From unknown Sat Jun 14 18:48:57 2025 X-Loop: help-debbugs@gnu.org Subject: [bug#49084] [PATCH 0/1] gnu: python-rpy2: Update to 3.4.5. Resent-From: BonfaceKilz Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 18 Jun 2021 07:37:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 49084 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 49084@debbugs.gnu.org Cc: BonfaceKilz X-Debbugs-Original-To: guix-patches@gnu.org Received: via spool by submit@debbugs.gnu.org id=B.162400176527152 (code B ref -1); Fri, 18 Jun 2021 07:37:02 +0000 Received: (at submit) by debbugs.gnu.org; 18 Jun 2021 07:36:05 +0000 Received: from localhost ([127.0.0.1]:55670 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lu92r-00073r-5P for submit@debbugs.gnu.org; Fri, 18 Jun 2021 03:36:05 -0400 Received: from lists.gnu.org ([209.51.188.17]:50978) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lu92n-00073Q-2U for submit@debbugs.gnu.org; Fri, 18 Jun 2021 03:36:04 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:59326) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lu92m-0003ZS-OO for guix-patches@gnu.org; Fri, 18 Jun 2021 03:36:00 -0400 Received: from out5-smtp.messagingengine.com ([66.111.4.29]:34953) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lu92k-0003L6-Ox for guix-patches@gnu.org; Fri, 18 Jun 2021 03:36:00 -0400 Received: from compute5.internal (compute5.nyi.internal [10.202.2.45]) by mailout.nyi.internal (Postfix) with ESMTP id ABE945C0121; Fri, 18 Jun 2021 03:35:56 -0400 (EDT) Received: from mailfrontend1 ([10.202.2.162]) by compute5.internal (MEProxy); Fri, 18 Jun 2021 03:35:56 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d= bonfacemunyoki.com; h=from:to:cc:subject:date:message-id :mime-version:content-transfer-encoding; s=fm2; bh=az/acVl+T4CO7 b3J3LSXS6Dp8BKs0sVswy8TLQNAoFY=; b=UJVvqYE7OtiqZOOUKch6vVcnTTgqv Y61XgPJH3GIfBAHCJ1K6jJ1iIUZx+Q792gOOmGbzRNX+dgIgtujGBYYjjBDBfYGg lvPdZToK9Bh1+tD+SeZMRe8aeDYBs0y1dRH9TCjLV81fiAlwyrS+///ggBDuBtEW m9PuxZG83VW0Q4NE+v7H+CY66vtQycbjvHuNNwXh/xy8209vQl7q/NfZgci4Mx4X eyKy9ySEoEy+gtffgR80g2gHp34TI9Tw08I4BSAyCySfpvOM8x081rRYZzfn3Und XwBuq5UW6hesUHBAdjslDF34/RwAtvUKOEetUvAa7WjFlnRRFfmXEu2ww== DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d= messagingengine.com; h=cc:content-transfer-encoding:date:from :message-id:mime-version:subject:to:x-me-proxy:x-me-proxy :x-me-sender:x-me-sender:x-sasl-enc; s=fm3; bh=az/acVl+T4CO7b3J3 LSXS6Dp8BKs0sVswy8TLQNAoFY=; b=HSitRbHOmQZ0KMtpIrRodkeb/6Q8tVdQT u+6iQRonpU3tTiIzioulGeKUhAclJDGUnYtnWjxhD50+eaNa21DVu0i91EkC2ICy Meb+Optiq/F9vDPGYuF4cvHV8i21YTqmtLoS6L/2yZBfkuA8eOFJ5u55tZA3QS9X ST2M2rsVYCExJnwrVtAamVQT5cZFL8rdNwfJcYy6pGzg1QyKEjdymVgC14pOJ39F BKQki8UlSXIMVhmhs4Z3IFMPBa90Yurehb9HQPlRSYHxvW0zpVZWc4iwwe3wXiDH VWIetdiLVtiawSXqATiAHeqjYrGsyXxyaGB6YAnloTki1QNhMciwA== X-ME-Sender: X-ME-Received: X-ME-Proxy-Cause: gggruggvucftvghtrhhoucdtuddrgeduledrfeefvddguddukecutefuodetggdotefrod ftvfcurfhrohhfihhlvgemucfhrghsthforghilhdpqfgfvfdpuffrtefokffrpgfnqfgh necuuegrihhlohhuthemuceftddtnecunecujfgurhephffvufffkffoggfgsedtkeertd ertddtnecuhfhrohhmpeeuohhnfhgrtggvmfhilhiiuceomhgvsegsohhnfhgrtggvmhhu nhihohhkihdrtghomheqnecuggftrfgrthhtvghrnheptdevtedukefguefhgfdvieekte eigeelieekhedtteekgfevieejgffgtdfgiedvnecuffhomhgrihhnpehgihhthhhusgdr tghomhenucevlhhushhtvghrufhiiigvpedtnecurfgrrhgrmhepmhgrihhlfhhrohhmpe hmvgessghonhhfrggtvghmuhhnhihokhhirdgtohhm