <20170314090256.7695-11-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
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+Errors-To: debbugs-submit-bounces@debbugs.gnu.org
+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-mgcv): Move up to set of recommended R
+packages.
+---
+ gnu/packages/statistics.scm | 45 ++++++++++++++++++++++++---------------------
+ 1 file changed, 24 insertions(+), 21 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index c072bcbcb..e5237d509 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -429,6 +429,30 @@ and operations on them using LAPACK and SuiteSparse.")
+ nonlinear mixed-effects models.")
+     (license license:gpl2+)))
+ 
++(define-public r-mgcv
++  (package
++   (name "r-mgcv")
++   (version "1.8-16")
++   (source
++    (origin
++     (method url-fetch)
++     (uri (cran-uri "mgcv" version))
++     (sha256
++      (base32
++       "0pj31gdwra7nv8spys4pfcbmsik99q1y1d0d2g37ywc3sz5s0rlj"))))
++   (build-system r-build-system)
++   (propagated-inputs
++    `(("r-matrix" ,r-matrix)
++      ("r-nlme" ,r-nlme)))
++   (home-page "http://cran.r-project.org/web/packages/mgcv")
++   (synopsis "Mixed generalised additive model computation")
++   (description
++    "GAMs, GAMMs and other generalized ridge regression with multiple smoothing
++parameter estimation by GCV, REML or UBRE/AIC.  The library includes a
++@code{gam()} function, a wide variety of smoothers, JAGS support and
++distributions beyond the exponential family.")
++   (license license:gpl2+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -668,27 +692,6 @@ and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see
+ 'citation(\"Rcpp\")' for details on these last two.")
+     (license license:gpl2+)))
+ 
+-(define-public r-mgcv
+-  (package
+-   (name "r-mgcv")
+-   (version "1.8-16")
+-   (source
+-    (origin
+-     (method url-fetch)
+-     (uri (cran-uri "mgcv" version))
+-     (sha256
+-      (base32
+-       "0pj31gdwra7nv8spys4pfcbmsik99q1y1d0d2g37ywc3sz5s0rlj"))))
+-   (build-system r-build-system)
+-   (home-page "http://cran.r-project.org/web/packages/mgcv")
+-   (synopsis "Mixed generalised additive model computation")
+-   (description
+-    "GAMs, GAMMs and other generalized ridge regression with multiple smoothing
+-parameter estimation by GCV, REML or UBRE/AIC.  The library includes a
+-@code{gam()} function, a wide variety of smoothers, JAGS support and
+-distributions beyond the exponential family.")
+-   (license license:gpl2+)))
+-
+ (define-public r-permute
+   (package
+    (name "r-permute")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482246 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 12/17] gnu: r-nnet: Move to set of recommended R packages.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:06 +0000
+Resent-Message-ID: <handler.26095.B26095.148948221911098@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948221911098
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:06 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:39 +0000
+Received: from localhost ([127.0.0.1]:54768 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMk-0002st-MI
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:38 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21086)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMj-0002sm-1u
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:37 -0400
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+ mx.zohomail.com with SMTPS id 1489482213900182.87795641098103;
+ Tue, 14 Mar 2017 02:03:33 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:51 +0100
+Message-Id: <20170314090256.7695-12-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-BeenThere: debbugs-submit@debbugs.gnu.org
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+Errors-To: debbugs-submit-bounces@debbugs.gnu.org
+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/machine-learning.scm (r-nnet): Move from here...
+* gnu/packages/statistics.scm (r-nnet): ...to here because the other
+recommended R packages are here.
+---
+ gnu/packages/machine-learning.scm | 19 -------------------
+ gnu/packages/statistics.scm       | 19 +++++++++++++++++++
+ 2 files changed, 19 insertions(+), 19 deletions(-)
+
+diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm
+index 7bad833b3..73c78744f 100644
+--- a/gnu/packages/machine-learning.scm
++++ b/gnu/packages/machine-learning.scm
+@@ -460,25 +460,6 @@ adaptive sparsity and the Wong algorithm for adaptively sparse gaussian
+ geometric models.")
+     (license license:lgpl3+)))
+ 
+-(define-public r-nnet
+-  (package
+-    (name "r-nnet")
+-    (version "7.3-12")
+-    (source
+-     (origin
+-       (method url-fetch)
+-       (uri (cran-uri "nnet" version))
+-       (sha256
+-        (base32
+-         "17amqnw9dpap2w8ivx53hxha2xrm0drwfnj32li0xk41hlz548r7"))))
+-    (build-system r-build-system)
+-    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
+-    (synopsis "Feed-forward neural networks and multinomial log-linear models")
+-    (description
+-     "This package provides functions for feed-forward neural networks with a
+-single hidden layer, and for multinomial log-linear models.")
+-    (license (list license:gpl2+ license:gpl3+))))
+-
+ (define-public r-kernlab
+   (package
+     (name "r-kernlab")
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index e5237d509..29cf32a60 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -453,6 +453,25 @@ parameter estimation by GCV, REML or UBRE/AIC.  The library includes a
+ distributions beyond the exponential family.")
+    (license license:gpl2+)))
+ 
++(define-public r-nnet
++  (package
++    (name "r-nnet")
++    (version "7.3-12")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "nnet" version))
++       (sha256
++        (base32
++         "17amqnw9dpap2w8ivx53hxha2xrm0drwfnj32li0xk41hlz548r7"))))
++    (build-system r-build-system)
++    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
++    (synopsis "Feed-forward neural networks and multinomial log-linear models")
++    (description
++     "This package provides functions for feed-forward neural networks with a
++single hidden layer, and for multinomial log-linear models.")
++    (license (list license:gpl2+ license:gpl3+))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:39 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:38 2017
+Received: from localhost ([127.0.0.1]:54768 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMk-0002st-MI
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:38 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21086)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMj-0002sm-1u
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:37 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482213900182.87795641098103;
+ Tue, 14 Mar 2017 02:03:33 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 12/17] gnu: r-nnet: Move to set of recommended R packages.
+Date: Tue, 14 Mar 2017 10:02:51 +0100
+Message-Id: <20170314090256.7695-12-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
+Precedence: list
+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=unsubscribe>
+List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/>
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+List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=subscribe>
+Errors-To: debbugs-submit-bounces@debbugs.gnu.org
+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/machine-learning.scm (r-nnet): Move from here...
+* gnu/packages/statistics.scm (r-nnet): ...to here because the other
+recommended R packages are here.
+---
+ gnu/packages/machine-learning.scm | 19 -------------------
+ gnu/packages/statistics.scm       | 19 +++++++++++++++++++
+ 2 files changed, 19 insertions(+), 19 deletions(-)
+
+diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm
+index 7bad833b3..73c78744f 100644
+--- a/gnu/packages/machine-learning.scm
++++ b/gnu/packages/machine-learning.scm
+@@ -460,25 +460,6 @@ adaptive sparsity and the Wong algorithm for adaptively sparse gaussian
+ geometric models.")
+     (license license:lgpl3+)))
+ 
+-(define-public r-nnet
+-  (package
+-    (name "r-nnet")
+-    (version "7.3-12")
+-    (source
+-     (origin
+-       (method url-fetch)
+-       (uri (cran-uri "nnet" version))
+-       (sha256
+-        (base32
+-         "17amqnw9dpap2w8ivx53hxha2xrm0drwfnj32li0xk41hlz548r7"))))
+-    (build-system r-build-system)
+-    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
+-    (synopsis "Feed-forward neural networks and multinomial log-linear models")
+-    (description
+-     "This package provides functions for feed-forward neural networks with a
+-single hidden layer, and for multinomial log-linear models.")
+-    (license (list license:gpl2+ license:gpl3+))))
+-
+ (define-public r-kernlab
+   (package
+     (name "r-kernlab")
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index e5237d509..29cf32a60 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -453,6 +453,25 @@ parameter estimation by GCV, REML or UBRE/AIC.  The library includes a
+ distributions beyond the exponential family.")
+    (license license:gpl2+)))
+ 
++(define-public r-nnet
++  (package
++    (name "r-nnet")
++    (version "7.3-12")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "nnet" version))
++       (sha256
++        (base32
++         "17amqnw9dpap2w8ivx53hxha2xrm0drwfnj32li0xk41hlz548r7"))))
++    (build-system r-build-system)
++    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
++    (synopsis "Feed-forward neural networks and multinomial log-linear models")
++    (description
++     "This package provides functions for feed-forward neural networks with a
++single hidden layer, and for multinomial log-linear models.")
++    (license (list license:gpl2+ license:gpl3+))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482247 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 13/17] gnu: r-rpart: Move to the set of recommended packages.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:07 +0000
+Resent-Message-ID: <handler.26095.B26095.148948222211116@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948222211116
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:07 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:42 +0000
+Received: from localhost ([127.0.0.1]:54771 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMn-0002tB-UO
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:42 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:40 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482216717193.69834246919174;
+ Tue, 14 Mar 2017 02:03:36 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:52 +0100
+Message-Id: <20170314090256.7695-13-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
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+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=unsubscribe>
+List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/>
+List-Post: <mailto:debbugs-submit@debbugs.gnu.org>
+List-Help: <mailto:debbugs-submit-request@debbugs.gnu.org?subject=help>
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+
+* gnu/packages/statistics.scm (r-rpart): Move up to the set of recommended
+packages.
+---
+ gnu/packages/statistics.scm | 38 +++++++++++++++++++-------------------
+ 1 file changed, 19 insertions(+), 19 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 29cf32a60..8780027d3 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -472,6 +472,25 @@ distributions beyond the exponential family.")
+ single hidden layer, and for multinomial log-linear models.")
+     (license (list license:gpl2+ license:gpl3+))))
+ 
++(define-public r-rpart
++  (package
++    (name "r-rpart")
++    (version "4.1-10")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "rpart" version))
++       (sha256
++        (base32
++         "119dvh2cpab4vq9blvbkil5hgq6w018amiwlda3ii0fki39axpf5"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/rpart")
++    (synopsis "Recursive partitioning and regression trees")
++    (description
++     "This package provides recursive partitioning functions for
++classification, regression and survival trees.")
++    (license (list license:gpl2+ license:gpl3+))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -3644,25 +3663,6 @@ following problems:
+ @end enumerate\n")
+     (license license:gpl3+)))
+ 
+-(define-public r-rpart
+-  (package
+-    (name "r-rpart")
+-    (version "4.1-10")
+-    (source
+-     (origin
+-       (method url-fetch)
+-       (uri (cran-uri "rpart" version))
+-       (sha256
+-        (base32
+-         "119dvh2cpab4vq9blvbkil5hgq6w018amiwlda3ii0fki39axpf5"))))
+-    (build-system r-build-system)
+-    (home-page "http://cran.r-project.org/web/packages/rpart")
+-    (synopsis "Recursive partitioning and regression trees")
+-    (description
+-     "This package provides recursive partitioning functions for
+-classification, regression and survival trees.")
+-    (license (list license:gpl2+ license:gpl3+))))
+-
+ (define-public r-survival
+   (package
+     (name "r-survival")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:42 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:42 2017
+Received: from localhost ([127.0.0.1]:54771 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMn-0002tB-UO
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:42 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:40 -0400
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+ Tue, 14 Mar 2017 02:03:36 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 13/17] gnu: r-rpart: Move to the set of recommended packages.
+Date: Tue, 14 Mar 2017 10:02:52 +0100
+Message-Id: <20170314090256.7695-13-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
+Precedence: list
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+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=subscribe>
+Errors-To: debbugs-submit-bounces@debbugs.gnu.org
+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-rpart): Move up to the set of recommended
+packages.
+---
+ gnu/packages/statistics.scm | 38 +++++++++++++++++++-------------------
+ 1 file changed, 19 insertions(+), 19 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 29cf32a60..8780027d3 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -472,6 +472,25 @@ distributions beyond the exponential family.")
+ single hidden layer, and for multinomial log-linear models.")
+     (license (list license:gpl2+ license:gpl3+))))
+ 
++(define-public r-rpart
++  (package
++    (name "r-rpart")
++    (version "4.1-10")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "rpart" version))
++       (sha256
++        (base32
++         "119dvh2cpab4vq9blvbkil5hgq6w018amiwlda3ii0fki39axpf5"))))
++    (build-system r-build-system)
++    (home-page "http://cran.r-project.org/web/packages/rpart")
++    (synopsis "Recursive partitioning and regression trees")
++    (description
++     "This package provides recursive partitioning functions for
++classification, regression and survival trees.")
++    (license (list license:gpl2+ license:gpl3+))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -3644,25 +3663,6 @@ following problems:
+ @end enumerate\n")
+     (license license:gpl3+)))
+ 
+-(define-public r-rpart
+-  (package
+-    (name "r-rpart")
+-    (version "4.1-10")
+-    (source
+-     (origin
+-       (method url-fetch)
+-       (uri (cran-uri "rpart" version))
+-       (sha256
+-        (base32
+-         "119dvh2cpab4vq9blvbkil5hgq6w018amiwlda3ii0fki39axpf5"))))
+-    (build-system r-build-system)
+-    (home-page "http://cran.r-project.org/web/packages/rpart")
+-    (synopsis "Recursive partitioning and regression trees")
+-    (description
+-     "This package provides recursive partitioning functions for
+-classification, regression and survival trees.")
+-    (license (list license:gpl2+ license:gpl3+))))
+-
+ (define-public r-survival
+   (package
+     (name "r-survival")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482247 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 14/17] gnu: Add r-spatial.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:07 +0000
+Resent-Message-ID: <handler.26095.B26095.148948222511130@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948222511130
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:07 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:45 +0000
+Received: from localhost ([127.0.0.1]:54774 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMr-0002tS-90
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:45 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMo-0002tC-8Y
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:42 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482219504537.9036992197271;
+ Tue, 14 Mar 2017 02:03:39 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:53 +0100
+Message-Id: <20170314090256.7695-14-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
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+
+* gnu/packages/statistics.scm (r-spatial): New variable.
+---
+ gnu/packages/statistics.scm | 20 ++++++++++++++++++++
+ 1 file changed, 20 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 8780027d3..b338efcda 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -491,6 +491,26 @@ single hidden layer, and for multinomial log-linear models.")
+ classification, regression and survival trees.")
+     (license (list license:gpl2+ license:gpl3+))))
+ 
++(define-public r-spatial
++  (package
++    (name "r-spatial")
++    (version "7.3-11")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "spatial" version))
++       (sha256
++        (base32
++         "04aw8j533sn63ybyrf4hyhrqm4058vfcb7yhjy07kq92mk94hi32"))))
++    (build-system r-build-system)
++    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
++    (synopsis "Functions for kriging and point pattern analysis")
++    (description
++     "This package provides functions for kriging and point pattern
++analysis.")
