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charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40793 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 6BAA627BBE2; Tue, 25 Mar 2025 07:58:43 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 221A627BBEC for ; Tue, 25 Mar 2025 07:58:40 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzAs-0007ok-Ul; 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[127.0.0.1]) by director4.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77246@debbugs.gnu.org>; Tue, 25 Mar 2025 07:57:18 +0000 (UTC) Received: from mta3.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.108.2.189]) by director4.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZMMhZ1RdnzyBm; Tue, 25 Mar 2025 07:57:18 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.1]) by mta3.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id BD87E3A3E4D; Tue, 25 Mar 2025 07:57:17 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-112S006788e1c7a-09f5-4122-9c26-136ab082a4b9, FB45688AE489E0BEC42E54AE58A1B437771C36DF) smtp.auth=ngraves@ngraves.fr X-OVh-ClientIp: 90.92.117.144 Date: Tue, 25 Mar 2025 08:56:39 +0100 Message-ID: <20250325075712.22316-3-ngraves@ngraves.fr> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250325075712.22316-1-ngraves@ngraves.fr> References: <20250325075712.22316-1-ngraves@ngraves.fr> MIME-Version: 1.0 X-Ovh-Tracer-Id: 7052074069135319778 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduiedvudduucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepleffjeetueethfefkeffffefvddukeejkefgleduiedthfekvefhiedvhfffgeegnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjedvgeeiseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehieefmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=82hASlOjRfJcGF2woLNmmT8cScFOIlSica/o++W1zDI=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1742889438; v=1; b=VRhG9HRPQ5Gb4g7tYP6Lo0wOK0M6JPTmOzsmmcALykglSovcWtA7vG7K/bG4zZ4TkPUsJKfm q+iUYGSSln2HvUAs2g87lvIphYE7qg7qspq/uPtPjKUvyeJRJBr4zBNyUoXhwM8crEU3Onc5IwW LIw4nUZjrzotI9lUAZ0qR9Ia9z0XUAsyuAT1n6/aLMnie4mSzHoXunKCTCet7llnxM5x6IhJ75H Upl/TFIMr7S70pDoniyc9xbAON8nHBJgM8PQ8pfeCmcvw/7qk08Pn2quDPNh+RPUQgSKyWhhR+w GK4+XsoUkC8IRlt07SnHx8mjSmBpNxbXRpc/nDgkpSbpw== 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: , Reply-to: Nicolas Graves X-ACL-Warn: , Nicolas Graves via Guix-patches X-Patchwork-Original-From: Nicolas Graves via Guix-patches via From: Nicolas Graves Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/machine-learning.scm (python-cleanlab): Update to 2.7.1. --- gnu/packages/machine-learning.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm index f762e0dc3c..490827b038 100644 --- a/gnu/packages/machine-learning.scm +++ b/gnu/packages/machine-learning.scm @@ -2315,7 +2315,7 @@ (define-public python-scikit-rebate (define-public python-cleanlab (package (name "python-cleanlab") - (version "2.7.0") + (version "2.7.1") ;; The version on pypi does not come with tests. (source (origin (method git-fetch) @@ -2325,7 +2325,7 @@ (define-public python-cleanlab (file-name (git-file-name name version)) (sha256 (base32 - "0f8v5246nzy22r7zswv9vbpxc7wxaqjwry9iq0fqjp2ffch88h6j")))) + "073w45azq496x4bhrh8mdywcrg3gk33n13w1pqh1kiykw826ld9b")))) (build-system pyproject-build-system) (arguments (list From patchwork Tue Mar 25 07:56:40 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40799 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 0BF9427BBE2; Tue, 25 Mar 2025 07:59:09 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 4DD1027BBEC for ; Tue, 25 Mar 2025 07:59:06 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzAt-0007on-6V; Tue, 25 Mar 2025 03:58:15 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzAh-0007mO-Df for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:03 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzAh-0001vc-5E for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:03 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=r4FlObW76x3DXmUcCM8kF/TCzA/pQH4CdMi70tl4ADw=; b=jjl4MP/ECEzp6IJgCs+JwV6tvWaKvDF7Y9W4CiKNV4Dm7HZ9/ww1d+S00DveZoQyypuOAmkVvuLFdzxuBQ+h84uithz51gEYK1j/tsO54QbcGLtxp3MyL2Xiz84V+6JQX708H8KPaK6pWPMF191Bfma9wa8wfWu0rxgpyrePxc/ulJPPw5aC9nRhpjlSrpLlgeYYvUPGwUa5yvWKw0P4Es6rDsJmzvRoT7mJfbMrFXXtslYOzryOBsf0/n+12UtpaMz0bzjXULJ9cAdOgtntcAJ+eejnn321+ZpWXxdrIUeL+atdXd+MM1jVg/m9C6NCmZvRGx24l88N10mZ96ZjbQ==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzAh-0003DK-19 for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:03 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 04/18] gnu: python-cesium: Move to (gnu packages astronomy). 