X-ME-Proxy: Received: by mail.messagingengine.com (Postfix) with ESMTPA; Fri, 18 Jun 2021 03:35:54 -0400 (EDT) From: BonfaceKilz Date: Fri, 18 Jun 2021 10:35:47 +0300 Message-Id: <20210618073547.11857-1-me@bonfacemunyoki.com> X-Mailer: git-send-email 2.31.1 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Received-SPF: pass client-ip=66.111.4.29; envelope-from=me@bonfacemunyoki.com; helo=out5-smtp.messagingengine.com X-Spam_score_int: -27 X-Spam_score: -2.8 X-Spam_bar: -- X-Spam_report: (-2.8 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_LOW=-0.7, RCVD_IN_MSPIKE_H4=0.001, RCVD_IN_MSPIKE_WL=0.001, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.6 (-) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.6 (--) Hi all! Find a patch that updates python-rpy2 to 3.4.5. One major fix in this patch is to fix an error caused by SIGPIPE, which when used in the context of a flask application can be blocking. See: https://github.com/rpy2/rpy2/issues/809 BonfaceKilz (1): gnu: python-rpy2: Update to 3.4.5. gnu/packages/statistics.scm | 22 +++------------------- 1 file changed, 3 insertions(+), 19 deletions(-) -- 2.31.1 From unknown Sat Jun 14 18:48:57 2025 X-Loop: help-debbugs@gnu.org Subject: [bug#49084] [PATCH 1/1] gnu: python-rpy2: Update to 3.4.5. References: <20210618073547.11857-1-me@bonfacemunyoki.com> In-Reply-To: <20210618073547.11857-1-me@bonfacemunyoki.com> Resent-From: BonfaceKilz Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 18 Jun 2021 07:39:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 49084 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 49084@debbugs.gnu.org Cc: BonfaceKilz Received: via spool by 49084-submit@debbugs.gnu.org id=B49084.162400190727385 (code B ref 49084); Fri, 18 Jun 2021 07:39:02 +0000 Received: (at 49084) by debbugs.gnu.org; 18 Jun 2021 07:38:27 +0000 Received: from localhost ([127.0.0.1]:55677 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lu959-00077b-HN for submit@debbugs.gnu.org; Fri, 18 Jun 2021 03:38:27 -0400 Received: from out5-smtp.messagingengine.com ([66.111.4.29]:33831) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lu958-00077P-Fb for 49084@debbugs.gnu.org; Fri, 18 Jun 2021 03:38:26 -0400 Received: from compute6.internal (compute6.nyi.internal [10.202.2.46]) by mailout.nyi.internal (Postfix) with ESMTP id 9DA725C013B; Fri, 18 Jun 2021 03:38:20 -0400 (EDT) Received: from mailfrontend2 ([10.202.2.163]) by compute6.internal (MEProxy); Fri, 18 Jun 2021 03:38:20 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d= bonfacemunyoki.com; h=from:to:cc:subject:date:message-id :mime-version:content-type:content-transfer-encoding; s=fm2; bh= IlbMDJ8AAXgKNe7SrKLxdcUB9xPklSrTQPKevVYuQeo=; b=anxe4cGpbU+Ze2GV gdH95dVIcFUzr29Xa4wC+2d9lHYturjMh9sgQTWyyXUHZYl57qk9ZDVfDYQ0vf7i mbWQx6AKetEvDaR8HkVov/NnDe2/ezCvFWC/2nq0ol3dYk73kQb/FY9+3GO9uobv iPskhh3kOqq2iJWFE9GWnEUfK+rsDi9gT9s2Gl8JzQ5nGvHDZ8xPyorrZX5nqkt8 bqVEsb/kfFkMQsAZCp3/1JRUkW7IDcogBkLHMvNt4GpCQ5bq/ShGmlY+UrjRD1ju J6pUygR2KI1BQhgsqrEyK27AHVTJyNLiV/P8ohAeNH3TZoKCfwYPQsdut1nEabke mLEomA== DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d= messagingengine.com; h=cc:content-transfer-encoding:content-type :date:from:message-id:mime-version:subject:to:x-me-proxy :x-me-proxy:x-me-sender:x-me-sender:x-sasl-enc; s=fm3; bh=IlbMDJ 8AAXgKNe7SrKLxdcUB9xPklSrTQPKevVYuQeo=; b=Qbd7/d47gk2fgKeev54pq0 