++    ;; Either version may be picked.
++    (license (list license:gpl2 license:gpl3))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:45 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:45 2017
+Received: from localhost ([127.0.0.1]:54774 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMr-0002tS-90
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:45 -0400
+Received: from sender-of-o51.zoho.com ([135.84.80.216]:21139)
+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMo-0002tC-8Y
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:42 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482219504537.9036992197271;
+ Tue, 14 Mar 2017 02:03:39 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 14/17] gnu: Add r-spatial.
+Date: Tue, 14 Mar 2017 10:02:53 +0100
+Message-Id: <20170314090256.7695-14-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
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+List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=subscribe>
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-spatial): New variable.
+---
+ gnu/packages/statistics.scm | 20 ++++++++++++++++++++
+ 1 file changed, 20 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index 8780027d3..b338efcda 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -491,6 +491,26 @@ single hidden layer, and for multinomial log-linear models.")
+ classification, regression and survival trees.")
+     (license (list license:gpl2+ license:gpl3+))))
+ 
++(define-public r-spatial
++  (package
++    (name "r-spatial")
++    (version "7.3-11")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "spatial" version))
++       (sha256
++        (base32
++         "04aw8j533sn63ybyrf4hyhrqm4058vfcb7yhjy07kq92mk94hi32"))))
++    (build-system r-build-system)
++    (home-page "http://www.stats.ox.ac.uk/pub/MASS4/")
++    (synopsis "Functions for kriging and point pattern analysis")
++    (description
++     "This package provides functions for kriging and point pattern
++analysis.")
++    ;; Either version may be picked.
++    (license (list license:gpl2 license:gpl3))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482248 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 15/17] gnu: r-survival: Move to set of recommended R packages.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:08 +0000
+Resent-Message-ID: <handler.26095.B26095.148948222911148@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948222911148
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:08 +0000
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:49 +0000
+Received: from localhost ([127.0.0.1]:54778 helo=debbugs.gnu.org)
+	by debbugs.gnu.org with esmtp (Exim 4.84_2)
+	(envelope-from <debbugs-submit-bounces@debbugs.gnu.org>)
+	id 1cniMu-0002tj-FN
+	for submit@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:49 -0400
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+ by debbugs.gnu.org with esmtp (Exim 4.84_2)
+ (envelope-from <rekado@example.com>) id 1cniMs-0002ta-AD
+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:46 -0400
+Received: from localhost (xd933fe09.dyn.telefonica.de [217.51.254.9]) by
+ mx.zohomail.com with SMTPS id 1489482222312655.0922279479503;
+ Tue, 14 Mar 2017 02:03:42 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:54 +0100
+Message-Id: <20170314090256.7695-15-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-BeenThere: debbugs-submit@debbugs.gnu.org
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+Precedence: list
+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
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+List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/>
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+List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, 
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+Errors-To: debbugs-submit-bounces@debbugs.gnu.org
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+
+* gnu/packages/statistics.scm (r-survival): Move up to set of recommended R
+packages.
+---
+ gnu/packages/statistics.scm | 42 ++++++++++++++++++++++--------------------
+ 1 file changed, 22 insertions(+), 20 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index b338efcda..c836409b6 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -511,6 +511,28 @@ analysis.")
+     ;; Either version may be picked.
+     (license (list license:gpl2 license:gpl3))))
+ 
++(define-public r-survival
++  (package
++    (name "r-survival")
++    (version "2.40-1")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "survival" version))
++       (sha256
++        (base32
++         "10pf0kq0g66k5rgizrvh29mq3r84acljw2jgrv5yp6z38xw23mci"))))
++    (build-system r-build-system)
++    (propagated-inputs
++     `(("r-matrix" ,r-matrix)))
++    (home-page "https://github.com/therneau/survival")
++    (synopsis "Survival analysis")
++    (description
++     "This package contains the core survival analysis routines, including
++definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state)
++curves, Cox models, and parametric accelerated failure time models.")
++    (license license:lgpl2.0+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -3683,26 +3705,6 @@ following problems:
+ @end enumerate\n")
+     (license license:gpl3+)))
+ 
+-(define-public r-survival
+-  (package
+-    (name "r-survival")
+-    (version "2.40-1")
+-    (source
+-     (origin
+-       (method url-fetch)
+-       (uri (cran-uri "survival" version))
+-       (sha256
+-        (base32
+-         "10pf0kq0g66k5rgizrvh29mq3r84acljw2jgrv5yp6z38xw23mci"))))
+-    (build-system r-build-system)
+-    (home-page "https://github.com/therneau/survival")
+-    (synopsis "Survival analysis")
+-    (description
+-     "This package contains the core survival analysis routines, including
+-definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state)
+-curves, Cox models, and parametric accelerated failure time models.")
+-    (license license:lgpl2.0+)))
+-
+ (define-public r-base64
+   (package
+     (name "r-base64")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:03:49 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:03:49 2017
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+ for 26095@debbugs.gnu.org; Tue, 14 Mar 2017 05:03:46 -0400
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+ Tue, 14 Mar 2017 02:03:42 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 15/17] gnu: r-survival: Move to set of recommended R packages.
+Date: Tue, 14 Mar 2017 10:02:54 +0100
+Message-Id: <20170314090256.7695-15-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
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+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=subscribe>
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r-survival): Move up to set of recommended R
+packages.
+---
+ gnu/packages/statistics.scm | 42 ++++++++++++++++++++++--------------------
+ 1 file changed, 22 insertions(+), 20 deletions(-)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index b338efcda..c836409b6 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -511,6 +511,28 @@ analysis.")
+     ;; Either version may be picked.
+     (license (list license:gpl2 license:gpl3))))
+ 
++(define-public r-survival
++  (package
++    (name "r-survival")
++    (version "2.40-1")
++    (source
++     (origin
++       (method url-fetch)
++       (uri (cran-uri "survival" version))
++       (sha256
++        (base32
++         "10pf0kq0g66k5rgizrvh29mq3r84acljw2jgrv5yp6z38xw23mci"))))
++    (build-system r-build-system)
++    (propagated-inputs
++     `(("r-matrix" ,r-matrix)))
++    (home-page "https://github.com/therneau/survival")
++    (synopsis "Survival analysis")
++    (description
++     "This package contains the core survival analysis routines, including
++definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state)
++curves, Cox models, and parametric accelerated failure time models.")
++    (license license:lgpl2.0+)))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+@@ -3683,26 +3705,6 @@ following problems:
+ @end enumerate\n")
+     (license license:gpl3+)))
+ 
+-(define-public r-survival
+-  (package
+-    (name "r-survival")
+-    (version "2.40-1")
+-    (source
+-     (origin
+-       (method url-fetch)
+-       (uri (cran-uri "survival" version))
+-       (sha256
+-        (base32
+-         "10pf0kq0g66k5rgizrvh29mq3r84acljw2jgrv5yp6z38xw23mci"))))
+-    (build-system r-build-system)
+-    (home-page "https://github.com/therneau/survival")
+-    (synopsis "Survival analysis")
+-    (description
+-     "This package contains the core survival analysis routines, including
+-definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state)
+-curves, Cox models, and parametric accelerated failure time models.")
+-    (license license:lgpl2.0+)))
+-
+ (define-public r-base64
+   (package
+     (name "r-base64")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482248 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 16/17] gnu: r: Do not build recommended packages.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:08 +0000
+Resent-Message-ID: <handler.26095.B26095.148948224111182@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948224111182
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:08 +0000
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+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:55 +0100
+Message-Id: <20170314090256.7695-16-rekado@example.com>
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+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
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+
+* gnu/packages/statistics.scm (r)[arguments]: Rename phase
+"build-recommended-packages-reproducibly" to "build-reproducibly"; add
+configure flag "--without-recommended-packages".
+* guix/import/cran.scm (default-r-packages): Remove recommended packages.
+* gnu/packages/bioinformatics.scm (r-ape)[propagated-inputs]: Add r-lattice
+and r-nlme.
+(r-vegan)[propagated-inputs]: Add r-mass.
+(r-genefilter)[propagated-inputs]: Add r-survival.
+(r-grohmm)[propagated-inputs]: Add r-mass.
+(r-bioccheck)[propagated-inputs]: Add r-codetools.
+(r-summarizedexperiment)[propagated-inputs]: Add r-matrix.
+(r-topgo)[propagated-inputs]: Add r-lattice.
+(r-sva)[propagated-inputs]: Add r-mgcv.
+(r-raremetals2)[propagated-inputs]: Add r-mass.
+(r-vsn)[propagated-inputs]: Add r-lattice.
+(r-pcamethods)[propagated-inputs]: Add r-mass.
+* gnu/packages/bioinformatics.scm (r-ggplot2)[propagated-inputs]: Add r-mass.
+(r-locfit)[propagated-inputs]: Add r-lattice.
+(r-coda)[propagated-inputs]: Add r-lattice.
+(r-irlba)[propagated-inputs]: Add r-matrix.
+(r-glmnet)[propagated-inputs]: Add r-matrix.
+(r-e1071)[propagated-inputs]: Add r-class.
+(r-spams)[propagated-inputs]: Add r-lattice and r-matrix.
+(r-hmisc)[propagated-inputs]: Add r-cluster, r-foreign, r-lattice, r-nnet, and
+r-rpart.
+(r-zoo)[propagated-inputs]: Add r-lattice.
+(r-mixtools)[propagated-inputs]: Add r-boot and r-mass.
+(r-flexmix)[propagated-inputs]: Add r-lattice and r-nnet.
+(r-prabclus)[propagated-inputs]: Add r-mass.
+(r-fpc)[propagated-inputs]: Add r-class, r-cluster, and r-mass.
+(r-rcppeigen)[propagated-inputs]: Add r-matrix.
+(r-matrixmodels)[propagated-inputs]: Add r-matrix.
+(r-lme4)[propagated-inputs]: Add r-mass and r-nlme.
+(r-pbkrtest)[propagated-inputs]: Add r-mass and r-matrix.
+(r-car)[propagated-inputs]: Add r-mass, r-mgcv, and r-nnet.
+(r-tclust)[propagated-inputs]: Add r-cluster.
+---
+ gnu/packages/bioinformatics.scm | 21 +++++++++--
+ gnu/packages/statistics.scm     | 83 ++++++++++++++++++++++++++++++-----------
+ guix/import/cran.scm            | 18 +--------
+ 3 files changed, 80 insertions(+), 42 deletions(-)
+
+diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
+index 770bea7e3..daef0f6de 100644
+--- a/gnu/packages/bioinformatics.scm
++++ b/gnu/packages/bioinformatics.scm
+@@ -108,6 +108,9 @@
+         (base32
+          "0959fiiy11rzfzrzaknmgrx64bhszj02l0ycz79k5a6bmpfzanlk"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)
++       ("r-nlme" ,r-nlme)))
+     (home-page "http://ape-package.ird.fr/")
+     (synopsis "Analyses of phylogenetics and evolution")
+     (description
+@@ -5344,6 +5347,7 @@ information as possible.")
+     (propagated-inputs
+      `(("r-cluster" ,r-cluster)
+        ("r-lattice" ,r-lattice)
++       ("r-mass" ,r-mass)
+        ("r-mgcv" ,r-mgcv)
+        ("r-permute" ,r-permute)))
+     (home-page "https://cran.r-project.org/web/packages/vegan")
+@@ -5425,7 +5429,8 @@ microarrays.")
+      `(("r-annotate" ,r-annotate)
+        ("r-annotationdbi" ,r-annotationdbi)
+        ("r-biobase" ,r-biobase)
+-       ("r-s4vectors" ,r-s4vectors)))
++       ("r-s4vectors" ,r-s4vectors)
++       ("r-survival" ,r-survival)))
+     (home-page "http://bioconductor.org/packages/genefilter")
+     (synopsis "Filter genes from high-throughput experiments")
+     (description
+@@ -5723,6 +5728,7 @@ annotation infrastructure.")
+        ("r-genomicalignments" ,r-genomicalignments)
+        ("r-genomicranges" ,r-genomicranges)
+        ("r-iranges" ,r-iranges)
++       ("r-mass" ,r-mass)
+        ("r-rtracklayer" ,r-rtracklayer)
+        ("r-s4vectors" ,r-s4vectors)))
+     (home-page "https://github.com/Kraus-Lab/groHMM")
+@@ -6122,7 +6128,8 @@ functionality.")
+     (native-inputs
+      `(("which" ,which)))
+     (propagated-inputs
+-     `(("r-graph" ,r-graph)
++     `(("r-codetools" ,r-codetools)
++       ("r-graph" ,r-graph)
+        ("r-knitr" ,r-knitr)
+        ("r-httr" ,r-httr)
+        ("r-optparse" ,r-optparse)
+@@ -6650,6 +6657,7 @@ files.")
+        ("r-genomeinfodb" ,r-genomeinfodb)
+        ("r-genomicranges" ,r-genomicranges)
+        ("r-iranges" ,r-iranges)
++       ("r-matrix" ,r-matrix)
+        ("r-s4vectors" ,r-s4vectors)))
+     (home-page "http://bioconductor.org/packages/SummarizedExperiment")
+     (synopsis "Container for representing genomic ranges by sample")
+@@ -6841,8 +6849,9 @@ information about the latest version of the Gene Ontologies.")
+        ("r-biobase" ,r-biobase)
+        ("r-biocgenerics" ,r-biocgenerics)
+        ("r-go-db" ,r-go-db)
+-       ("r-matrixstats" ,r-matrixstats)
+        ("r-graph" ,r-graph)
++       ("r-lattice" ,r-lattice)
++       ("r-matrixstats" ,r-matrixstats)
+        ("r-sparsem" ,r-sparsem)))
+     (home-page "http://bioconductor.org/packages/topGO")
+     (synopsis "Enrichment analysis for gene ontology")
+@@ -8234,7 +8243,8 @@ number detection tools.")
+          "1wc1fjm6dzlsqqagm43y57w8jh8nsh0r0m8z1p6ximcb5gxqh7hn"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-genefilter" ,r-genefilter)))
++     `(("r-genefilter" ,r-genefilter)
++       ("r-mgcv" ,r-mgcv)))
+     (home-page "http://bioconductor.org/packages/sva")
+     (synopsis "Surrogate variable analysis")
+     (description
+@@ -8286,6 +8296,7 @@ data (variant call format, e.g. VCF or BCF) or meta-analysis results in R.")