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(license license:bsd-3))) +(define-public python-cesium + (package + (name "python-cesium") + (version "0.12.1") + (source (origin + (method url-fetch) + (uri (pypi-uri "cesium" version)) + (sha256 + (base32 + "0jr0ycqz9ns6mcskm4sxx92k40fj3v0x9knjaw5ac9f3mpqxsfbv")))) + (build-system pyproject-build-system) + (arguments + (list + #:phases + #~(modify-phases %standard-phases + ;; The installed test files contain the /gnu/store location, not the + ;; location of the discovered test files from the build directory. + ;; The test framework doesn't like this. The easiest way around + ;; this mismatch is to jump to the output directory. + (add-before 'check 'check-chdir + (lambda _ (chdir #$output)))))) + (propagated-inputs + (list python-click ;XXX required by python-dask + python-cloudpickle + python-dask + python-gatspy + python-joblib + python-numpy + python-pandas + python-scikit-learn + python-scipy + python-toolz)) + (native-inputs (list python-cython python-pytest python-setuptools-scm + python-setuptools python-wheel)) + (home-page "https://pypi.org/project/cesium/") + (synopsis "Library for time-series feature extraction and processing") + (description + "Cesium is a library for time-series feature extraction and processing.") + (license license:bsd-3))) + (define-public python-cmyt (package (name "python-cmyt") diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 8a6453e592..1acc381d9f 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -185,7 +185,6 @@ (define-module (gnu packages python-xyz) #:use-module (gnu packages adns) #:use-module (gnu packages aidc) #:use-module (gnu packages algebra) - #:use-module (gnu packages astronomy) #:use-module (gnu packages attr) #:use-module (gnu packages audio) #:use-module (gnu packages autotools) @@ -21407,46 +21406,6 @@ (define-public python-celery synchronously (wait until ready).") (license license:bsd-3))) -(define-public python-cesium - (package - (name "python-cesium") - (version "0.12.1") - (source (origin - (method url-fetch) - (uri (pypi-uri "cesium" version)) - (sha256 - (base32 - "0jr0ycqz9ns6mcskm4sxx92k40fj3v0x9knjaw5ac9f3mpqxsfbv")))) - (build-system pyproject-build-system) - (arguments - (list - #:phases - #~(modify-phases %standard-phases - ;; The installed test files contain the /gnu/store location, not the - ;; location of the discovered test files from the build directory. - ;; The test framework doesn't like this. The easiest way around - ;; this mismatch is to jump to the output directory. - (add-before 'check 'check-chdir - (lambda _ (chdir #$output)))))) - (propagated-inputs - (list python-click ;XXX required by python-dask - python-cloudpickle - python-dask - python-gatspy - python-joblib - python-numpy - python-pandas - python-scikit-learn - python-scipy - python-toolz)) - (native-inputs (list python-cython python-pytest python-setuptools-scm - python-setuptools python-wheel)) - (home-page "https://pypi.org/project/cesium/") - (synopsis "Library for time-series feature extraction and processing") - (description - "Cesium is a library for time-series feature extraction and processing.") - (license license:bsd-3))) - (define-public python-translitcodec (package (name "python-translitcodec") From patchwork Tue Mar 25 07:56:41 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40798 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 604CE27BBE2; Tue, 25 Mar 2025 07:59:06 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 05F5527BBE2 for ; Tue, 25 Mar 2025 07:59:05 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzAt-0007op-BW; Tue, 25 Mar 2025 03:58:15 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzAh-0007mP-PZ for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:04 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzAh-0001vh-HC for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:03 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=RrV3PTcxvtXytlPOk4b1Y2ozCwEmXm83VKsnaeih9h8=; b=XcBmzxhOYxjxffywbEkZdczFS7JM7ZbkMk36daOJ3XkLPzwXKkYKeQWXtvKKNdYgvje8wniJheJSN8gC1xxzqffvUwlCoS/L3IEbFEf9gTev1Mbo0r3kkRefZtJpLFCfWK1EJtWWtFCHOXbp154+8duYeTahBfKRjvSW4gvkzW7nBcfh4Or/hLLb2ShcpE9qI8cdFUgc8hUMfUXyW/43hu9J65429UfQFdXCOsds3WeqExxsLRtTSG8+cGRsG6syMxIL4QoItNd4UrSeb+QSgqytMlNMB0NBnTEJZNLjYJ5mhUi+DoqcpMPkz/3n8GgDyAtpj4GzboaZJfCNh9+Yvg==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzAh-0003DS-DV for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:03 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 05/18] gnu: python-bx-python: Update to 0.13.0. 