From patchwork Sun Oct 10 15:04:29 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Felix Gruber X-Patchwork-Id: 33736 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 7101027BBE3; Sun, 10 Oct 2021 16:06:13 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.2 (2018-09-13) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.8 required=5.0 tests=BAYES_00,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,SPF_HELO_PASS,T_DKIM_INVALID, URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.2 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 3804A27BBE1 for ; Sun, 10 Oct 2021 16:06:13 +0100 (BST) Received: from localhost ([::1]:38504 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1mZaOy-0001zY-Ah for patchwork@mira.cbaines.net; Sun, 10 Oct 2021 11:06:12 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:32804) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1mZaOp-0001xt-MJ for guix-patches@gnu.org; Sun, 10 Oct 2021 11:06:03 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:44104) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1mZaOp-00035S-Dy for guix-patches@gnu.org; Sun, 10 Oct 2021 11:06:03 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1mZaOo-0006aY-Lh for guix-patches@gnu.org; Sun, 10 Oct 2021 11:06:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#50813] [PATCH v2 1/6] gnu: python-pandas: Update to 1.3.3. Resent-From: Felix Gruber Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Sun, 10 Oct 2021 15:06:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 50813 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 50813@debbugs.gnu.org, Ludovic =?utf-8?q?Court=C3=A8s?= Cc: Felix Gruber Received: via spool by 50813-submit@debbugs.gnu.org id=B50813.163387835925309 (code B ref 50813); Sun, 10 Oct 2021 15:06:02 +0000 Received: (at 50813) by debbugs.gnu.org; 10 Oct 2021 15:05:59 +0000 Received: from localhost ([127.0.0.1]:55649 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaOl-0006a8-9O for submit@debbugs.gnu.org; Sun, 10 Oct 2021 11:05:59 -0400 Received: from mout02.posteo.de ([185.67.36.66]:55743) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaOj-0006Zt-4O for 50813@debbugs.gnu.org; Sun, 10 Oct 2021 11:05:58 -0400 Received: from submission (posteo.de [89.146.220.130]) by mout02.posteo.de (Postfix) with ESMTPS id E4C28240101 for <50813@debbugs.gnu.org>; Sun, 10 Oct 2021 17:05:50 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=posteo.net; s=2017; t=1633878350; bh=QAod+zOUZthQSFSvquD9pgj0jlK48qKj9vXy2iVYFec=; h=From:To:Cc:Subject:Date:From; b=B5hkWuhlZ2onMwlC80naxsV2s2z8Hw7StJzAEQPxdFjTOr5cDEp+D/4uLBXmZrgXq 8yza7Ha4lEAOaZy2LesIOppWpeBH8QPeTqfGGhhMruZdk20DS1q3K4IfF+E1uab5te Oev2yQC2UhW03F7YMAmbLw3dhkFHx2Mt22VFJLaodVhYFbvduqw4QOpt/CXYt7x0Ew CIaGg4+PMRTP+EDrYwObVsEtd80YJzMdqFL3+0KfVYLyA/9MLdV77gp96+o6axkbOV Bx64itUNWZ/5lIG6mnFRsbNPNid0npxwTxFWzEaEwMB8kS3ja+KYCAHzg5ZN8nT431 wPnJ+HEkB9A8g== Received: from customer (localhost [127.0.0.1]) by submission (posteo.de) with ESMTPSA id 4HS4xV0gZzz9rxP; Sun, 10 Oct 2021 17:05:50 +0200 (CEST) From: Felix Gruber Date: Sun, 10 Oct 2021 15:04:29 +0000 Message-Id: <20211010150434.1966-2-felgru@posteo.net> In-Reply-To: <87zgrldwzk.fsf@gnu.org> References: <87zgrldwzk.fsf@gnu.org> MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/python-science.scm (python-pandas): Update to 1.3.3. --- gnu/packages/python-science.scm | 5 +++-- 1 file changed, 3 insertions(+), 2 deletions(-) diff --git a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm index cc6a759e82..d19d731f76 100644 --- a/gnu/packages/python-science.scm +++ b/gnu/packages/python-science.scm @@ -14,6 +14,7 @@ ;;; Copyright © 2021 Roel Janssen ;;; Copyright © 2021 Paul Garlick ;;; Copyright © 2021 Arun Isaac +;;; Copyright © 2021 Felix Gruber ;;; ;;; This file is part of GNU Guix. ;;; @@ -329,13 +330,13 @@ of the SGP4 satellite tracking algorithm.") (define-public python-pandas (package (name "python-pandas") - (version "1.3.0") + (version "1.3.3") (source (origin (method url-fetch) (uri (pypi-uri "pandas" version)) (sha256 - (base32 "1qi2cv450m05dwccx3p1s373k5b4ncvwi74plnms2pidrz4ycm65")))) + (base32 "1pq1nwj2kysy2g3p18wjb1xn8vk1jhcyisxilsnkwyd99aqqqb17")))) (build-system python-build-system) (arguments `(#:modules ((guix build utils) From patchwork Sun Oct 10 15:04:30 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Felix Gruber X-Patchwork-Id: 33737 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 9F3EA27BBE3; Sun, 10 Oct 2021 16:07:28 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.2 (2018-09-13) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.8 required=5.0 tests=BAYES_00,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,SPF_HELO_PASS,T_DKIM_INVALID, URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.2 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 6724127BBE1 for ; Sun, 10 Oct 2021 16:07:28 +0100 (BST) Received: from localhost ([::1]:38918 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1mZaQB-0002OM-G9 for patchwork@mira.cbaines.net; Sun, 10 Oct 2021 11:07:27 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:32948) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1mZaPm-0002Nj-86 for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:02 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:44120) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1mZaPl-0003k5-VI for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:01 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1mZaPl-0006cy-Np for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:01 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#50813] [PATCH v2 2/6] gnu: python-dask: Update to 2021.9.1. Resent-From: Felix Gruber Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Sun, 10 Oct 2021 15:07:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 50813 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 50813@debbugs.gnu.org, Ludovic =?utf-8?q?Court=C3=A8s?= Cc: Felix Gruber Received: via spool by 50813-submit@debbugs.gnu.org id=B50813.163387836625360 (code B ref 50813); Sun, 10 Oct 2021 15:07:01 +0000 Received: (at 50813) by debbugs.gnu.org; 10 Oct 2021 15:06:06 +0000 Received: from localhost ([127.0.0.1]:55654 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaOs-0006ay-Hf for submit@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:06 -0400 Received: from mout01.posteo.de ([185.67.36.65]:55973) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaOq-0006aG-Ua for 50813@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:05 -0400 Received: from submission (posteo.de [89.146.220.130]) by mout01.posteo.de (Postfix) with ESMTPS id 6ED25240028 for <50813@debbugs.gnu.org>; Sun, 10 Oct 2021 17:05:59 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=posteo.net; s=2017; t=1633878359; bh=kIoHokTPVRNjICAHGJxmQsd4/YI6y7iwGP7q57Y5Vu4=; h=From:To:Cc:Subject:Date:From; b=MWV8kHvp741aAoY6hBc+II7hrS5emXFJlImiJYI5m4tM6k5WCuybg13k18AgL97pY Ame+DaMpPy1au9W6Upr1xe/CYllt8IEbNMQ6iiYl028mEL7EOcA4cQ+L3sCF+rpdwF csW0bjpvD3hCoEjFOpgtGgmMxDDCkSa0RpTGh83xrxxLgY0s+MgFR9xn4yjQrOF+2A AMQS89fKZ8M8AjM46zRPiWnlEvbs83DK+LPe6c04OOeQLvlvXtpepmJi4wsfWwC5tC g/sZK9ndNt8CCeXgMdzWbfup/9LDVNDjVmClTld9PUnTvQuKxRPX8kBZZU/a7HlUWY /o348VKyLzx6A== Received: from customer (localhost [127.0.0.1]) by submission (posteo.de) with ESMTPSA id 4HS4xf71ylz9rxN; Sun, 10 Oct 2021 17:05:58 +0200 (CEST) From: Felix Gruber Date: Sun, 10 Oct 2021 15:04:30 +0000 Message-Id: <20211010150434.1966-3-felgru@posteo.net> In-Reply-To: <87zgrldwzk.fsf@gnu.org> References: <87zgrldwzk.fsf@gnu.org> MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/python-xyz.scm (python-dask): Update to 2021.9.1. --- gnu/packages/python-xyz.