+     (propagated-inputs
+      `(("r-seqminer" ,r-seqminer)
+        ("r-mvtnorm" ,r-mvtnorm)
++       ("r-mass" ,r-mass)
+        ("r-compquadform" ,r-compquadform)
+        ("r-getopt" ,r-getopt)))
+     (home-page "http://genome.sph.umich.edu/wiki/RareMETALS2")
+@@ -8444,6 +8455,7 @@ analysis.")
+      `(("r-affy" ,r-affy)
+        ("r-biobase" ,r-biobase)
+        ("r-ggplot2" ,r-ggplot2)
++       ("r-lattice" ,r-lattice)
+        ("r-limma" ,r-limma)))
+     (home-page "http://bioconductor.org/packages/release/bioc/html/vsn.html")
+     (synopsis "Variance stabilization and calibration for microarray data")
+@@ -8507,6 +8519,7 @@ specific parser.")
+     (propagated-inputs
+      `(("r-biobase" ,r-biobase)
+        ("r-biocgenerics" ,r-biocgenerics)
++       ("r-mass" ,r-mass)
+        ("r-rcpp" ,r-rcpp)))
+     (home-page "https://github.com/hredestig/pcamethods")
+     (synopsis "Collection of PCA methods")
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index c836409b6..b8abbf62d 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -99,6 +99,9 @@ can be imported from spreadsheets, text files and database sources and it can
+ be output in text, PostScript, PDF or HTML.")
+     (license license:gpl3+)))
+ 
++;; Update this package together with the set of recommended packages: r-boot,
++;; r-class, r-cluster, r-codetools, r-foreign, r-kernsmooth, r-lattice,
++;; r-mass, r-matrix, r-mgcv, r-nlme, r-nnet, r-rpart, r-spatial, r-survival.
+ (define-public r
+   (package
+     (name "r")
+@@ -128,12 +131,8 @@ be output in text, PostScript, PDF or HTML.")
+                (substitute* "src/scripts/R.sh.in"
+                  (("uname") uname-bin)))
+              #t))
+-         (add-after 'unpack 'build-recommended-packages-reproducibly
++         (add-after 'unpack 'build-reproducibly
+            (lambda _
+-             (substitute* "src/library/Recommended/Makefile.in"
+-               (("INSTALL_OPTS =(.*)" line rest )
+-                (string-append "INSTALL_OPTS = --built-timestamp=1970-01-01"
+-                               rest)))
+              ;; Ensure that gzipped files are reproducible
+              (substitute* '("src/library/grDevices/Makefile.in"
+                             "doc/manual/Makefile.in")
+@@ -162,7 +161,12 @@ be output in text, PostScript, PDF or HTML.")
+          (add-after 'build 'install-info
+           (lambda _ (zero? (system* "make" "install-info")))))
+        #:configure-flags
+-       '("--with-cairo"
++       '(;; Do not build the recommended packages.  The build system creates
++         ;; random temporary directories and embeds their names in some
++         ;; package files.  We build these packages with the r-build-system
++         ;; instead.
++         "--without-recommended-packages"
++         "--with-cairo"
+          "--with-blas=-lopenblas"
+          "--with-libpng"
+          "--with-jpeglib"
+@@ -991,6 +995,7 @@ legends.")
+        ("r-gtable" ,r-gtable)
+        ("r-plyr" ,r-plyr)
+        ("r-lazyeval" ,r-lazyeval)
++       ("r-mass" ,r-mass)
+        ("r-tibble" ,r-tibble)
+        ("r-reshape2" ,r-reshape2)
+        ("r-scales" ,r-scales)
+@@ -1611,6 +1616,8 @@ side.")
+         (base32
+          "0lafrmq1q7x026m92h01hc9cjjiximqqi3v1g2hw7ai9vf7i897m"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
+     (home-page "http://cran.r-project.org/web/packages/locfit")
+     (synopsis "Local regression, likelihood and density estimation")
+     (description
+@@ -1788,6 +1795,8 @@ inference for statistical models.")
+                (base32
+                 "14a4a8df4ygj05h37chmdn8kzcqs07fpbflxfrq530563mrza7yl"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
+     (home-page "http://cran.r-project.org/web/packages/coda")
+     (synopsis "This is a package for Output Analysis and Diagnostics for MCMC")
+     (description "This package provides functions for summarizing and plotting
+@@ -2936,6 +2945,8 @@ flexible than the orphaned \"base64\" package.")
+         (base32
+          "1qbcn0ix85pmk296jhpi419kvh06vxm5cq24yk013ps3g7fyi0si"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-matrix" ,r-matrix)))
+     (home-page "http://cran.r-project.org/web/packages/irlba")
+     (synopsis "Methods for eigendecomposition of large matrices")
+     (description
+@@ -2956,10 +2967,11 @@ analysis of large sparse or dense matrices.")
+       (base32
+        "1cbpzmbv837fvq88rgn6mgzgr9f1wqp9fg8gh2kkmngvr1957a9c"))))
+    (build-system r-build-system)
+-    (inputs
+-     `(("gfortran" ,gfortran)))
++   (inputs
++    `(("gfortran" ,gfortran)))
+    (propagated-inputs
+-    `(("r-foreach" ,r-foreach)))
++    `(("r-foreach" ,r-foreach)
++      ("r-matrix" ,r-matrix)))
+    (home-page "http://www.jstatsoft.org/v33/i01")
+    (synopsis "Lasso and elastic-net regularized generalized linear models")
+    (description
+@@ -3077,6 +3089,8 @@ Stochastic Neighbor Embedding using a Barnes-Hut implementation.")
+         (base32
+          "1069qwj9gsjq6par2cgfah8nn5x2w38830761x1f7mqpmk0gnj3h"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-class" ,r-class)))
+     (home-page "http://cran.r-project.org/web/packages/e1071")
+     (synopsis "Miscellaneous functions for probability theory")
+     (description
+@@ -3688,6 +3702,9 @@ from within R.")
+                (("if isnan\\(lambda\\) \\{")
+                 "if (isnan(lambda)) {"))
+              #t)))))
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)
++       ("r-matrix" ,r-matrix)))
+     (home-page "http://spams-devel.gforge.inria.fr")
+     (synopsis "Toolbox for solving sparse estimation problems")
+     (description "SPAMS (SPArse Modeling Software) is an optimization toolbox
+@@ -3746,17 +3763,20 @@ package instead.")
+      `(("r-acepack" ,r-acepack)
+        ("r-base64" ,r-base64)
+        ("r-base64enc" ,r-base64enc)
++       ("r-cluster" ,r-cluster)
+        ("r-data-table" ,r-data-table)
++       ("r-foreign" ,r-foreign)
+        ("r-formula" ,r-formula)
+        ("r-ggplot2" ,r-ggplot2)
+        ("r-gridextra" ,r-gridextra)
+        ("r-gtable" ,r-gtable)
+-       ;; Hmisc needs survival >= 2.40.1, so it cannot use the survival
+-       ;; package that comes with R 3.3.2.
+-       ("r-survival" ,r-survival)
++       ("r-lattice" ,r-lattice)
+        ("r-latticeextra" ,r-latticeextra)
+        ("r-htmltable" ,r-htmltable)
+        ("r-htmltools" ,r-htmltools)
++       ("r-nnet" ,r-nnet)
++       ("r-rpart" ,r-rpart)
++       ("r-survival" ,r-survival)
+        ("r-viridis" ,r-viridis)))
+     (home-page "http://biostat.mc.vanderbilt.edu/Hmisc")
+     (synopsis "Miscellaneous data analysis and graphics functions")
+@@ -4041,6 +4061,8 @@ estimation) corresponding to the book: Wand, M.P.  and Jones, M.C. (1995)
+                (base32
+                 "167m142rwwfy8b9hnfc3fi28dcsdjk61g1crqhll6sh5xmgnfn28"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
+     (home-page "http://zoo.R-Forge.R-project.org/")
+     (synopsis "S3 infrastructure for regular and irregular time series")
+     (description "This package contains an S3 class with methods for totally
+@@ -4307,7 +4329,9 @@ letters, as is often required for scientific publications.")
+          "133rr17ywmlhsc6457hs8qxi8ng443ql9ashxpwc8875gjhv1x32"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-segmented" ,r-segmented)))
++     `(("r-boot" ,r-boot)
++       ("r-mass" ,r-mass)
++       ("r-segmented" ,r-segmented)))
+     (home-page "http://cran.r-project.org/web/packages/mixtools")
+     (synopsis "Tools for analyzing finite mixture models")
+     (description
+@@ -4437,7 +4461,9 @@ to change in the future.")
+          "1i205yw3kkxs27gqcs6zx0c2mh16p332a2p06wq6fdzb20bazg3z"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-modeltools" ,r-modeltools)))
++     `(("r-lattice" ,r-lattice)
++       ("r-modeltools" ,r-modeltools)
++       ("r-nnet" ,r-nnet)))
+     (home-page "http://cran.r-project.org/web/packages/flexmix")
+     (synopsis "Flexible mixture modeling")
+     (description
+@@ -4484,7 +4510,8 @@ and resampling-based inference.")
+          "0qjsxrx6yv338bxm4ki0w9h8hind1l98abdrz828588bwj02jya1"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-mclust" ,r-mclust)))
++     `(("r-mass" ,r-mass)
++       ("r-mclust" ,r-mclust)))
+     (home-page "https://cran.r-project.org/web/packages/prabclus")
+     (synopsis "Parametric bootstrap tests for spatial neighborhood clustering")
+     (description
+@@ -4573,9 +4600,12 @@ of the points.")
+          "15m0p9l9w2v7sl0cnzyg81i2fmx3hrhvr3371544mwn3fpsca5sx"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-diptest" ,r-diptest)
++     `(("r-class" ,r-class)
++       ("r-cluster" ,r-cluster)
++       ("r-diptest" ,r-diptest)
+        ("r-flexmix" ,r-flexmix)
+        ("r-kernlab" ,r-kernlab)
++       ("r-mass" ,r-mass)
+        ("r-mclust" ,r-mclust)
+        ("r-mvtnorm" ,r-mvtnorm)
+        ("r-prabclus" ,r-prabclus)
+@@ -4694,7 +4724,8 @@ based on an interface to Fortran implementations by M. J. D. Powell.")
+     (properties `((upstream-name . "RcppEigen")))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-rcpp" ,r-rcpp)))
++     `(("r-rcpp" ,r-rcpp)
++       ("r-matrix" ,r-matrix)))
+     (home-page "http://eigen.tuxfamily.org")
+     (synopsis "Rcpp integration for the Eigen templated linear algebra library")
+     (description
+@@ -4739,6 +4770,8 @@ metrics for evaluating models.")
+          "0cyfvhci2p1vr2x52ymkyqqs63x1qchn856dh2j94yb93r08x1zy"))))
+     (properties `((upstream-name . "MatrixModels")))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-matrix" ,r-matrix)))
+     (home-page "https://cran.r-project.org/web/packages/MatrixModels")
+     (synopsis "Modelling with sparse and dense matrices")
+     (description
+@@ -4816,7 +4849,9 @@ algorithms.")
+        ("r-rcppeigen" ,r-rcppeigen)))
+     (propagated-inputs
+      `(("r-minqa" ,r-minqa)
+-       ("r-nloptr" ,r-nloptr)))
++       ("r-nloptr" ,r-nloptr)
++       ("r-mass" ,r-mass)
++       ("r-nlme" ,r-nlme)))
+     (home-page "http://cran.r-project.org/web/packages/lme4")
+     (synopsis "Linear mixed-effects models using eigen and S4")
+     (description
+@@ -4839,7 +4874,9 @@ C++ library for numerical linear algebra and RcppEigen glue.")
+          "00cw18q7wvddzjrbxz917wkix6r7672vi2wmsp4gwgzady8vha4x"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-lme4" ,r-lme4)))
++     `(("r-lme4" ,r-lme4)
++       ("r-mass" ,r-mass)
++       ("r-matrix" ,r-matrix)))
+     (home-page "http://people.math.aau.dk/~sorenh/software/pbkrtest/")
+     (synopsis "Methods for linear mixed model comparison")
+     (description
+@@ -4861,7 +4898,10 @@ bootstrap test for generalized linear mixed models.")
+          "0a6v7rsd1xsdyapnfqy37m7c4kx9wslkzsizc9k0lmnba0bwyfgx"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-pbkrtest" ,r-pbkrtest)
++     `(("r-mass" ,r-mass)
++       ("r-mgcv" ,r-mgcv)
++       ("r-nnet" ,r-nnet)
++       ("r-pbkrtest" ,r-pbkrtest)
+        ("r-quantreg" ,r-quantreg)))
+     (home-page "https://r-forge.r-project.org/projects/car/")
+     (synopsis "Companion to applied regression")
+@@ -5000,7 +5040,8 @@ multivariate case.")
+          "0a1b7yp4l9wf6ic5czizyl2cnxrc1virj0icr8i6m1vv23jd8jfp"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-mclust" ,r-mclust)
++     `(("r-cluster" ,r-cluster)
++       ("r-mclust" ,r-mclust)
+        ("r-mvtnorm" ,r-mvtnorm)
+        ("r-sn" ,r-sn)))
+     (home-page "http://cran.r-project.org/web/packages/tclust")
+diff --git a/guix/import/cran.scm b/guix/import/cran.scm
+index 40cdea029..7521a39bc 100644
+--- a/guix/import/cran.scm
++++ b/guix/import/cran.scm
+@@ -164,32 +164,16 @@ empty list when the FIELD cannot be found."
+                   (map string-trim-both items))))))
+ 
+ (define default-r-packages
+-  (list "KernSmooth"
+-        "MASS"
+-        "Matrix"
+-        "base"
+-        "boot"
+-        "class"
+-        "cluster"
+-        "codetools"
++  (list "base"
+         "compiler"
+-        "datasets"
+-        "foreign"
+         "grDevices"
+         "graphics"
+         "grid"
+-        "lattice"
+         "methods"
+-        "mgcv"
+-        "nlme"
+-        "nnet"
+         "parallel"
+-        "rpart"
+-        "spatial"
+         "splines"
+         "stats"
+         "stats4"
+-        "survival"
+         "tcltk"
+         "tools"
+         "translations"
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:04:01 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:04:01 2017
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+ Tue, 14 Mar 2017 02:03:45 -0700 (PDT)
+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 16/17] gnu: r: Do not build recommended packages.