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[source]{origin}: Relax requirements in snippet. --- gnu/packages/bioinformatics.scm | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index c6fc760ec0..172902541a 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -2406,7 +2406,7 @@ (define-public python-bulkvis (define-public python-cell2cell (package (name "python-cell2cell") - (version "0.6.8") + (version "0.7.4") (source (origin (method git-fetch) (uri (git-reference @@ -2415,7 +2415,7 @@ (define-public python-cell2cell (file-name (git-file-name name version)) (sha256 (base32 - "1hwww0rcv8sc4k312n4d0jhbyix1jjqgv5djg25bw8127q5iym3s")) + "02cqc5rm0qkm0np1k7bim1w7f5qjnwf1jcm5albd9cpvfs4bwgdr")) (modules '((guix build utils))) (snippet '(begin @@ -2431,6 +2431,8 @@ (define-public python-cell2cell (("'statannotations',") "") ;; We provide version 1.0.4, which should be fine. (("'gseapy == 1.0.3'") "'gseapy'") + ;; We provide version 0.9.0, which should be fine. + (("'tensorly == 0.8.1'") "'tensorly'") ;; Using matplotlib 3.5.2 leads to this bug: ;; https://github.com/earmingol/cell2cell/issues/19 but we ;; can't package a different minor version of matplotlib From patchwork Tue Mar 25 07:56:44 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40795 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 CD26227BBEA; Tue, 25 Mar 2025 07:58:58 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 26E7A27BBE2 for ; Tue, 25 Mar 2025 07:58:58 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzAt-0007pE-UR; Tue, 25 Mar 2025 03:58:16 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzAj-0007mx-8f for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:07 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzAj-0001w0-0X for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:05 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=DhJQw7rctItf0kSOCOcQ9DkaOZTtjRuTIxNLwhwjxac=; b=RaJJdgXAng0flW7phZwkpPfkzd8CCN+E8DC9niyNhsQsrhH33q3830ncY3oqMeN6D6tP66VxeP4j7ygwk+dcgjtZ2Tjtob1NUSautG45FbtKy6RWCsmt23NKxl5q257dhsAyjAzkAnCGHYyAZT6k7VXgRXUAvkdfBzwA5PGjmXIrB0GoOYJCXivC+vDAbqzyB7L80QZWotJyNDLyZ8zAqJwTDXqVaT8A0snq4vAsX1PoKviPv1bAihuj/G2f/Qx1ecjFQdKdydBvQN2U/SRy8wEgq6EDuibPby7ciIJr4Zk7jxFIxmA7zfebVH/psgmT7e/oqqCguPLVAUGaAqHIlw==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzAi-0003Do-Ry for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:04 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 08/18] gnu: python-ncls: Update to 0.0.68. 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[build-system]: Switch to pyproject-build-system. [native-inputs]: Add python-cython, python-pandas, python-pytest, python-setuptools, python-wheel. --- gnu/packages/python-xyz.scm | 16 +++++++++++++--- 1 file changed, 13 insertions(+), 3 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 1acc381d9f..26b4a76670 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -3895,14 +3895,24 @@ (define-public python-ncclient (define-public python-ncls (package (name "python-ncls") - (version "0.0.65") + (version "0.0.68") (source (origin (method url-fetch) (uri (pypi-uri "ncls" version)) (sha256 (base32 - "1wx06xqknd2r98w8z93f47g5dpxzn92kamhj8vkq0nj569hf7cg1")))) - (build-system python-build-system) + "14xsnzr34xa4rwfcdjry9aqjs8i03s9fzy6jgrwj3fr3n6msbal1")))) + (build-system pyproject-build-system) + (arguments + ;; Those tests fail with warnings (not errors) for the Numpy update. + ;; Remove it at next python-team iteration. + (list #:test-flags ''("--ignore=examples/test_all_overlaps_both.py" + "--ignore=examples/test_find_overlap_list.py"))) + (native-inputs (list python-cython + python-pandas + python-pytest + python-setuptools + python-wheel)) (propagated-inputs (list python-numpy)) (home-page "https://github.com/endrebak/ncls") (synopsis "Nested containment list data structure") From patchwork Tue Mar 25 07:56:45 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40792 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 4284F27BBEA; Tue, 25 Mar 2025 07:58:42 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 8F10F27BBE9 for ; Tue, 25 Mar 2025 07:58:39 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzAz-0007rL-Uq; Tue, 25 Mar 2025 03:58:22 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzAj-0007mz-N2 for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:07 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzAj-0001wF-EM for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:05 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=fR0SZ5xTzJmKMgh59oks3zwp1wyY6XrNwudki3BAdno=; b=YC9HnHPFjatpYwhc8b4e+yBJfZA8nWPsfkboZ6SYaiRBbDK/SoumULk+jGxkdZqefayEYxKHpWQPw139UcMrWd4HVFiez0tp2ngpR1dTDuG3Zbt0ade2ycALxWKfE/djMVE5rqyqZbMDplPSi3FKdbqggED/BgXT65LOFNbOQuTgx+aohP48eAdS/erK2WEVdargdL9FJsXiKercubCrwu7FSCVJJXNiGXyy/tDXv0XpdDv4UDOBO75orU/ah3C/0yThQMr8CRjjfP8cPJMoIcMZL/0AMry/kKoI2IJSFebRavChE6kig9kAVwu2jzAgQNwx0nxFLXsTpJyQFY4N2Q==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzAj-0003Dw-AM for guix-patches@gnu.org; Tue, 25 Mar 2025 03:58:05 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 09/18] gnu: python-nptyping: Ignore failing test. 