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 634cd5efec..b1678b2bda 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -22196,13 +22196,13 @@ decisions with any given backend.") (define-public python-dask (package (name "python-dask") - (version "2021.7.1") + (version "2021.9.1") (source (origin (method url-fetch) (uri (pypi-uri "dask" version)) (sha256 - (base32 "131c1bp193d7wp4gx09j6wark1c322c8sqjy22i0jaafl5rqfbz7")))) + (base32 "0p6nd8wi30l29g5hdwk0453w6fxg4zvxq1y1ix0fa2f8rbr2n7z1")))) (build-system python-build-system) (arguments `(#:phases From patchwork Sun Oct 10 15:04:31 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Felix Gruber X-Patchwork-Id: 33738 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id F171A27BBE3; Sun, 10 Oct 2021 16:07:28 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.2 (2018-09-13) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.8 required=5.0 tests=BAYES_00,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,SPF_HELO_PASS,T_DKIM_INVALID, URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.2 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id BFADB27BBE1 for ; Sun, 10 Oct 2021 16:07:28 +0100 (BST) Received: from localhost ([::1]:38920 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1mZaQB-0002Ot-Tg for patchwork@mira.cbaines.net; Sun, 10 Oct 2021 11:07:27 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:32950) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1mZaPm-0002Ns-L6 for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:02 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:44121) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1mZaPm-0003ng-CU for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:02 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1mZaPm-0006d6-7k for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#50813] [PATCH v2 3/6] gnu: python-distributed: Update to 2021.09.1. Resent-From: Felix Gruber Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Sun, 10 Oct 2021 15:07:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 50813 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 50813@debbugs.gnu.org, Ludovic =?utf-8?q?Court=C3=A8s?= Cc: Felix Gruber Received: via spool by 50813-submit@debbugs.gnu.org id=B50813.163387837725383 (code B ref 50813); Sun, 10 Oct 2021 15:07:02 +0000 Received: (at 50813) by debbugs.gnu.org; 10 Oct 2021 15:06:17 +0000 Received: from localhost ([127.0.0.1]:55657 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaP2-0006bL-O8 for submit@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:16 -0400 Received: from mout02.posteo.de ([185.67.36.66]:54565) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaP0-0006b8-PV for 50813@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:15 -0400 Received: from submission (posteo.de [89.146.220.130]) by mout02.posteo.de (Postfix) with ESMTPS id 0CCFB240104 for <50813@debbugs.gnu.org>; Sun, 10 Oct 2021 17:06:09 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=posteo.net; s=2017; t=1633878369; bh=FNHbIz6eQk+k0SSTaRzWyrc8D1/4JMtozn0zBKJE2ME=; h=From:To:Cc:Subject:Date:From; b=ZMOU/y8Jy9T7Ej4v9F1+jT3DCDnrX9bb75Zfzwr5pKuoOcYonh+pykG+quShpIC9D Nq3AtlpNJbrBa0mCjWWqH38rgohKhrM2JJaG5AyNfTYwoPuX8wu8SnXmezvrvWxJc5 8QfHIUso0E6pjTBcWtZSFPbid7BwFpCB6/8O31CAA+GpvbKtZgEIdmEPQqFlB2oaMb fFTsp8/bPHmnHIjwO7za7SX4iv8va/sqtePTnMG0SsQEKQonZ/kwW1zSHeRZAaBnfs TiRZ5Mvja7etVdq82RodxqjbGWr/+UycOPEpbGG/Jlah88gmIL6+IGl5/IaevI61Uh C+cxelQBK6xEw== Received: from customer (localhost [127.0.0.1]) by submission (posteo.de) with ESMTPSA id 4HS4xr4Pfpz9rxQ; Sun, 10 Oct 2021 17:06:08 +0200 (CEST) From: Felix Gruber Date: Sun, 10 Oct 2021 15:04:31 +0000 Message-Id: <20211010150434.1966-4-felgru@posteo.net> In-Reply-To: <87zgrldwzk.fsf@gnu.org> References: <87zgrldwzk.fsf@gnu.org> MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/python-science.scm (python-distributed): Update to 2021.09.1. [arguments]: Disable failing test test_text. --- gnu/packages/python-science.scm | 10 ++++++---- 1 file changed, 6 insertions(+), 4 deletions(-) diff --git a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm index d19d731f76..b68a2838fc 100644 --- a/gnu/packages/python-science.scm +++ b/gnu/packages/python-science.scm @@ -900,7 +900,7 @@ and more (define-public python-distributed (package (name "python-distributed") - (version "2021.07.1") + (version "2021.09.1") (source (origin ;; The test files are not included in the archive on pypi @@ -911,7 +911,7 @@ and more (file-name (git-file-name name version)) (sha256 (base32 - "0i55zf3k55sqjxnwlzsyj3h3v1588fn54ng4mj3dfiqzh3nlj0dg")))) + "05djzza3f72nw1i1c9qyamgaf93pbf6jxx0migpp1wvvfl0v2j9z")))) (build-system python-build-system) (arguments '(#:phases @@ -940,9 +940,11 @@ and more "-m" "not slow and not gpu and not ipython and not avoid_ci" "-k" ;; TODO: These tests fail for unknown reasons: - ;; Assertion error. (string-append - "not test_version_option" + ;; TimeoutExpired + "not test_text" + ;; AssertionError + " and not test_version_option" ;; "The 'distributed' distribution was not found" " and not test_register_backend_entrypoint" ;; "AttributeError: module 'distributed.dashboard' has no attribute 'scheduler'" From patchwork Sun Oct 10 15:04:32 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Felix Gruber X-Patchwork-Id: 33740 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 0CEA327BBE3; Sun, 10 Oct 2021 16:07:36 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.2 (2018-09-13) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.8 required=5.0 tests=BAYES_00,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,SPF_HELO_PASS,T_DKIM_INVALID, URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.2 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id C2FAB27BBE1 for ; Sun, 10 Oct 2021 16:07:35 +0100 (BST) Received: from localhost ([::1]:39344 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1mZaQI-0002gl-Pl for patchwork@mira.cbaines.net; Sun, 10 Oct 2021 11:07:34 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:32952) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1mZaPn-0002O0-1s for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:03 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:44122) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1mZaPm-0003qM-Px for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:02 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1mZaPm-0006dD-Kz for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#50813] [PATCH v2 4/6] gnu: python-eliot: Update to 1.13.0. Resent-From: Felix Gruber Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Sun, 10 Oct 2021 15:07:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 50813 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 50813@debbugs.gnu.org, Ludovic =?utf-8?q?Court=C3=A8s?= Cc: Felix Gruber Received: via spool by 50813-submit@debbugs.gnu.org id=B50813.163387839125411 (code B ref 50813); Sun, 10 Oct 2021 15:07:02 +0000 Received: (at 50813) by debbugs.gnu.org; 10 Oct 2021 15:06:31 +0000 Received: from localhost ([127.0.0.1]:55660 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaPC-0006bi-Vq for submit@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:31 -0400 Received: from mout02.posteo.de ([185.67.36.66]:34301) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaPA-0006bV-VA for 50813@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:25 -0400 Received: from submission (posteo.de [89.146.220.130]) by mout02.posteo.de (Postfix) with ESMTPS id 5BB09240101 for <50813@debbugs.gnu.org>; Sun, 10 Oct 2021 17:06:19 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=posteo.net; s=2017; t=1633878379; bh=0idPiKwE3zwDwKk54NxuFPAMlqya9wd6czjckDMMdKg=; h=From:To:Cc:Subject:Date:From; b=H6JudkXdzpSDtYVE0oVk/bWkmkmdEm1GLglcpBng2gfDFI8dQ0nnw9IwJbFerNp8u /ddYYJQ7um5EvkuX7YYMNMluF8FwKfc3I60QqmSt/l5kT1b9vhMs35busxLGdwXCUf d0Fo09pQP7p2Yxek/F0xQtzNKantEG+BEI3n/DiurDF+tIeLTQXRGIsJ/pDJMuTuSt hfhXXv6RHekCS6dA0kBqdxHWslEM7YKax1OmVouq+KYvH7LFTBaPBj16tVnKcqYa0S Z6ZCGgb2WnaHSrs3nXGmkjk94NNYi3dCdtY2f+aByIs/cs8EZPgM25vHuU7M+plkrK hgERhmHzbnG6Q== Received: from customer (localhost [127.0.0.1]) by submission (posteo.de) with ESMTPSA id 4HS4y25r28z9rxd; Sun, 10 Oct 2021 17:06:18 +0200 (CEST) From: Felix Gruber Date: Sun, 10 Oct 2021 15:04:32 +0000 Message-Id: <20211010150434.1966-5-felgru@posteo.net> In-Reply-To: <87zgrldwzk.fsf@gnu.org> References: <87zgrldwzk.fsf@gnu.org> MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/python-xyz.scm (python-eliot): Update to 1.13.0. [arguments] Disable failing tests test_omitLoggerFromActionType and test_logCallsDefaultLoggerWrite. --- gnu/packages/python-xyz.scm | 15 +++++++++++++-- 1 file changed, 13 insertions(+), 2 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index b1678b2bda..db7bfc9108 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -108,6 +108,7 @@ ;;; Copyright © 2021 Simon Streit ;;; Copyright © 2021 Daniel Meißner ;;; Copyright © 2021 Pradana Aumars +;;; Copyright © 2021 Felix Gruber ;;; ;;; This file is part of GNU Guix. ;;; @@ -24776,13 +24777,13 @@ tbutils (define-public python-eliot (package (name "python-eliot") - (version "1.12.0") + (version "1.13.0") (source (origin (method url-fetch) (uri (pypi-uri "eliot" version)) (sha256 - (base32 "0wabv7hk63l12881f4zw02mmj06583qsx2im0yywdjlj8f56vqdn")))) + (base32 "1xzzhsjrrw430dc84vamf683bwp9i0nr86xf2iav6yla615ijq2p")))) (build-system python-build-system) (arguments `(#:phases @@ -24798,6 +24799,16 @@ tbutils ;; be installed and these tests should pass. (lambda _ (delete-file "eliot/tests/test_prettyprint.py") + #t)) + (add-after 'remove-eliot-prettyprint-tests 'remove-failing-tests + (lambda _ + ;; These tests started to fail after updating python-pandas to + ;; 1.3.3 and python-dask to 2021.9.1. + (substitute* "eliot/tests/test_validation.py" + (("test_omitLoggerFromActionType") + "_test_omitLoggerFromActionType") + (("test_logCallsDefaultLoggerWrite") + "_test_logCallsDefaultLoggerWrite")) #t))))) (propagated-inputs `(("python-boltons" ,python-boltons) From patchwork Sun Oct 10 15:04:33 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Felix Gruber X-Patchwork-Id: 33741 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 0582227BBE3; Sun, 10 Oct 2021 16:07:43 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.2 (2018-09-13) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.8 required=5.0 tests=BAYES_00,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,SPF_HELO_PASS,T_DKIM_INVALID, URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.2 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id BD63527BBE1 for ; Sun, 10 Oct 2021 16:07:42 +0100 (BST) Received: from localhost ([::1]:39752 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1mZaQP-0002xT-RQ for patchwork@mira.cbaines.net; Sun, 10 Oct 2021 11:07:41 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:32954) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1mZaPn-0002O9-IT for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:03 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:44123) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1mZaPn-0003tM-7M for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:03 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1mZaPn-0006dM-2I for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:03 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#50813] [PATCH v2 5/6] gnu: synapse: Update to 1.44.0. Resent-From: Felix Gruber Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Sun, 10 Oct 2021 15:07:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 50813 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 50813@debbugs.gnu.org, Ludovic =?utf-8?q?Court=C3=A8s?