83B/Zrq9LTzBVmrO+vxkbYcRTv7v4LNBVBHRzAC4BXZA6ttdJYrTmdflgy/e+tUI jo4I/KrTGvv0HnLu72n6c8dotKoY9IuEN0nrI/hSBLELXI7HTe3kf8J9b/2oo7Oj 83hKR36v71Mdi6wnBEO5nuDqp1iSPI/k40DfgUiydWJOrUBlETYzYf4f8kMTJ10B rz+g1K9SyoLNYQrJjhBgVjdvRWM7FgN2LatbAWjNZtUGuJN6WFIEhLNW5dTs65lN rb8y6ews4x9rohGU892rJ2SBq6f4DkRgXeVLaut/funmiS2IZ6EbkkquvmWQF2WA == X-ME-Sender: X-ME-Received: X-ME-Proxy-Cause: gggruggvucftvghtrhhoucdtuddrgeduledrfeefvddguddulecutefuodetggdotefrod ftvfcurfhrohhfihhlvgemucfhrghsthforghilhdpqfgfvfdpuffrtefokffrpgfnqfgh necuuegrihhlohhuthemuceftddtnecunecujfgurhephffvufffkffogggtgfesthekre dtredtjeenucfhrhhomhepuehonhhfrggtvgfmihhliicuoehmvgessghonhhfrggtvghm uhhnhihokhhirdgtohhmqeenucggtffrrghtthgvrhhnpeetffdtveejgfevjefggeelfe ehvefgiedttdejkefhffehtdduuddvudejjeehkeenucffohhmrghinhepghhithhhuhgs rdgtohhmnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehmrghilhhfrhhomh epmhgvsegsohhnfhgrtggvmhhunhihohhkihdrtghomh X-ME-Proxy: Received: by mail.messagingengine.com (Postfix) with ESMTPA; Fri, 18 Jun 2021 03:38:18 -0400 (EDT) From: BonfaceKilz Date: Fri, 18 Jun 2021 10:38:11 +0300 Message-Id: <20210618073811.11980-1-me@bonfacemunyoki.com> X-Mailer: git-send-email 2.31.1 MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Spam-Score: -0.7 (/) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.7 (-) * gnu/packages/statistics.scm (python-rpy2): Update to 3.4.5 [source]: Remove the patches. --- gnu/packages/statistics.scm | 22 +++------------------- 1 file changed, 3 insertions(+), 19 deletions(-) diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 1292ac6898..e5c5313c60 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -12,6 +12,7 @@ ;;; Copyright © 2017 Alex Kost ;;; Copyright © 2018 Alex Branham ;;; Copyright © 2020 Tim Howes +;;; Copyright © 2021 Bonface Munyoki Kilyungi ;;; ;;; This file is part of GNU Guix. ;;; @@ -5731,31 +5732,14 @@ to any arbitrary string. In this case, it is up to you to set valid values.") (define-public python-rpy2 (package (name "python-rpy2") - (version "3.3.5") + (version "3.4.5") (source (origin (method url-fetch) (uri (pypi-uri "rpy2" version)) (sha256 (base32 - "1bs36rds5fq8821l5q85q2b25161rs9ppw5c26x0hjwj487gpcfj")) - ;; These patches should be removed with the next release. - (patches - (list - (origin - (method url-fetch) - (uri "https://github.com/rpy2/rpy2/commit/04c57598f00145d868ea8da31ac1b1e7c49f7570.patch") - (file-name "python-rpy2-fix-test-failure.patch") - (sha256 - (base32 - "1lqd3yxjfx1rxrybcmnapy0r6ambg9myrb98q4nlfhpxanwfdbbh"))) - (origin - (method url-fetch) - (uri "https://github.com/rpy2/rpy2/commit/685f67d0a6b47ea80e718116a10755019446aef7.patch") - (file-name "python-rpy2-r-console-test-fix.patch") - (sha256 - (base32 - "18wpvfaa4c13d44cb4sw88c3c7403xdy5m8h82wfq8fjmcq3cmzn"))))))) + "1cysswxr5glrdblyl2zsmywcj7xhxn3wmyihxinrz9gm8gmaacax")))) (build-system python-build-system) (arguments '(#:modules ((ice-9 ftw) -- 2.31.1 From unknown Sat Jun 14 18:48:57 2025 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: BonfaceKilz Subject: bug#49084: closed (Re: bug#49084: [PATCH 0/1] gnu: python-rpy2: Update to 3.4.5.) Message-ID: References: <87y2aw1h5w.fsf_-_@gnu.org> <20210618073547.11857-1-me@bonfacemunyoki.com> X-Gnu-PR-Message: they-closed 49084 X-Gnu-PR-Package: guix-patches X-Gnu-PR-Keywords: patch Reply-To: 49084@debbugs.gnu.org Date: Sat, 26 Jun 2021 20:54:02 +0000 Content-Type: multipart/mixed; boundary="----------=_1624740842-15629-1" This is a multi-part message in MIME format... ------------=_1624740842-15629-1 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset="utf-8" Your bug report #49084: [PATCH 0/1] gnu: python-rpy2: Update to 3.4.5. 