+Date: Tue, 14 Mar 2017 10:02:55 +0100
+Message-Id: <20170314090256.7695-16-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
+In-Reply-To: <20170314090256.7695-1-rekado@example.com>
+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-Debbugs-Envelope-To: 26095
+Cc: Ricardo Wurmus <rekado@example.com>
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
+Precedence: list
+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
+ <mailto:debbugs-submit-request@debbugs.gnu.org?subject=unsubscribe>
+List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/>
+List-Post: <mailto:debbugs-submit@debbugs.gnu.org>
+List-Help: <mailto:debbugs-submit-request@debbugs.gnu.org?subject=help>
+List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, 
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+Errors-To: debbugs-submit-bounces@debbugs.gnu.org
+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: 1.0 (+)
+
+* gnu/packages/statistics.scm (r)[arguments]: Rename phase
+"build-recommended-packages-reproducibly" to "build-reproducibly"; add
+configure flag "--without-recommended-packages".
+* guix/import/cran.scm (default-r-packages): Remove recommended packages.
+* gnu/packages/bioinformatics.scm (r-ape)[propagated-inputs]: Add r-lattice
+and r-nlme.
+(r-vegan)[propagated-inputs]: Add r-mass.
+(r-genefilter)[propagated-inputs]: Add r-survival.
+(r-grohmm)[propagated-inputs]: Add r-mass.
+(r-bioccheck)[propagated-inputs]: Add r-codetools.
+(r-summarizedexperiment)[propagated-inputs]: Add r-matrix.
+(r-topgo)[propagated-inputs]: Add r-lattice.
+(r-sva)[propagated-inputs]: Add r-mgcv.
+(r-raremetals2)[propagated-inputs]: Add r-mass.
+(r-vsn)[propagated-inputs]: Add r-lattice.
+(r-pcamethods)[propagated-inputs]: Add r-mass.
+* gnu/packages/bioinformatics.scm (r-ggplot2)[propagated-inputs]: Add r-mass.
+(r-locfit)[propagated-inputs]: Add r-lattice.
+(r-coda)[propagated-inputs]: Add r-lattice.
+(r-irlba)[propagated-inputs]: Add r-matrix.
+(r-glmnet)[propagated-inputs]: Add r-matrix.
+(r-e1071)[propagated-inputs]: Add r-class.
+(r-spams)[propagated-inputs]: Add r-lattice and r-matrix.
+(r-hmisc)[propagated-inputs]: Add r-cluster, r-foreign, r-lattice, r-nnet, and
+r-rpart.
+(r-zoo)[propagated-inputs]: Add r-lattice.
+(r-mixtools)[propagated-inputs]: Add r-boot and r-mass.
+(r-flexmix)[propagated-inputs]: Add r-lattice and r-nnet.
+(r-prabclus)[propagated-inputs]: Add r-mass.
+(r-fpc)[propagated-inputs]: Add r-class, r-cluster, and r-mass.
+(r-rcppeigen)[propagated-inputs]: Add r-matrix.
+(r-matrixmodels)[propagated-inputs]: Add r-matrix.
+(r-lme4)[propagated-inputs]: Add r-mass and r-nlme.
+(r-pbkrtest)[propagated-inputs]: Add r-mass and r-matrix.
+(r-car)[propagated-inputs]: Add r-mass, r-mgcv, and r-nnet.
+(r-tclust)[propagated-inputs]: Add r-cluster.
+---
+ gnu/packages/bioinformatics.scm | 21 +++++++++--
+ gnu/packages/statistics.scm     | 83 ++++++++++++++++++++++++++++++-----------
+ guix/import/cran.scm            | 18 +--------
+ 3 files changed, 80 insertions(+), 42 deletions(-)
+
+diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
+index 770bea7e3..daef0f6de 100644
+--- a/gnu/packages/bioinformatics.scm
++++ b/gnu/packages/bioinformatics.scm
+@@ -108,6 +108,9 @@
+         (base32
+          "0959fiiy11rzfzrzaknmgrx64bhszj02l0ycz79k5a6bmpfzanlk"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)
++       ("r-nlme" ,r-nlme)))
+     (home-page "http://ape-package.ird.fr/")
+     (synopsis "Analyses of phylogenetics and evolution")
+     (description
+@@ -5344,6 +5347,7 @@ information as possible.")
+     (propagated-inputs
+      `(("r-cluster" ,r-cluster)
+        ("r-lattice" ,r-lattice)
++       ("r-mass" ,r-mass)
+        ("r-mgcv" ,r-mgcv)
+        ("r-permute" ,r-permute)))
+     (home-page "https://cran.r-project.org/web/packages/vegan")
+@@ -5425,7 +5429,8 @@ microarrays.")
+      `(("r-annotate" ,r-annotate)
+        ("r-annotationdbi" ,r-annotationdbi)
+        ("r-biobase" ,r-biobase)
+-       ("r-s4vectors" ,r-s4vectors)))
++       ("r-s4vectors" ,r-s4vectors)
++       ("r-survival" ,r-survival)))
+     (home-page "http://bioconductor.org/packages/genefilter")
+     (synopsis "Filter genes from high-throughput experiments")
+     (description
+@@ -5723,6 +5728,7 @@ annotation infrastructure.")
+        ("r-genomicalignments" ,r-genomicalignments)
+        ("r-genomicranges" ,r-genomicranges)
+        ("r-iranges" ,r-iranges)
++       ("r-mass" ,r-mass)
+        ("r-rtracklayer" ,r-rtracklayer)
+        ("r-s4vectors" ,r-s4vectors)))
+     (home-page "https://github.com/Kraus-Lab/groHMM")
+@@ -6122,7 +6128,8 @@ functionality.")
+     (native-inputs
+      `(("which" ,which)))
+     (propagated-inputs
+-     `(("r-graph" ,r-graph)
++     `(("r-codetools" ,r-codetools)
++       ("r-graph" ,r-graph)
+        ("r-knitr" ,r-knitr)
+        ("r-httr" ,r-httr)
+        ("r-optparse" ,r-optparse)
+@@ -6650,6 +6657,7 @@ files.")
+        ("r-genomeinfodb" ,r-genomeinfodb)
+        ("r-genomicranges" ,r-genomicranges)
+        ("r-iranges" ,r-iranges)
++       ("r-matrix" ,r-matrix)
+        ("r-s4vectors" ,r-s4vectors)))
+     (home-page "http://bioconductor.org/packages/SummarizedExperiment")
+     (synopsis "Container for representing genomic ranges by sample")
+@@ -6841,8 +6849,9 @@ information about the latest version of the Gene Ontologies.")
+        ("r-biobase" ,r-biobase)
+        ("r-biocgenerics" ,r-biocgenerics)
+        ("r-go-db" ,r-go-db)
+-       ("r-matrixstats" ,r-matrixstats)
+        ("r-graph" ,r-graph)
++       ("r-lattice" ,r-lattice)
++       ("r-matrixstats" ,r-matrixstats)
+        ("r-sparsem" ,r-sparsem)))
+     (home-page "http://bioconductor.org/packages/topGO")
+     (synopsis "Enrichment analysis for gene ontology")
+@@ -8234,7 +8243,8 @@ number detection tools.")
+          "1wc1fjm6dzlsqqagm43y57w8jh8nsh0r0m8z1p6ximcb5gxqh7hn"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-genefilter" ,r-genefilter)))
++     `(("r-genefilter" ,r-genefilter)
++       ("r-mgcv" ,r-mgcv)))
+     (home-page "http://bioconductor.org/packages/sva")
+     (synopsis "Surrogate variable analysis")
+     (description
+@@ -8286,6 +8296,7 @@ data (variant call format, e.g. VCF or BCF) or meta-analysis results in R.")
+     (propagated-inputs
+      `(("r-seqminer" ,r-seqminer)
+        ("r-mvtnorm" ,r-mvtnorm)
++       ("r-mass" ,r-mass)
+        ("r-compquadform" ,r-compquadform)
+        ("r-getopt" ,r-getopt)))
+     (home-page "http://genome.sph.umich.edu/wiki/RareMETALS2")
+@@ -8444,6 +8455,7 @@ analysis.")
+      `(("r-affy" ,r-affy)
+        ("r-biobase" ,r-biobase)
+        ("r-ggplot2" ,r-ggplot2)
++       ("r-lattice" ,r-lattice)
+        ("r-limma" ,r-limma)))
+     (home-page "http://bioconductor.org/packages/release/bioc/html/vsn.html")
+     (synopsis "Variance stabilization and calibration for microarray data")
+@@ -8507,6 +8519,7 @@ specific parser.")
+     (propagated-inputs
+      `(("r-biobase" ,r-biobase)
+        ("r-biocgenerics" ,r-biocgenerics)
++       ("r-mass" ,r-mass)
+        ("r-rcpp" ,r-rcpp)))
+     (home-page "https://github.com/hredestig/pcamethods")
+     (synopsis "Collection of PCA methods")
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index c836409b6..b8abbf62d 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -99,6 +99,9 @@ can be imported from spreadsheets, text files and database sources and it can
+ be output in text, PostScript, PDF or HTML.")
+     (license license:gpl3+)))
+ 
++;; Update this package together with the set of recommended packages: r-boot,
++;; r-class, r-cluster, r-codetools, r-foreign, r-kernsmooth, r-lattice,
++;; r-mass, r-matrix, r-mgcv, r-nlme, r-nnet, r-rpart, r-spatial, r-survival.
+ (define-public r
+   (package
+     (name "r")
+@@ -128,12 +131,8 @@ be output in text, PostScript, PDF or HTML.")
+                (substitute* "src/scripts/R.sh.in"
+                  (("uname") uname-bin)))
+              #t))
+-         (add-after 'unpack 'build-recommended-packages-reproducibly
++         (add-after 'unpack 'build-reproducibly
+            (lambda _
+-             (substitute* "src/library/Recommended/Makefile.in"
+-               (("INSTALL_OPTS =(.*)" line rest )
+-                (string-append "INSTALL_OPTS = --built-timestamp=1970-01-01"
+-                               rest)))
+              ;; Ensure that gzipped files are reproducible
+              (substitute* '("src/library/grDevices/Makefile.in"
+                             "doc/manual/Makefile.in")
+@@ -162,7 +161,12 @@ be output in text, PostScript, PDF or HTML.")
+          (add-after 'build 'install-info
+           (lambda _ (zero? (system* "make" "install-info")))))
+        #:configure-flags
+-       '("--with-cairo"
++       '(;; Do not build the recommended packages.  The build system creates
++         ;; random temporary directories and embeds their names in some
++         ;; package files.  We build these packages with the r-build-system
++         ;; instead.
++         "--without-recommended-packages"
++         "--with-cairo"
+          "--with-blas=-lopenblas"
+          "--with-libpng"
+          "--with-jpeglib"
+@@ -991,6 +995,7 @@ legends.")
+        ("r-gtable" ,r-gtable)
+        ("r-plyr" ,r-plyr)
+        ("r-lazyeval" ,r-lazyeval)
++       ("r-mass" ,r-mass)
+        ("r-tibble" ,r-tibble)
+        ("r-reshape2" ,r-reshape2)
+        ("r-scales" ,r-scales)
+@@ -1611,6 +1616,8 @@ side.")
+         (base32
+          "0lafrmq1q7x026m92h01hc9cjjiximqqi3v1g2hw7ai9vf7i897m"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
+     (home-page "http://cran.r-project.org/web/packages/locfit")
+     (synopsis "Local regression, likelihood and density estimation")
+     (description
+@@ -1788,6 +1795,8 @@ inference for statistical models.")
+                (base32
+                 "14a4a8df4ygj05h37chmdn8kzcqs07fpbflxfrq530563mrza7yl"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
+     (home-page "http://cran.r-project.org/web/packages/coda")
+     (synopsis "This is a package for Output Analysis and Diagnostics for MCMC")
+     (description "This package provides functions for summarizing and plotting
+@@ -2936,6 +2945,8 @@ flexible than the orphaned \"base64\" package.")
+         (base32
+          "1qbcn0ix85pmk296jhpi419kvh06vxm5cq24yk013ps3g7fyi0si"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-matrix" ,r-matrix)))
+     (home-page "http://cran.r-project.org/web/packages/irlba")
+     (synopsis "Methods for eigendecomposition of large matrices")
+     (description
+@@ -2956,10 +2967,11 @@ analysis of large sparse or dense matrices.")
+       (base32
+        "1cbpzmbv837fvq88rgn6mgzgr9f1wqp9fg8gh2kkmngvr1957a9c"))))
+    (build-system r-build-system)
+-    (inputs
+-     `(("gfortran" ,gfortran)))
++   (inputs
++    `(("gfortran" ,gfortran)))
+    (propagated-inputs
+-    `(("r-foreach" ,r-foreach)))
++    `(("r-foreach" ,r-foreach)
++      ("r-matrix" ,r-matrix)))
+    (home-page "http://www.jstatsoft.org/v33/i01")
+    (synopsis "Lasso and elastic-net regularized generalized linear models")
+    (description
+@@ -3077,6 +3089,8 @@ Stochastic Neighbor Embedding using a Barnes-Hut implementation.")
+         (base32
+          "1069qwj9gsjq6par2cgfah8nn5x2w38830761x1f7mqpmk0gnj3h"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-class" ,r-class)))
+     (home-page "http://cran.r-project.org/web/packages/e1071")
+     (synopsis "Miscellaneous functions for probability theory")
+     (description
+@@ -3688,6 +3702,9 @@ from within R.")
+                (("if isnan\\(lambda\\) \\{")
+                 "if (isnan(lambda)) {"))
+              #t)))))
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)
++       ("r-matrix" ,r-matrix)))
+     (home-page "http://spams-devel.gforge.inria.fr")
+     (synopsis "Toolbox for solving sparse estimation problems")
+     (description "SPAMS (SPArse Modeling Software) is an optimization toolbox
+@@ -3746,17 +3763,20 @@ package instead.")
+      `(("r-acepack" ,r-acepack)
+        ("r-base64" ,r-base64)
+        ("r-base64enc" ,r-base64enc)
++       ("r-cluster" ,r-cluster)
+        ("r-data-table" ,r-data-table)
++       ("r-foreign" ,r-foreign)
+        ("r-formula" ,r-formula)
+        ("r-ggplot2" ,r-ggplot2)
+        ("r-gridextra" ,r-gridextra)
+        ("r-gtable" ,r-gtable)
+-       ;; Hmisc needs survival >= 2.40.1, so it cannot use the survival
+-       ;; package that comes with R 3.3.2.