= Cc: Felix Gruber Received: via spool by 50813-submit@debbugs.gnu.org id=B50813.163387839825433 (code B ref 50813); Sun, 10 Oct 2021 15:07:03 +0000 Received: (at 50813) by debbugs.gnu.org; 10 Oct 2021 15:06:38 +0000 Received: from localhost ([127.0.0.1]:55663 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaPN-0006c9-Ly for submit@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:37 -0400 Received: from mout01.posteo.de ([185.67.36.65]:38287) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaPK-0006bm-P4 for 50813@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:36 -0400 Received: from submission (posteo.de [89.146.220.130]) by mout01.posteo.de (Postfix) with ESMTPS id 3FFBE240027 for <50813@debbugs.gnu.org>; Sun, 10 Oct 2021 17:06:29 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=posteo.net; s=2017; t=1633878389; bh=DA11/keSvrhLglYGdPbmNRnoTXblR4LGZSW8B4fuTZg=; h=From:To:Cc:Subject:Date:From; b=euoLGrBjWhfpbGxNMsbMgR/5r7zMyattRFlWcqPEmG2mHJ6CGgqQqW4djpWE0Ls89 MRfe+sk62kXyNFpKyLyWgE1OvoExfE98+EkdEVr7dgYKOUdporBi52A0+lIQxy1V3Q fnR4y6rUFtM8FAPe6hJr8jSAp20sCKAJbyj3Edvyre3i827YBSwJFdhRHDZi+9UBch YJl8CeMWdoRdpCXsIAnE5a9ggwI08Pb6Nda7xhbFEIQuPigZXVwSh4Uh3XYRJtrdeM FfxLTAKD7UO6OsbQR6kkTjRVSwrP3S4j5qv/HK+a7rDyeQ8EgDY6MvUX1+yRLPI8k8 XA8q9ScU0IJhw== Received: from customer (localhost [127.0.0.1]) by submission (posteo.de) with ESMTPSA id 4HS4yD5Vfcz9rxT; Sun, 10 Oct 2021 17:06:28 +0200 (CEST) From: Felix Gruber Date: Sun, 10 Oct 2021 15:04:33 +0000 Message-Id: <20211010150434.1966-6-felgru@posteo.net> In-Reply-To: <87zgrldwzk.fsf@gnu.org> References: <87zgrldwzk.fsf@gnu.org> MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/matrix.scm (synapse): Update to 1.44.0. --- gnu/packages/matrix.scm | 5 +++-- 1 file changed, 3 insertions(+), 2 deletions(-) diff --git a/gnu/packages/matrix.scm b/gnu/packages/matrix.scm index 5c2b194d07..e6b0b99630 100644 --- a/gnu/packages/matrix.scm +++ b/gnu/packages/matrix.scm @@ -3,6 +3,7 @@ ;;; Copyright © 2020 Tobias Geerinckx-Rice ;;; Copyright © 2020, 2021 Michael Rohleder ;;; Copyright © 2020 Giacomo Leidi +;;; Copyright © 2021 Felix Gruber ;;; ;;; This file is part of GNU Guix. ;;; @@ -86,13 +87,13 @@ an LDAP server.") (define-public synapse (package (name "synapse") - (version "1.29.0") + (version "1.44.0") (source (origin (method url-fetch) (uri (pypi-uri "matrix-synapse" version)) (sha256 (base32 - "0if2yhpz8psg0661401mvxznldbfhk2j9rhbs25jdaqm9jsv6907")))) + "1lgi1a4ksz4z78yb84bi29x4y080bx1dadib2wznvmwsfif0azx0")))) (build-system python-build-system) ;; TODO Run tests with ‘PYTHONPATH=. trial3 tests’. (propagated-inputs From patchwork Sun Oct 10 15:04:34 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Felix Gruber X-Patchwork-Id: 33739 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 6B31627BBE3; Sun, 10 Oct 2021 16:07:35 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.2 (2018-09-13) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.8 required=5.0 tests=BAYES_00,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,SPF_HELO_PASS,T_DKIM_INVALID, URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.2 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 2079227BBE1 for ; Sun, 10 