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 49084@debbugs.gnu.org. --=20 49084: http://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D49084 GNU Bug Tracking System Contact help-debbugs@gnu.org with problems ------------=_1624740842-15629-1 Content-Type: message/rfc822 Content-Disposition: inline Content-Transfer-Encoding: 7bit Received: (at 49084-done) by debbugs.gnu.org; 26 Jun 2021 20:53:55 +0000 Received: from localhost ([127.0.0.1]:48709 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lxFJL-00043n-LB for submit@debbugs.gnu.org; Sat, 26 Jun 2021 16:53:55 -0400 Received: from eggs.gnu.org ([209.51.188.92]:50512) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lxFJK-00043c-Qm for 49084-done@debbugs.gnu.org; Sat, 26 Jun 2021 16:53:55 -0400 Received: from fencepost.gnu.org ([2001:470:142:3::e]:40770) by eggs.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1lxFJF-0004fB-Cq; Sat, 26 Jun 2021 16:53:49 -0400 Received: from [2a01:e0a:1d:7270:af76:b9b:ca24:c465] (port=42486 helo=ribbon) by fencepost.gnu.org with esmtpsa (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lxFJF-0001Ej-1P; Sat, 26 Jun 2021 16:53:49 -0400 From: =?utf-8?Q?Ludovic_Court=C3=A8s?= To: BonfaceKilz Subject: Re: bug#49084: [PATCH 0/1] gnu: python-rpy2: Update to 3.4.5. References: <20210618073547.11857-1-me@bonfacemunyoki.com> <20210618073811.11980-1-me@bonfacemunyoki.com> Date: Sat, 26 Jun 2021 22:53:47 +0200 In-Reply-To: <20210618073811.11980-1-me@bonfacemunyoki.com> (BonfaceKilz's message of "Fri, 18 Jun 2021 10:38:11 +0300") Message-ID: <87y2aw1h5w.fsf_-_@gnu.org> User-Agent: Gnus/5.13 (Gnus v5.13) Emacs/27.2 (gnu/linux) MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 49084-done Cc: 49084-done@debbugs.gnu.org X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -3.3 (---) Hi Bonface, BonfaceKilz skribis: > * gnu/packages/statistics.scm (python-rpy2): Update to 3.4.5 > [source]: Remove the patches. Applied, thanks! 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Date: Fri, 18 Jun 2021 10:35:47 +0300 Message-Id: <20210618073547.11857-1-me@bonfacemunyoki.com> X-Mailer: git-send-email 2.31.1 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Received-SPF: pass client-ip=66.111.4.29; envelope-from=me@bonfacemunyoki.com; helo=out5-smtp.messagingengine.com X-Spam_score_int: -27 X-Spam_score: -2.8 X-Spam_bar: -- X-Spam_report: (-2.8 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_LOW=-0.7, RCVD_IN_MSPIKE_H4=0.001, RCVD_IN_MSPIKE_WL=0.001, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.6 (-) X-Debbugs-Envelope-To: submit Cc: BonfaceKilz X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.6 (--) Hi all! Find a patch that updates python-rpy2 to 3.4.5. One major fix in this patch is to fix an error caused by SIGPIPE, which when used in the context of a flask application can be blocking. See: https://github.com/rpy2/rpy2/issues/809 BonfaceKilz (1): gnu: python-rpy2: Update to 3.4.5. gnu/packages/statistics.scm | 22 +++------------------- 1 file changed, 3 insertions(+), 19 deletions(-) -- 2.31.1 ------------=_1624740842-15629-1--