+-       ("r-survival" ,r-survival)
++       ("r-lattice" ,r-lattice)
+        ("r-latticeextra" ,r-latticeextra)
+        ("r-htmltable" ,r-htmltable)
+        ("r-htmltools" ,r-htmltools)
++       ("r-nnet" ,r-nnet)
++       ("r-rpart" ,r-rpart)
++       ("r-survival" ,r-survival)
+        ("r-viridis" ,r-viridis)))
+     (home-page "http://biostat.mc.vanderbilt.edu/Hmisc")
+     (synopsis "Miscellaneous data analysis and graphics functions")
+@@ -4041,6 +4061,8 @@ estimation) corresponding to the book: Wand, M.P.  and Jones, M.C. (1995)
+                (base32
+                 "167m142rwwfy8b9hnfc3fi28dcsdjk61g1crqhll6sh5xmgnfn28"))))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-lattice" ,r-lattice)))
+     (home-page "http://zoo.R-Forge.R-project.org/")
+     (synopsis "S3 infrastructure for regular and irregular time series")
+     (description "This package contains an S3 class with methods for totally
+@@ -4307,7 +4329,9 @@ letters, as is often required for scientific publications.")
+          "133rr17ywmlhsc6457hs8qxi8ng443ql9ashxpwc8875gjhv1x32"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-segmented" ,r-segmented)))
++     `(("r-boot" ,r-boot)
++       ("r-mass" ,r-mass)
++       ("r-segmented" ,r-segmented)))
+     (home-page "http://cran.r-project.org/web/packages/mixtools")
+     (synopsis "Tools for analyzing finite mixture models")
+     (description
+@@ -4437,7 +4461,9 @@ to change in the future.")
+          "1i205yw3kkxs27gqcs6zx0c2mh16p332a2p06wq6fdzb20bazg3z"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-modeltools" ,r-modeltools)))
++     `(("r-lattice" ,r-lattice)
++       ("r-modeltools" ,r-modeltools)
++       ("r-nnet" ,r-nnet)))
+     (home-page "http://cran.r-project.org/web/packages/flexmix")
+     (synopsis "Flexible mixture modeling")
+     (description
+@@ -4484,7 +4510,8 @@ and resampling-based inference.")
+          "0qjsxrx6yv338bxm4ki0w9h8hind1l98abdrz828588bwj02jya1"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-mclust" ,r-mclust)))
++     `(("r-mass" ,r-mass)
++       ("r-mclust" ,r-mclust)))
+     (home-page "https://cran.r-project.org/web/packages/prabclus")
+     (synopsis "Parametric bootstrap tests for spatial neighborhood clustering")
+     (description
+@@ -4573,9 +4600,12 @@ of the points.")
+          "15m0p9l9w2v7sl0cnzyg81i2fmx3hrhvr3371544mwn3fpsca5sx"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-diptest" ,r-diptest)
++     `(("r-class" ,r-class)
++       ("r-cluster" ,r-cluster)
++       ("r-diptest" ,r-diptest)
+        ("r-flexmix" ,r-flexmix)
+        ("r-kernlab" ,r-kernlab)
++       ("r-mass" ,r-mass)
+        ("r-mclust" ,r-mclust)
+        ("r-mvtnorm" ,r-mvtnorm)
+        ("r-prabclus" ,r-prabclus)
+@@ -4694,7 +4724,8 @@ based on an interface to Fortran implementations by M. J. D. Powell.")
+     (properties `((upstream-name . "RcppEigen")))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-rcpp" ,r-rcpp)))
++     `(("r-rcpp" ,r-rcpp)
++       ("r-matrix" ,r-matrix)))
+     (home-page "http://eigen.tuxfamily.org")
+     (synopsis "Rcpp integration for the Eigen templated linear algebra library")
+     (description
+@@ -4739,6 +4770,8 @@ metrics for evaluating models.")
+          "0cyfvhci2p1vr2x52ymkyqqs63x1qchn856dh2j94yb93r08x1zy"))))
+     (properties `((upstream-name . "MatrixModels")))
+     (build-system r-build-system)
++    (propagated-inputs
++     `(("r-matrix" ,r-matrix)))
+     (home-page "https://cran.r-project.org/web/packages/MatrixModels")
+     (synopsis "Modelling with sparse and dense matrices")
+     (description
+@@ -4816,7 +4849,9 @@ algorithms.")
+        ("r-rcppeigen" ,r-rcppeigen)))
+     (propagated-inputs
+      `(("r-minqa" ,r-minqa)
+-       ("r-nloptr" ,r-nloptr)))
++       ("r-nloptr" ,r-nloptr)
++       ("r-mass" ,r-mass)
++       ("r-nlme" ,r-nlme)))
+     (home-page "http://cran.r-project.org/web/packages/lme4")
+     (synopsis "Linear mixed-effects models using eigen and S4")
+     (description
+@@ -4839,7 +4874,9 @@ C++ library for numerical linear algebra and RcppEigen glue.")
+          "00cw18q7wvddzjrbxz917wkix6r7672vi2wmsp4gwgzady8vha4x"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-lme4" ,r-lme4)))
++     `(("r-lme4" ,r-lme4)
++       ("r-mass" ,r-mass)
++       ("r-matrix" ,r-matrix)))
+     (home-page "http://people.math.aau.dk/~sorenh/software/pbkrtest/")
+     (synopsis "Methods for linear mixed model comparison")
+     (description
+@@ -4861,7 +4898,10 @@ bootstrap test for generalized linear mixed models.")
+          "0a6v7rsd1xsdyapnfqy37m7c4kx9wslkzsizc9k0lmnba0bwyfgx"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-pbkrtest" ,r-pbkrtest)
++     `(("r-mass" ,r-mass)
++       ("r-mgcv" ,r-mgcv)
++       ("r-nnet" ,r-nnet)
++       ("r-pbkrtest" ,r-pbkrtest)
+        ("r-quantreg" ,r-quantreg)))
+     (home-page "https://r-forge.r-project.org/projects/car/")
+     (synopsis "Companion to applied regression")
+@@ -5000,7 +5040,8 @@ multivariate case.")
+          "0a1b7yp4l9wf6ic5czizyl2cnxrc1virj0icr8i6m1vv23jd8jfp"))))
+     (build-system r-build-system)
+     (propagated-inputs
+-     `(("r-mclust" ,r-mclust)
++     `(("r-cluster" ,r-cluster)
++       ("r-mclust" ,r-mclust)
+        ("r-mvtnorm" ,r-mvtnorm)
+        ("r-sn" ,r-sn)))
+     (home-page "http://cran.r-project.org/web/packages/tclust")
+diff --git a/guix/import/cran.scm b/guix/import/cran.scm
+index 40cdea029..7521a39bc 100644
+--- a/guix/import/cran.scm
++++ b/guix/import/cran.scm
+@@ -164,32 +164,16 @@ empty list when the FIELD cannot be found."
+                   (map string-trim-both items))))))
+ 
+ (define default-r-packages
+-  (list "KernSmooth"
+-        "MASS"
+-        "Matrix"
+-        "base"
+-        "boot"
+-        "class"
+-        "cluster"
+-        "codetools"
++  (list "base"
+         "compiler"
+-        "datasets"
+-        "foreign"
+         "grDevices"
+         "graphics"
+         "grid"
+-        "lattice"
+         "methods"
+-        "mgcv"
+-        "nlme"
+-        "nnet"
+         "parallel"
+-        "rpart"
+-        "spatial"
+         "splines"
+         "stats"
+         "stats4"
+-        "survival"
+         "tcltk"
+         "tools"
+         "translations"
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489482248 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: [PATCH 17/17] gnu: Add r-with-recommended-packages.
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Tue, 14 Mar 2017 09:04:08 +0000
+Resent-Message-ID: <handler.26095.B26095.148948224111191@debbugs.gnu.org>
+Resent-Sender: help-debbugs@gnu.org
+X-GNU-PR-Message: followup 26095
+X-GNU-PR-Package: guix-patches
+X-GNU-PR-Keywords: 
+To: 26095@debbugs.gnu.org
+Cc: Ricardo Wurmus <rekado@example.com>
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.148948224111191
+          (code B ref 26095); Tue, 14 Mar 2017 09:04:08 +0000
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+From: Ricardo Wurmus <rekado@example.com>
+Date: Tue, 14 Mar 2017 10:02:56 +0100
+Message-Id: <20170314090256.7695-17-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
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+References: <87h92w1cu0.fsf@example.com>
+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
+X-BeenThere: debbugs-submit@debbugs.gnu.org
+X-Mailman-Version: 2.1.18
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+List-Id: <debbugs-submit.debbugs.gnu.org>
+List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, 
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+List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/>
+List-Post: <mailto:debbugs-submit@debbugs.gnu.org>
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+List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, 
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+
+* gnu/packages/statistics.scm (r-with-recommended-packages): New variable.
+---
+ gnu/packages/statistics.scm | 25 +++++++++++++++++++++++++
+ 1 file changed, 25 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index b8abbf62d..656895273 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -31,6 +31,7 @@
+   #:use-module (guix build-system gnu)
+   #:use-module (guix build-system r)
+   #:use-module (guix build-system python)
++  #:use-module (guix build-system trivial)
+   #:use-module (gnu packages)
+   #:use-module (gnu packages compression)
+   #:use-module (gnu packages curl)
+@@ -537,6 +538,30 @@ definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state)
+ curves, Cox models, and parametric accelerated failure time models.")
+     (license license:lgpl2.0+)))
+ 
++(define-public r-with-recommended-packages
++  (package (inherit r)
++    (name "r-with-recommended-packages")
++    (source #f)
++    (build-system trivial-build-system)
++    (arguments '(#:builder (mkdir %output)))
++    (propagated-inputs
++     `(("r" ,r)
++       ("r-boot" ,r-boot)
++       ("r-class" ,r-class)
++       ("r-cluster" ,r-cluster)
++       ("r-codetools" ,r-codetools)
++       ("r-foreign" ,r-foreign)
++       ("r-kernsmooth" ,r-kernsmooth)
++       ("r-lattice" ,r-lattice)
++       ("r-mass" ,r-mass)
++       ("r-matrix" ,r-matrix)
++       ("r-mgcv" ,r-mgcv)
++       ("r-nlme" ,r-nlme)
++       ("r-nnet" ,r-nnet)
++       ("r-rpart" ,r-rpart)
++       ("r-spatial" ,r-spatial)
++       ("r-survival" ,r-survival)))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 14 Mar 2017 09:04:01 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Tue Mar 14 05:04:01 2017
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+From: Ricardo Wurmus <rekado@example.com>
+To: 26095@debbugs.gnu.org
+Subject: [PATCH 17/17] gnu: Add r-with-recommended-packages.
+Date: Tue, 14 Mar 2017 10:02:56 +0100
+Message-Id: <20170314090256.7695-17-rekado@example.com>
+X-Mailer: git-send-email 2.12.0
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+ <20170314090256.7695-1-rekado@example.com>
+X-Spam-Score: 1.0 (+)
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+Cc: Ricardo Wurmus <rekado@example.com>
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+
+* gnu/packages/statistics.scm (r-with-recommended-packages): New variable.
+---
+ gnu/packages/statistics.scm | 25 +++++++++++++++++++++++++
+ 1 file changed, 25 insertions(+)
+
+diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
+index b8abbf62d..656895273 100644
+--- a/gnu/packages/statistics.scm
++++ b/gnu/packages/statistics.scm
+@@ -31,6 +31,7 @@
+   #:use-module (guix build-system gnu)
+   #:use-module (guix build-system r)
+   #:use-module (guix build-system python)
++  #:use-module (guix build-system trivial)
+   #:use-module (gnu packages)
+   #:use-module (gnu packages compression)
+   #:use-module (gnu packages curl)
+@@ -537,6 +538,30 @@ definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state)
+ curves, Cox models, and parametric accelerated failure time models.")
+     (license license:lgpl2.0+)))
+ 
++(define-public r-with-recommended-packages
++  (package (inherit r)
++    (name "r-with-recommended-packages")
++    (source #f)
++    (build-system trivial-build-system)
++    (arguments '(#:builder (mkdir %output)))
++    (propagated-inputs
++     `(("r" ,r)
++       ("r-boot" ,r-boot)
++       ("r-class" ,r-class)
++       ("r-cluster" ,r-cluster)
++       ("r-codetools" ,r-codetools)
++       ("r-foreign" ,r-foreign)
++       ("r-kernsmooth" ,r-kernsmooth)
++       ("r-lattice" ,r-lattice)
++       ("r-mass" ,r-mass)
++       ("r-matrix" ,r-matrix)
++       ("r-mgcv" ,r-mgcv)
++       ("r-nlme" ,r-nlme)
++       ("r-nnet" ,r-nnet)
++       ("r-rpart" ,r-rpart)
++       ("r-spatial" ,r-spatial)
++       ("r-survival" ,r-survival)))))
++
+ (define-public r-bit
+   (package
+     (name "r-bit")
+-- 
+2.12.0
+
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489611122 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: R: do not build recommended packages
+Resent-From: John Lennon <john@example.com>
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+Cc: 26095@debbugs.gnu.org
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+
+On Tue, Mar 14, 2017 at 09:28:55AM +0100, Ricardo Wurmus wrote:
+> This relates to bug 25598 =E2=80=9CR packages are not bit-reproducible=E2=
+=80=9D.  R
+> itself does not build reproducibly.  One of the reasons is that it
+> includes recommended packages that are built in a random temporary
+> directory.  The build paths for each of these packages is then embedded
+> in the packages=E2=80=99 =E2=80=9Cpaths.rds=E2=80=9D files.
+>=20
+> We don=E2=80=99t have this problem when building the packages with the
+> =E2=80=9Cr-build-system=E2=80=9D like any other R package.
+>=20
+> This patch set adds package expressions for each of the recommended
+> packages, disables building of recommended packages, and adds some of
+> these packages to those R packages that need them.
+>=20
+> I=E2=80=99ve successfully rebuilt all R packages to make sure that these =
+changes
+> don=E2=80=99t break anything.
+>=20
+> I also have an unpolished patch to fix bug 25598, but it depends on this
+> patch set.
+
+Overall this patch series LGTM. I leave it up to you and the other
+bio-info hackers to decide if it's the best solution.
+
+--dDRMvlgZJXvWKvBx
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+Date: Wed, 15 Mar 2017 16:51:43 -0400
+From: John Lennon <john@example.com>
+To: Ricardo Wurmus <rekado@example.com>
+Subject: Re: bug#26095: R: do not build recommended packages
+Message-ID: <20170315205143.GA7417@jasmine>
+References: <87h92w1cu0.fsf@example.com>
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+
+--dDRMvlgZJXvWKvBx
+Content-Type: text/plain; charset=utf-8
+Content-Disposition: inline
+Content-Transfer-Encoding: quoted-printable
+
+On Tue, Mar 14, 2017 at 09:28:55AM +0100, Ricardo Wurmus wrote:
+> This relates to bug 25598 =E2=80=9CR packages are not bit-reproducible=E2=
+=80=9D.  R
+> itself does not build reproducibly.  One of the reasons is that it
+> includes recommended packages that are built in a random temporary
+> directory.  The build paths for each of these packages is then embedded
+> in the packages=E2=80=99 =E2=80=9Cpaths.rds=E2=80=9D files.