Oct 2021 16:07:35 +0100 (BST) Received: from localhost ([::1]:39318 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1mZaQI-0002fn-7k for patchwork@mira.cbaines.net; Sun, 10 Oct 2021 11:07:34 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:32956) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1mZaPn-0002OK-Ui for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:03 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:44124) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1mZaPn-0003wB-Lx for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:03 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1mZaPn-0006dT-H8 for guix-patches@gnu.org; Sun, 10 Oct 2021 11:07:03 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#50813] [PATCH v2 6/6] gnu: clipper: Disable non-deterministic test. Resent-From: Felix Gruber Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Sun, 10 Oct 2021 15:07:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 50813 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 50813@debbugs.gnu.org, Ludovic =?utf-8?q?Court=C3=A8s?= Cc: Felix Gruber Received: via spool by 50813-submit@debbugs.gnu.org id=B50813.163387840525453 (code B ref 50813); Sun, 10 Oct 2021 15:07:03 +0000 Received: (at 50813) by debbugs.gnu.org; 10 Oct 2021 15:06:45 +0000 Received: from localhost ([127.0.0.1]:55666 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaPU-0006cS-Vd for submit@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:45 -0400 Received: from mout02.posteo.de ([185.67.36.66]:57261) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mZaPS-0006c8-Nx for 50813@debbugs.gnu.org; Sun, 10 Oct 2021 11:06:43 -0400 Received: from submission (posteo.de [89.146.220.130]) by mout02.posteo.de (Postfix) with ESMTPS id 116E7240101 for <50813@debbugs.gnu.org>; Sun, 10 Oct 2021 17:06:37 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=posteo.net; s=2017; t=1633878397; bh=1l0IrXmPqQxEMqu6A9KXxbVK3bIFLDcKRUpxPk6zPcA=; h=From:To:Cc:Subject:Date:From; b=liZJHwluY5ob5YsPW75+z1K0EAqVfALx1BqfJTGNtXtv1gMOrgOSrvvN5Ml5zafQi fs0lCD3vdKGyxy1Uv3FAPWRlv2QgYabeq9KHAo9zwfaA1xbdR/GkM3yras0fcjKSnU 5J0FiRf4ogjbioWrxdJ+uN27/iMWChioc1EnDVCZh3ofKlI6oFREM0st1D49H4pYZK IHzVuh+/F7G2Dbg7kKjxK/Jstu7qmcHg5lI5mhaSVlnDgKZHdl4BqDsysX9pPa0nn/ mRy3DxqEEbRBZPc26K4+Hu92qP5L1MlbCeOrD/moE17XpeNkgyiRJgO9URYsNzrTFY t2L9dHhJesHng== Received: from customer (localhost [127.0.0.1]) by submission (posteo.de) with ESMTPSA id 4HS4yM5Fb6z9rxW; Sun, 10 Oct 2021 17:06:35 +0200 (CEST) From: Felix Gruber Date: Sun, 10 Oct 2021 15:04:34 +0000 Message-Id: <20211010150434.1966-7-felgru@posteo.net> In-Reply-To: <87zgrldwzk.fsf@gnu.org> References: <87zgrldwzk.fsf@gnu.org> MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches This test fails/succeeds non-deterministically. * gnu/packages/bioinformatics.scm (clipper)[arguments]: Disable non-deterministic test test_get_FDR_cutoff_mean. --- gnu/packages/bioinformatics.scm | 9 ++++++++- 1 file changed, 8 insertions(+), 1 deletion(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 082e47bf5b..7dec74f0c0 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -22,6 +22,7 @@ ;;; Copyright © 2021 Tim Howes ;;; Copyright © 2021 Hong Li ;;; Copyright © 2021 Simon Tournier +;;; Copyright © 2021 Felix Gruber ;;; ;;; This file is part of GNU Guix. ;;; @@ -2363,7 +2364,13 @@ databases.") (let ((out (assoc-ref outputs "out"))) (for-each make-file-writable (find-files out "\\.gz$")) - #t)))))) + #t))) + (add-after 'unpack 'disable-nondeterministic-test + (lambda _ + ;; This test fails/succeeds non-deterministically. + (substitute* "clipper/test/test_call_peak.py" + (("test_get_FDR_cutoff_mean") "_test_get_FDR_cutoff_mean")) + #t))))) (inputs `(("htseq" ,htseq) ("python-pybedtools" ,python-pybedtools)