+>=20
+> We don=E2=80=99t have this problem when building the packages with the
+> =E2=80=9Cr-build-system=E2=80=9D like any other R package.
+>=20
+> This patch set adds package expressions for each of the recommended
+> packages, disables building of recommended packages, and adds some of
+> these packages to those R packages that need them.
+>=20
+> I=E2=80=99ve successfully rebuilt all R packages to make sure that these =
+changes
+> don=E2=80=99t break anything.
+>=20
+> I also have an unpolished patch to fix bug 25598, but it depends on this
+> patch set.
+
+Overall this patch series LGTM. I leave it up to you and the other
+bio-info hackers to decide if it's the best solution.
+
+--dDRMvlgZJXvWKvBx
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+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489616582 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: R: do not build recommended packages
+Resent-From: Paul McCartney <p.mccartney@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
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+To: Ricardo Wurmus <rekado@example.com>, 26095@debbugs.gnu.org
+Received: via spool by 26095-submit@debbugs.gnu.org id=B26095.14896165667752
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+From: Paul McCartney <p.mccartney@example.com>
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+
+Hi Ricardo,
+
+Good stuff.
+
+On 14/03/17 18:28, Ricardo Wurmus wrote:
+> [..]
+>
+> This patch set adds package expressions for each of the recommended
+> packages, disables building of recommended packages, and adds some of
+> these packages to those R packages that need them.
+What do you think about having an "r" and 
+"r-without-recommended-packages" instead of 
+"r-with-recommended-packages" and "r", respectively? When people load R, 
+they expect to have the recommended packages, don't they?
+
+Thanks,
+ben
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 15 Mar 2017 22:22:46 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Wed Mar 15 18:22:46 2017
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+ Thu, 16 Mar 2017 08:22:40 +1000
+Subject: Re: bug#26095: R: do not build recommended packages
+To: Ricardo Wurmus <rekado@example.com>, 26095@debbugs.gnu.org
+References: <87h92w1cu0.fsf@example.com>
+From: Paul McCartney <p.mccartney@example.com>
+Message-ID: <4d4ea5ba-1414-0362-3d9a-49be575308d2@example.com>
+Date: Thu, 16 Mar 2017 08:22:39 +1000
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: -2.3 (--)
+
+Hi Ricardo,
+
+Good stuff.
+
+On 14/03/17 18:28, Ricardo Wurmus wrote:
+> [..]
+>
+> This patch set adds package expressions for each of the recommended
+> packages, disables building of recommended packages, and adds some of
+> these packages to those R packages that need them.
+What do you think about having an "r" and 
+"r-without-recommended-packages" instead of 
+"r-with-recommended-packages" and "r", respectively? When people load R, 
+they expect to have the recommended packages, don't they?
+
+Thanks,
+ben
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489672381 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: R: do not build recommended packages
+Resent-From: Ricardo Wurmus <rekado@example.com>
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+Resent-CC: guix-patches@gnu.org
+Resent-Date: Thu, 16 Mar 2017 13:53:01 +0000
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+Cc: 26095@debbugs.gnu.org
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+ with SMTPS id 1489672369603818.7135798037732;
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+References: <87h92w1cu0.fsf@example.com>
+ <4d4ea5ba-1414-0362-3d9a-49be575308d2@example.com>
+User-agent: mu4e 0.9.18; emacs 25.1.1
+From: Ricardo Wurmus <rekado@example.com>
+In-reply-to: <4d4ea5ba-1414-0362-3d9a-49be575308d2@example.com>
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+Date: Thu, 16 Mar 2017 14:52:49 +0100
+Message-ID: <87pohhuy4u.fsf@example.com>
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+
+Hi Ben,
+
+> What do you think about having an "r" and
+> "r-without-recommended-packages" instead of
+> "r-with-recommended-packages" and "r", respectively?
+
+> When people load R, they expect to have the recommended packages,
+> don't they?
+
+I’m not sure.  On the one hand it seems good to offer R with recommended
+packages.  On the other hand, people who already use R from Guix would
+probably install R packages from Guix as well.
+
+If we offered R without the recommended packages by default, we would
+still use the R variant without recommended packages for the
+r-build-system.
+
+This means that we’d have a package variable “r” with the package name
+“r-without-recommended-packages” and a package variable
+“r-with-recommended-packages” with the package name “r”.
+
+Alternatively, we could change the r-build-system to use “r-minimal” by
+default, rename “r” to “r-minimal” (both variable and package name), and
+then rename “r-with-recommended-packages” to just “r” (both variable and
+package name).
+
+What do you think?
+
+--
+Ricardo
+
+GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+https://example.com
+
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 16 Mar 2017 13:52:53 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Thu Mar 16 09:52:53 2017
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+ for 26095@debbugs.gnu.org; Thu, 16 Mar 2017 09:52:52 -0400
+Received: from localhost (141.80.148.144 [141.80.148.144]) by mx.zohomail.com
+ with SMTPS id 1489672369603818.7135798037732;
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+References: <87h92w1cu0.fsf@example.com>
+ <4d4ea5ba-1414-0362-3d9a-49be575308d2@example.com>
+User-agent: mu4e 0.9.18; emacs 25.1.1
+From: Ricardo Wurmus <rekado@example.com>
+To: Paul McCartney <p.mccartney@example.com>
+Subject: Re: bug#26095: R: do not build recommended packages
+In-reply-to: <4d4ea5ba-1414-0362-3d9a-49be575308d2@example.com>
+X-URL: https://example.com
+X-PGP-Key: https://example.com/rekado.pubkey
+X-PGP-Fingerprint: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+Date: Thu, 16 Mar 2017 14:52:49 +0100
+Message-ID: <87pohhuy4u.fsf@example.com>
+MIME-Version: 1.0
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: -1.8 (-)
+
+Hi Ben,
+
+> What do you think about having an "r" and
+> "r-without-recommended-packages" instead of
+> "r-with-recommended-packages" and "r", respectively?
+
+> When people load R, they expect to have the recommended packages,
+> don't they?
+
+I’m not sure.  On the one hand it seems good to offer R with recommended
+packages.  On the other hand, people who already use R from Guix would
+probably install R packages from Guix as well.
+
+If we offered R without the recommended packages by default, we would
+still use the R variant without recommended packages for the
+r-build-system.
+
+This means that we’d have a package variable “r” with the package name
+“r-without-recommended-packages” and a package variable
+“r-with-recommended-packages” with the package name “r”.
+
+Alternatively, we could change the r-build-system to use “r-minimal” by
+default, rename “r” to “r-minimal” (both variable and package name), and
+then rename “r-with-recommended-packages” to just “r” (both variable and
+package name).
+
+What do you think?
+
+--
+Ricardo
+
+GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+https://example.com
+
+
+
+
+
+
+<!-- request_addr: Ricardo Wurmus &lt;rekado@example.com&gt; -->
+<!-- time:1489742222 -->
+<strong>Reply sent</strong>
+to <code>Ricardo Wurmus &lt;rekado@example.com&gt;</code>:<br>
+You have taken responsibility.
+
+
+-t
+
+MIME-Version: 1.0
+X-Mailer: MIME-tools 5.505 (Entity 5.505)
+X-Loop: help-debbugs@gnu.org
+From: help-debbugs@gnu.org (GNU bug Tracking System)
+To: Ricardo Wurmus <rekado@example.com>
+Subject: bug#26095: closed (R: do not build recommended packages)
+CC: tracker@debbugs.gnu.org
+Message-ID: <handler.26095.D26095.148974222027144.ackdone@debbugs.gnu.org>
+References: <8737ecz2im.fsf@example.com> <87h92w1cu0.fsf@example.com>
+X-Gnu-PR-Message: closed 26095
+X-Gnu-PR-Package: guix-patches
+Date: Fri, 17 Mar 2017 09:17:02 +0000
+Content-Type: multipart/mixed; boundary="----------=_1489742222-27156-0"
+
+This is a multi-part message in MIME format...
+
+------------=_1489742222-27156-0
+Content-Disposition: inline
+Content-Transfer-Encoding: quoted-printable
+Content-Type: text/plain; charset=utf-8
+
+Your message dated Fri, 17 Mar 2017 10:16:49 +0100
+with message-id <8737ecz2im.fsf@example.com>
+and subject line Re: bug#26095: R: do not build recommended packages
+has caused the debbugs.gnu.org bug report #26095,
+regarding R: do not build recommended packages
+to be marked as done.
+
+(If you believe you have received this mail in error, please contact
+help-debbugs@gnu.org.)
+
+
+--=20
+26095: http://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D26095
+GNU Bug Tracking System
+Contact help-debbugs@gnu.org with problems
+
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+User-agent: mu4e 0.9.18; emacs 25.1.1
+From: Ricardo Wurmus <rekado@example.com>
+To: guix-patches@gnu.org
+Subject: R: do not build recommended packages
+X-URL: https://example.com
+X-PGP-Key: https://example.com/rekado.pubkey
+X-PGP-Fingerprint: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+Date: Tue, 14 Mar 2017 09:28:55 +0100
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+
+This relates to bug 25598 “R packages are not bit-reproducible”.  R
+itself does not build reproducibly.  One of the reasons is that it
+includes recommended packages that are built in a random temporary
+directory.  The build paths for each of these packages is then embedded
+in the packages’ “paths.rds” files.
+
+We don’t have this problem when building the packages with the
+“r-build-system” like any other R package.
+
+This patch set adds package expressions for each of the recommended
+packages, disables building of recommended packages, and adds some of
+these packages to those R packages that need them.
+
+I’ve successfully rebuilt all R packages to make sure that these changes
+don’t break anything.
+
+I also have an unpolished patch to fix bug 25598, but it depends on this
+patch set.
+
+--
+Ricardo
+
+GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+https://example.com
+
+
+
+
+------------=_1489742222-27156-0
+Content-Type: message/rfc822
+Content-Disposition: inline
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+
+Received: (at 26095-done) by debbugs.gnu.org; 17 Mar 2017 09:17:00 +0000
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+References: <87h92w1cu0.fsf@example.com>
+ <4d4ea5ba-1414-0362-3d9a-49be575308d2@example.com> <87pohhuy4u.fsf@example.com>
+User-agent: mu4e 0.9.18; emacs 25.1.1
+From: Ricardo Wurmus <rekado@example.com>
+To: Paul McCartney <p.mccartney@example.com>
+Subject: Re: bug#26095: R: do not build recommended packages
+In-reply-to: <87pohhuy4u.fsf@example.com>
+X-URL: https://example.com
+X-PGP-Key: https://example.com/rekado.pubkey
+X-PGP-Fingerprint: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+Date: Fri, 17 Mar 2017 10:16:49 +0100
+Message-ID: <8737ecz2im.fsf@example.com>
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: -1.8 (-)
+
+
+>> What do you think about having an "r" and
+>> "r-without-recommended-packages" instead of
+>> "r-with-recommended-packages" and "r", respectively?
+
+[…]
+
+> Alternatively, we could change the r-build-system to use “r-minimal” by
+> default, rename “r” to “r-minimal” (both variable and package name), and
+> then rename “r-with-recommended-packages” to just “r” (both variable and
+> package name).
+
+I went ahead and implemented this in a follow-up commit.  (Doing this
+all at once turned out to be a little too cluttered.)  I’ve pushed this
+to master with commit 2d7c4ae3ee83841ef827a160b0d23c1d10d2570d.
+
+Thanks for the review and the discussion!
+
+-- 
+Ricardo
+
+GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+https://example.com
+
+
+
+------------=_1489742222-27156-0--
+
+
+
+<!-- request_addr: Ricardo Wurmus &lt;rekado@example.com&gt; -->
+<!-- time:1489742222 -->
+<strong>Notification sent</strong>
+to <code>Ricardo Wurmus &lt;rekado@example.com&gt;</code>:<br>
+bug acknowledged by developer.
+
+
+-t
+
+MIME-Version: 1.0
+X-Mailer: MIME-tools 5.505 (Entity 5.505)
+X-Loop: help-debbugs@gnu.org
+From: help-debbugs@gnu.org (GNU bug Tracking System)
+To: Ricardo Wurmus <rekado@example.com>
+Subject: bug#26095: closed (Re: bug#26095: R: do not build recommended
+ packages)
+Message-ID: <handler.26095.D26095.148974222027144.notifdone@debbugs.gnu.org>
+References: <8737ecz2im.fsf@example.com> <87h92w1cu0.fsf@example.com>
+X-Gnu-PR-Message: they-closed 26095
+X-Gnu-PR-Package: guix-patches
+Reply-To: 26095@debbugs.gnu.org
+Date: Fri, 17 Mar 2017 09:17:02 +0000
+Content-Type: multipart/mixed; boundary="----------=_1489742222-27156-1"
+
+This is a multi-part message in MIME format...
+
+------------=_1489742222-27156-1
+Content-Disposition: inline
+Content-Transfer-Encoding: quoted-printable
+Content-Type: text/plain; charset="utf-8"
+
+Your bug report
+
+#26095: R: do not build recommended packages
+
+which was filed against the guix-patches package, has been closed.
+
+The explanation is attached below, along with your original report.
+If you require more details, please reply to 26095@debbugs.gnu.org.
+
+--=20
+26095: http://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D26095
+GNU Bug Tracking System
+Contact help-debbugs@gnu.org with problems
+
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+User-agent: mu4e 0.9.18; emacs 25.1.1
+From: Ricardo Wurmus <rekado@example.com>
+To: Paul McCartney <p.mccartney@example.com>
+Subject: Re: bug#26095: R: do not build recommended packages
+In-reply-to: <87pohhuy4u.fsf@example.com>
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+Date: Fri, 17 Mar 2017 10:16:49 +0100
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+
+
+>> What do you think about having an "r" and
+>> "r-without-recommended-packages" instead of
+>> "r-with-recommended-packages" and "r", respectively?
+
+[…]
+
+> Alternatively, we could change the r-build-system to use “r-minimal” by
+> default, rename “r” to “r-minimal” (both variable and package name), and
+> then rename “r-with-recommended-packages” to just “r” (both variable and
+> package name).
+
+I went ahead and implemented this in a follow-up commit.  (Doing this
+all at once turned out to be a little too cluttered.)  I’ve pushed this
+to master with commit 2d7c4ae3ee83841ef827a160b0d23c1d10d2570d.
+
+Thanks for the review and the discussion!
+
+-- 
+Ricardo
+
+GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+https://example.com
+
+
+
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+User-agent: mu4e 0.9.18; emacs 25.1.1
+From: Ricardo Wurmus <rekado@example.com>
+To: guix-patches@gnu.org
+Subject: R: do not build recommended packages
+X-URL: https://example.com
+X-PGP-Key: https://example.com/rekado.pubkey
+X-PGP-Fingerprint: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+Date: Tue, 14 Mar 2017 09:28:55 +0100
+Message-ID: <87h92w1cu0.fsf@example.com>
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+
+This relates to bug 25598 “R packages are not bit-reproducible”.  R
+itself does not build reproducibly.  One of the reasons is that it
+includes recommended packages that are built in a random temporary
+directory.  The build paths for each of these packages is then embedded
+in the packages’ “paths.rds” files.
+
+We don’t have this problem when building the packages with the
+“r-build-system” like any other R package.
+
+This patch set adds package expressions for each of the recommended
+packages, disables building of recommended packages, and adds some of
+these packages to those R packages that need them.
+
+I’ve successfully rebuilt all R packages to make sure that these changes
+don’t break anything.
+
+I also have an unpolished patch to fix bug 25598, but it depends on this
+patch set.
+
+--
+Ricardo
+
+GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+https://example.com
+
+
+
+
+------------=_1489742222-27156-1--
+
+
+
+Received: (at 26095-done) by debbugs.gnu.org; 17 Mar 2017 09:17:00 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Fri Mar 17 05:17:00 2017
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+ with SMTPS id 148974221224770.0071204243684;
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+References: <87h92w1cu0.fsf@example.com>
+ <4d4ea5ba-1414-0362-3d9a-49be575308d2@example.com> <87pohhuy4u.fsf@example.com>
+User-agent: mu4e 0.9.18; emacs 25.1.1
+From: Ricardo Wurmus <rekado@example.com>
+To: Paul McCartney <p.mccartney@example.com>
+Subject: Re: bug#26095: R: do not build recommended packages
+In-reply-to: <87pohhuy4u.fsf@example.com>
+X-URL: https://example.com
+X-PGP-Key: https://example.com/rekado.pubkey
+X-PGP-Fingerprint: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+Date: Fri, 17 Mar 2017 10:16:49 +0100
+Message-ID: <8737ecz2im.fsf@example.com>
+MIME-Version: 1.0
+Content-Type: text/plain; charset=utf-8
+Content-Transfer-Encoding: 8bit
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+Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
+X-Spam-Score: -1.8 (-)
+
+
+>> What do you think about having an "r" and
+>> "r-without-recommended-packages" instead of
+>> "r-with-recommended-packages" and "r", respectively?
+
+[…]
+
+> Alternatively, we could change the r-build-system to use “r-minimal” by
+> default, rename “r” to “r-minimal” (both variable and package name), and
+> then rename “r-with-recommended-packages” to just “r” (both variable and
+> package name).
+
+I went ahead and implemented this in a follow-up commit.  (Doing this
+all at once turned out to be a little too cluttered.)  I’ve pushed this
+to master with commit 2d7c4ae3ee83841ef827a160b0d23c1d10d2570d.
+
+Thanks for the review and the discussion!
+
+-- 
+Ricardo
+
+GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
+https://example.com
+
+
+
+
+
+
+<!-- request_addr: guix-patches@gnu.org -->
+<!-- time:1489745161 -->
+<strong>Information forwarded</strong>
+to <code>guix-patches@gnu.org</code>:<br>
+<code>bug#26095</code>; Package <code>guix-patches</code>.
+
+
+guix-patches@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#26095: R: do not build recommended packages
+Resent-From: ludo@example.com (Ludovic =?UTF-8?Q?Court=C3=A8s?=)
+Original-Sender: "Debbugs-submit" <debbugs-submit-bounces@debbugs.gnu.org>
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+ id 1coolN-0003Qj-23; Fri, 17 Mar 2017 06:05:37 -0400
+From: ludo@example.com (Ludovic =?UTF-8?Q?Court=C3=A8s?=)
+References: <87h92w1cu0.fsf@example.com>
+ <4d4ea5ba-1414-0362-3d9a-49be575308d2@example.com>
+ <87pohhuy4u.fsf@example.com> <8737ecz2im.fsf@example.com>
+X-URL: http://www.fdn.fr/~lcourtes/
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+X-OS: x86_64-unknown-linux-gnu
+Date: Fri, 17 Mar 2017 11:05:33 +0100
+In-Reply-To: <8737ecz2im.fsf@example.com> (Ricardo Wurmus's message of "Fri,
+ 17 Mar 2017 10:16:49 +0100")
+Message-ID: <87mvckgqvm.fsf@gnu.org>
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+
+Ricardo Wurmus <rekado@example.com> skribis:
+
+>>> What do you think about having an "r" and
+>>> "r-without-recommended-packages" instead of
+>>> "r-with-recommended-packages" and "r", respectively?
+>
+> [=E2=80=A6]
+>
+>> Alternatively, we could change the r-build-system to use =E2=80=9Cr-mini=
+mal=E2=80=9D by
+>> default, rename =E2=80=9Cr=E2=80=9D to =E2=80=9Cr-minimal=E2=80=9D (both=
+ variable and package name), and
+>> then rename =E2=80=9Cr-with-recommended-packages=E2=80=9D to just =E2=80=
+=9Cr=E2=80=9D (both variable and
+>> package name).
+>
+> I went ahead and implemented this in a follow-up commit.  (Doing this
+> all at once turned out to be a little too cluttered.)  I=E2=80=99ve pushe=
+d this
+> to master with commit 2d7c4ae3ee83841ef827a160b0d23c1d10d2570d.
+
+Great work.  It=E2=80=99s good to see more modularity!
+
+Ludo=E2=80=99.
+
+
+
+
+
+Received: (at 26095) by debbugs.gnu.org; 17 Mar 2017 10:05:54 +0000
+From debbugs-submit-bounces@debbugs.gnu.org Fri Mar 17 06:05:54 2017
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+From: ludo@example.com (Ludovic =?utf-8?Q?Court=C3=A8s?=)
+To: 26095@debbugs.gnu.org
+Subject: Re: bug#26095: R: do not build recommended packages
+References: <87h92w1cu0.fsf@example.com>
+ <4d4ea5ba-1414-0362-3d9a-49be575308d2@example.com>
+ <87pohhuy4u.fsf@example.com> <8737ecz2im.fsf@example.com>
+X-URL: http://www.fdn.fr/~lcourtes/
+X-Revolutionary-Date: 27 =?utf-8?Q?Vent=C3=B4se?= an 225 de la =?utf-8?Q?R?=
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+Date: Fri, 17 Mar 2017 11:05:33 +0100
+In-Reply-To: <8737ecz2im.fsf@example.com> (Ricardo Wurmus's message of "Fri,
+ 17 Mar 2017 10:16:49 +0100")
+Message-ID: <87mvckgqvm.fsf@gnu.org>
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+
+Ricardo Wurmus <rekado@example.com> skribis:
+
+>>> What do you think about having an "r" and
+>>> "r-without-recommended-packages" instead of
+>>> "r-with-recommended-packages" and "r", respectively?
+>
+> [=E2=80=A6]
+>
+>> Alternatively, we could change the r-build-system to use =E2=80=9Cr-mini=
+mal=E2=80=9D by
+>> default, rename =E2=80=9Cr=E2=80=9D to =E2=80=9Cr-minimal=E2=80=9D (both=
+ variable and package name), and
+>> then rename =E2=80=9Cr-with-recommended-packages=E2=80=9D to just =E2=80=
+=9Cr=E2=80=9D (both variable and
+>> package name).
+>
+> I went ahead and implemented this in a follow-up commit.  (Doing this
+> all at once turned out to be a little too cluttered.)  I=E2=80=99ve pushe=
+d this
+> to master with commit 2d7c4ae3ee83841ef827a160b0d23c1d10d2570d.
+
+Great work.  It=E2=80=99s good to see more modularity!
+
+Ludo=E2=80=99.
+
+
+
+
+
+<!-- command:archive -->
+<!-- requester: Debbugs Internal Request &lt;help-debbugs@gnu.org&gt; -->
+<!-- request_addr: internal_control@debbugs.gnu.org -->
+<!-- time:1492169045 -->
+<!-- new_data:
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+<strong>bug archived.</strong>
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+to <code>internal_control@debbugs.gnu.org</code>.
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diff --git a/tests/data/spool/db-h/99/33299.log b/tests/data/spool/db-h/99/33299.log
new file mode 100644
index 0000000..b4c3919
--- /dev/null
+++ b/tests/data/spool/db-h/99/33299.log
@@ -0,0 +1,1266 @@
+
+<!-- request_addr: bug-guix@gnu.org -->
+<!-- time:1541585102 -->
+<strong>Report forwarded</strong>
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+<code>bug#33299</code>; Package <code>guix</code>.
+
+
+bug-guix@gnu.org
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+
+This is a multi-part message in MIME format.
+--------------5605D2151F7A729B47E272C4
+Content-Type: text/plain; charset=utf-8; format=flowed
+Content-Transfer-Encoding: quoted-printable
+
+Hi
+
+This morning I started my GuixSD VM as usual.
+
+Openssh server was not running even though it was enabled and should=20
+have been respawned. Hmm.
+
+Lucky for me SSH is not the only way into this system...
+
+ From the host I got:
+
+$ ssh=C2=A0 sdb@localhost -p10022
+ssh_exchange_identification: read: Connection reset by peer
+
+On the guest:
+
+$ grep -3 "ssh-daemon could not /var/log/messages
+Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.366701] VFS:=
+ Dquot-cache hash=20
+table entries: 512 (order 0, 4096 bytes)
+Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.367764] AppA=
+rmor: AppArmor=20
+Filesystem Enabled
+Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.368569] pnp:=
+ PnP ACPI init
+Nov=C2=A0 7 07:19:31 localhost shepherd[1]: Service ssh-daemon could not =
+be=20
+started.
+Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.370291] pnp:=
+ PnP ACPI: found 6=20
+devices
+Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.378960] cloc=
+ksource: acpi_pm:=20
+mask: 0xffffff max_cycles: 0xffffff, max_idle_ns: 2085701024 ns
+Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.380434] NET:=
+ Registered=20
+protocol family 2
+
+Herd said:
+
+$ cat sshd-stopped
+Status of ssh-daemon:
+ =C2=A0 It is stopped.
+ =C2=A0 It is enabled.
+ =C2=A0 Provides (ssh-daemon).
+ =C2=A0 Requires (syslogd).
+ =C2=A0 Conflicts with ().
+ =C2=A0 Will be respawned. =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0=
+ <-- not true!
+
+Starting it yielded:
+
+$ cat sshd-start
+Service ssh-daemon has been started.
+
+How do I increase the verbosity of shepherd? I did not find anything=20
+about that in the shepherd manual=20
+<https://www.gnu.org/software/shepherd/manual/shepherd.html#Invoking-shep=
+herd>.
+
+Is there a way to debug further?
+
+--=20
+Cheers
+Swedebugia
+PS
+$ guix --version
+guix (GNU Guix) 1f44934fb6e2cefccbecd4fa347025349fa9ff76 (=3D0.15
+
+
+--------------5605D2151F7A729B47E272C4
+Content-Type: text/html; charset=utf-8
+Content-Transfer-Encoding: quoted-printable
+
+<html>
+  <head>
+
+    <meta http-equiv=3D"content-type" content=3D"text/html; charset=3DUTF=
+-8">
+  </head>
+  <body text=3D"#000000" bgcolor=3D"#FFFFFF">
+    <p>Hi</p>
+    <p>This morning I started my GuixSD VM as usual.</p>
+    <p>Openssh server was not running even though it was enabled and
+      should have been respawned. Hmm.</p>
+    <p>Lucky for me SSH is not the only way into this system...</p>
+    <p>From the host I got:<br>
+    </p>
+    <p>$ ssh=C2=A0 sdb@localhost -p10022<br>
+      ssh_exchange_identification: read: Connection reset by peer</p>
+    <p>On the guest:<br>
+    </p>
+    <p>$ grep -3 "ssh-daemon could not /var/log/messages<br>
+      Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.366701=
+] VFS: Dquot-cache
+      hash table entries: 512 (order 0, 4096 bytes)<br>
+      Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.367764=
+] AppArmor:
+      AppArmor Filesystem Enabled<br>
+      Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.368569=
+] pnp: PnP ACPI
+      init<br>
+      Nov=C2=A0 7 07:19:31 localhost shepherd[1]: Service ssh-daemon coul=
+d
+      not be started. <br>
+      Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.370291=
+] pnp: PnP ACPI:
+      found 6 devices<br>
+      Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.378960=
+] clocksource:
+      acpi_pm: mask: 0xffffff max_cycles: 0xffffff, max_idle_ns:
+      2085701024 ns<br>
+      Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.380434=
+] NET: Registered
+      protocol family 2</p>
+    <p>Herd said:<br>
+    </p>
+    <p>$ cat sshd-stopped <br>
+      Status of ssh-daemon:<br>
+      =C2=A0 It is stopped.<br>
+      =C2=A0 It is enabled.<br>
+      =C2=A0 Provides (ssh-daemon).<br>
+      =C2=A0 Requires (syslogd).<br>
+      =C2=A0 Conflicts with ().<br>
+      =C2=A0 Will be respawned. =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0=
+ =C2=A0 &lt;-- not true!<br>
+    </p>
+    <p>Starting it yielded:<br>
+    </p>
+    <p>$ cat sshd-start <br>
+      Service ssh-daemon has been started.<br>
+    </p>
+    <p>How do I increase the verbosity of shepherd? I did not find
+      anything about that in the <a moz-do-not-send=3D"true"
+href=3D"https://www.gnu.org/software/shepherd/manual/shepherd.html#Invoki=
+ng-shepherd">shepherd
+        manual</a>.</p>
+    <p>Is there a way to debug further?<br>
+    </p>
+    <pre class=3D"moz-signature" cols=3D"72">--=20
+Cheers
+Swedebugia
+PS=20
+$ guix --version
+guix (GNU Guix) 1f44934fb6e2cefccbecd4fa347025349fa9ff76 (=3D0.15
+
+</pre>
+  </body>
+</html>
+
+--------------5605D2151F7A729B47E272C4--
+
+
+
+
+
+<!-- request_addr: user &lt;user@example.com&gt; -->
+<!-- time:1541585103 -->
+<strong>Acknowledgement sent</strong>
+to <code>user &lt;user@example.com&gt;</code>:<br>
+New bug report received and forwarded.  Copy sent to <code>bug-guix@gnu.org</code>.
+
+
+-t
+
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+From: help-debbugs@gnu.org (GNU bug Tracking System)
+To: user <user@example.com>
+Subject: bug#33299: Acknowledgement (shepherd: Service ssh-daemon could
+ not be started.)
+Message-ID: <handler.33299.B.154158504218390.ack@debbugs.gnu.org>
+References: <c78be403-0616-67a0-fd5a-e1196b6a14d1@example.com>
+X-Gnu-PR-Message: ack 33299
+X-Gnu-PR-Package: guix
+Reply-To: 33299@debbugs.gnu.org
+Date: Wed, 07 Nov 2018 10:05:03 +0000
+
+Thank you for filing a new bug report with debbugs.gnu.org.
+
+This is an automatically generated reply to let you know your message
+has been received.
+
+Your message is being forwarded to the package maintainers and other
+interested parties for their attention; they will reply in due course.
+
+Your message has been sent to the package maintainer(s):
+ bug-guix@gnu.org
+
+If you wish to submit further information on this problem, please
+send it to 33299@debbugs.gnu.org.
+
+Please do not send mail to help-debbugs@gnu.org unless you wish
+to report a problem with the Bug-tracking system.
+
+--=20
+33299: http://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D33299
+GNU Bug Tracking System
+Contact help-debbugs@gnu.org with problems
+
+
+
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+Subject: shepherd: Service ssh-daemon could not be started.
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+Date: Wed, 7 Nov 2018 11:03:10 +0100
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+--------------5605D2151F7A729B47E272C4
+Content-Type: text/plain; charset=utf-8; format=flowed
+Content-Transfer-Encoding: quoted-printable
+
+Hi
+
+This morning I started my GuixSD VM as usual.
+
+Openssh server was not running even though it was enabled and should=20
+have been respawned. Hmm.
+
+Lucky for me SSH is not the only way into this system...
+
+ From the host I got:
+
+$ ssh=C2=A0 sdb@localhost -p10022
+ssh_exchange_identification: read: Connection reset by peer
+
+On the guest:
+
+$ grep -3 "ssh-daemon could not /var/log/messages
+Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.366701] VFS:=
+ Dquot-cache hash=20
+table entries: 512 (order 0, 4096 bytes)
+Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.367764] AppA=
+rmor: AppArmor=20
+Filesystem Enabled
+Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.368569] pnp:=
+ PnP ACPI init
+Nov=C2=A0 7 07:19:31 localhost shepherd[1]: Service ssh-daemon could not =
+be=20
+started.
+Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.370291] pnp:=
+ PnP ACPI: found 6=20
+devices
+Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.378960] cloc=
+ksource: acpi_pm:=20
+mask: 0xffffff max_cycles: 0xffffff, max_idle_ns: 2085701024 ns
+Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.380434] NET:=
+ Registered=20
+protocol family 2
+
+Herd said:
+
+$ cat sshd-stopped
+Status of ssh-daemon:
+ =C2=A0 It is stopped.
+ =C2=A0 It is enabled.
+ =C2=A0 Provides (ssh-daemon).
+ =C2=A0 Requires (syslogd).
+ =C2=A0 Conflicts with ().
+ =C2=A0 Will be respawned. =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0=
+ <-- not true!
+
+Starting it yielded:
+
+$ cat sshd-start
+Service ssh-daemon has been started.
+
+How do I increase the verbosity of shepherd? I did not find anything=20
+about that in the shepherd manual=20
+<https://www.gnu.org/software/shepherd/manual/shepherd.html#Invoking-shep=
+herd>.
+
+Is there a way to debug further?
+
+--=20
+Cheers
+Swedebugia
+PS
+$ guix --version
+guix (GNU Guix) 1f44934fb6e2cefccbecd4fa347025349fa9ff76 (=3D0.15
+
+
+--------------5605D2151F7A729B47E272C4
+Content-Type: text/html; charset=utf-8
+Content-Transfer-Encoding: quoted-printable
+
+<html>
+  <head>
+
+    <meta http-equiv=3D"content-type" content=3D"text/html; charset=3DUTF=
+-8">
+  </head>
+  <body text=3D"#000000" bgcolor=3D"#FFFFFF">
+    <p>Hi</p>
+    <p>This morning I started my GuixSD VM as usual.</p>
+    <p>Openssh server was not running even though it was enabled and
+      should have been respawned. Hmm.</p>
+    <p>Lucky for me SSH is not the only way into this system...</p>
+    <p>From the host I got:<br>
+    </p>
+    <p>$ ssh=C2=A0 sdb@localhost -p10022<br>
+      ssh_exchange_identification: read: Connection reset by peer</p>
+    <p>On the guest:<br>
+    </p>
+    <p>$ grep -3 "ssh-daemon could not /var/log/messages<br>
+      Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.366701=
+] VFS: Dquot-cache
+      hash table entries: 512 (order 0, 4096 bytes)<br>
+      Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.367764=
+] AppArmor:
+      AppArmor Filesystem Enabled<br>
+      Nov=C2=A0 7 07:19:30 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.368569=
+] pnp: PnP ACPI
+      init<br>
+      Nov=C2=A0 7 07:19:31 localhost shepherd[1]: Service ssh-daemon coul=
+d
+      not be started. <br>
+      Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.370291=
+] pnp: PnP ACPI:
+      found 6 devices<br>
+      Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.378960=
+] clocksource:
+      acpi_pm: mask: 0xffffff max_cycles: 0xffffff, max_idle_ns:
+      2085701024 ns<br>
+      Nov=C2=A0 7 07:19:31 localhost vmunix: [=C2=A0=C2=A0=C2=A0 0.380434=
+] NET: Registered
+      protocol family 2</p>
+    <p>Herd said:<br>
+    </p>
+    <p>$ cat sshd-stopped <br>
+      Status of ssh-daemon:<br>
+      =C2=A0 It is stopped.<br>
+      =C2=A0 It is enabled.<br>
+      =C2=A0 Provides (ssh-daemon).<br>
+      =C2=A0 Requires (syslogd).<br>
+      =C2=A0 Conflicts with ().<br>
+      =C2=A0 Will be respawned. =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0=
+ =C2=A0 &lt;-- not true!<br>
+    </p>
+    <p>Starting it yielded:<br>
+    </p>
+    <p>$ cat sshd-start <br>
+      Service ssh-daemon has been started.<br>
+    </p>
+    <p>How do I increase the verbosity of shepherd? I did not find
+      anything about that in the <a moz-do-not-send=3D"true"
+href=3D"https://www.gnu.org/software/shepherd/manual/shepherd.html#Invoki=
+ng-shepherd">shepherd
+        manual</a>.</p>
+    <p>Is there a way to debug further?<br>
+    </p>
+    <pre class=3D"moz-signature" cols=3D"72">--=20
+Cheers
+Swedebugia
+PS=20
+$ guix --version
+guix (GNU Guix) 1f44934fb6e2cefccbecd4fa347025349fa9ff76 (=3D0.15
+
+</pre>
+  </body>
+</html>
+
+--------------5605D2151F7A729B47E272C4--
+
+
+
+
+
+<!-- requester: ludo@example.com (Ludovic Courtès) -->
+<!-- request_addr: control@debbugs.gnu.org -->
+<!-- time:1541626501 -->
+<strong>Severity set to &#39;important&#39; from &#39;normal&#39;
+</strong>
+Request was from <code>ludo@example.com (Ludovic Courtès)</code>
+to <code>control@debbugs.gnu.org</code>.
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+To: control@debbugs.gnu.org
+From: ludo@example.com (Ludovic =?utf-8?Q?Court=C3=A8s?=)
+Subject: control message for bug #33299
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+severity 33299 important
+
+
+
+
+
+<!-- requester: ludo@example.com (Ludovic Courtès) -->
+<!-- request_addr: control@debbugs.gnu.org -->
+<!-- time:1541626502 -->
+<strong>Merged 30993 33299.</strong>
+Request was from <code>ludo@example.com (Ludovic Courtès)</code>
+to <code>control@debbugs.gnu.org</code>.
+
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+To: control@debbugs.gnu.org
+From: ludo@example.com (Ludovic =?utf-8?Q?Court=C3=A8s?=)
+Subject: control message for bug #30993
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+
+merge 30993 33299
+
+
+
+
+
+<!-- request_addr: bug-guix@gnu.org -->
+<!-- time:1541626681 -->
+<strong>Information forwarded</strong>
+to <code>bug-guix@gnu.org</code>:<br>
+<code>bug#33299</code>; Package <code>guix</code>.
+
+
+bug-guix@gnu.org
+
+X-Loop: help-debbugs@gnu.org
+Subject: bug#33299: shepherd: Service ssh-daemon could not be started.
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+Cc: 33299@debbugs.gnu.org, 30993@debbugs.gnu.org
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+References: <c78be403-0616-67a0-fd5a-e1196b6a14d1@example.com>
+Date: Wed, 07 Nov 2018 22:36:33 +0100
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+ message of "Wed, 7 Nov 2018 11:03:10 +0100")
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+
+Hello,
+
+user <user@example.com> skribis:
+
+> This morning I started my GuixSD VM as usual.
+>
+> Openssh server was not running even though it was enabled and should
+> have been respawned. Hmm.
+
+This seems to be the same issue as described in
+<https://issues.guix.info/issue/30993> (I=E2=80=99ve now merged both).
+
+It=E2=80=99s a serious problem=E2=80=A6
+
+Thanks for reporting it,
+Ludo=E2=80=99.
+
+
+
+
+
+
+Received: (at 33299) by debbugs.gnu.org; 7 Nov 2018 21:37:03 +0000
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+From: ludo@example.com (Ludovic =?utf-8?Q?Court=C3=A8s?=)
+To: user <user@example.com>
+Subject: Re: bug#33299: shepherd: Service ssh-daemon could not be started.
+References: <c78be403-0616-67a0-fd5a-e1196b6a14d1@example.com>
+Date: Wed, 07 Nov 2018 22:36:33 +0100
+In-Reply-To: <c78be403-0616-67a0-fd5a-e1196b6a14d1@example.com> (user's
+ message of "Wed, 7 Nov 2018 11:03:10 +0100")
+Message-ID: <87muqksh7i.fsf@gnu.org>
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+X-Debbugs-Envelope-To: 33299
+Cc: 33299@debbugs.gnu.org, 30993@debbugs.gnu.org
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+
+Hello,
+
+user <user@example.com> skribis:
+
+> This morning I started my GuixSD VM as usual.
+>
+> Openssh server was not running even though it was enabled and should
+> have been respawned. Hmm.
+
+This seems to be the same issue as described in
+<https://issues.guix.info/issue/30993> (I=E2=80=99ve now merged both).
+
+It=E2=80=99s a serious problem=E2=80=A6
+
+Thanks for reporting it,
+Ludo=E2=80=99.
+
+
+
+
+
+
+<!-- requester: Ludovic Courtès &lt;ludo@example.com&gt; -->
+<!-- request_addr: control@debbugs.gnu.org -->
+<!-- time:1552156621 -->
+<strong>Merged 30993 33299 34580.</strong>
+Request was from <code>Ludovic Courtès &lt;ludo@example.com&gt;</code>
+to <code>control@debbugs.gnu.org</code>.
+
+
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+merge 30993 34580
+
+
+
+
+
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+<!-- time:1560338647 -->
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+<strong>bug archived.</strong>
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+From: "Another Commenter" <another-commenter@example.com>
+To: control@debbugs.gnu.org
+Subject: =?UTF-8?Q?Archived_problem_report_bug#34580_(Service_ssh-daemon_could_no?=
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+ Content preview:  unarchive 34580 -- Another Commenter unarchive 34580 
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+--edcd0d48ce0146188771fc97dfa6921f
+Content-Type: text/plain
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+unarchive 34580
+
+--
+Another Commenter
+
+
+
+--edcd0d48ce0146188771fc97dfa6921f
+Content-Type: text/html
+
+<!DOCTYPE html><html><head><title></title><style type="text/css">p.MsoNormal,p.MsoNoSpacing{margin:0}</style></head><body><pre class="u-article">unarchive 34580<br></pre><div><br></div><div id="sig99311576"><div class="signature">--<br></div><div class="signature">Another Commenter<br></div><div class="signature"><br></div><div class="signature"><br></div></div><div><br></div></body></html>
+--edcd0d48ce0146188771fc97dfa6921f--
+
+
+
+
+
+<!-- command:fixed -->
+<!-- requester: Debbugs Internal Request &lt;help-debbugs@gnu.org&gt; -->
+<!-- request_addr: internal_control@debbugs.gnu.org -->
+<!-- time:1569529741 -->
+<!-- new_data:
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+              &#39;done&#39; =&gt; &#39;&#39;
+            };
+-->
+<!-- old_data:
+$old_data = {
+              &#39;done&#39; =&gt; &#39;Leo Famulari &lt;leo@famulari.name&gt;&#39;
+            };
+-->
+<strong>Did not alter fixed versions and reopened.</strong>
+Request was from <code>Debbugs Internal Request &lt;help-debbugs@gnu.org&gt;</code>
+to <code>internal_control@debbugs.gnu.org</code>.
+
+
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+Date: Thu, 26 Sep 2019 20:29:01 +0000
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+
+<!-- requester: Ludovic Courtès &lt;ludo@example.com&gt; -->
+<!-- request_addr: control@debbugs.gnu.org -->
+<!-- time:1569529744 -->
+<strong>Merged 30993 33299 34580 37309.</strong>
+Request was from <code>Ludovic Courtès &lt;ludo@example.com&gt;</code>
+to <code>control@debbugs.gnu.org</code>.
+
+
+Received: (at control) by debbugs.gnu.org; 26 Sep 2019 20:28:48 +0000
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+To: control@debbugs.gnu.org
+From: =?utf-8?Q?Ludovic_Court=C3=A8s?= <ludo@example.com>
+Subject: control message for bug #30993
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+
+merge 30993 37309
+quit
+
+
+
+
+
+
+<!-- command:title -->
+<!-- requester: Ludovic Courtès &lt;ludo@example.com&gt; -->
+<!-- request_addr: control@debbugs.gnu.org -->
+<!-- time:1569529744 -->
+<!-- new_data:
+$new_data = {
+              &#39;subject&#39; =&gt; &#39;\&#39;ssh-daemon\&#39; fails to start&#39;
+            };
+-->
+<!-- old_data:
+$old_data = {
+              &#39;subject&#39; =&gt; &#39;shepherd: Service ssh-daemon could not be started.&#39;
+            };
+-->
+<strong>Changed bug title to &#39;&#39;ssh-daemon&#39; fails to start&#39; from &#39;shepherd: Service ssh-daemon could not be started.&#39;</strong>
+Request was from <code>Ludovic Courtès &lt;ludo@example.com&gt;</code>
+to <code>control@debbugs.gnu.org</code>.
+
+
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+Subject: control message for bug #30993
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+retitle 30993 'ssh-daemon' fails to start
+quit
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