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[propagated-inputs]: Add python-cython, python-setuptools. Remove python-importlib-metadata. [native-inputs]: Styling from guix style. --- gnu/packages/bioinformatics.scm | 11 ++++++----- 1 file changed, 6 insertions(+), 5 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 172902541a..0eac49a2a1 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3323,30 +3323,31 @@ (define-public python-peaks2utr (define-public python-pegasusio (package (name "python-pegasusio") - (version "0.7.1") + (version "0.9.1") (source (origin (method url-fetch) (uri (pypi-uri "pegasusio" version)) (sha256 (base32 - "0gqygspdy398vjymdy6756jmk99s7fhwav9rivdx59kpqjcdxaz9")))) + "1vxi6z7jlznp7sgzlbjsl1dzf1h7ypinllnls0lb2773a8vavg5x")))) (build-system pyproject-build-system) ;; There are no tests. (arguments (list #:tests? #false)) (propagated-inputs (list python-anndata + python-cython python-docopt python-h5py - python-importlib-metadata python-loompy python-natsort python-numpy python-pandas python-pillow python-scipy + python-setuptools python-zarr)) - (native-inputs (list python-cython python-setuptools-scm - python-setuptools python-wheel)) + (native-inputs (list python-cython python-setuptools python-setuptools-scm + python-wheel)) (home-page "https://github.com/lilab-bcb/pegasusio") (synopsis "Read or write single-cell genomics data") (description From patchwork Tue Mar 25 07:56:47 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40805 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 E3BD027BBEA; Tue, 25 Mar 2025 07:59:28 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 6E20F27BBE2 for ; Tue, 25 Mar 2025 07:59:28 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzBi-0008SV-Vl; Tue, 25 Mar 2025 03:59:07 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzBe-0008Jw-NL for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:02 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzBe-00022j-DV for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:02 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=DefmHnqTFFQij5cDN3SLFGCLnqr4P/KL1AYx3sM7SzU=; b=higOJNgY3VILhbgTEF+U1r2+2s5sFFaxHUdAA4D+Gz0SSV2Swva5oJAHw8EKhY7YvUgVndNKcG2HMG3oQzkd0MNDSlmMFOytcxYzJxA38IKQFRtOeytmEFz8XdETm250kPPnwQfjUi+zeKLZDuPVdaVv6nE0MrUtTXQaYm0aq7f3wtLTisUabDulqzcdRzorZTtXrZb1AOAO0fxjOqlSvufcxI+xQaycX7IJRzOvWtH1bQLmChBc8vYxCzRz7dbLfnY+31Hn/oUB0Ykm/vUZo9uj9f9pv0gCoKLeym4X8mH2/rnV9pipddfBOxnnvFUF5p6/m3rUiy5kWHSicujyMQ==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzBe-0003Gh-5r for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 11/18] gnu: Add python-colored-traceback. 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(license license:expat))) +(define-public python-colored-traceback + ;; No tags in upstream repository. + (let ((commit "98e6dea7111f7681db823c518f18026374a832b9") + (revision "0")) + (package + (name "python-colored-traceback") + (version (git-version "0.4.2" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/staticshock/colored-traceback.py") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "19d5mpwk7398b8fjh6abnr96wz70vf5vb4p207r8sny748rwx451")))) + (build-system pyproject-build-system) + (arguments + ;; Tests are incompatible with current python version. + (list #:tests? #f)) + (propagated-inputs (list python-colorama python-pygments)) + (native-inputs (list python-setuptools python-wheel)) + (home-page "https://github.com/staticshock/colored-traceback.py") + (synopsis "Automatically color uncaught exception tracebacks") + (description "This package provides python utilities to automatically +color uncaught exception tracebacks.") + (license license:isc)))) + (define-public python-colorful (package (name "python-colorful") From patchwork Tue Mar 25 07:56:48 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40802 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 8BD3327BBEA; Tue, 25 Mar 2025 07:59:15 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 15CF827BBE2 for ; Tue, 25 Mar 2025 07:59:15 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzBg-0008Ol-Qd; Tue, 25 Mar 2025 03:59:04 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzBf-0008K7-2W for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:03 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzBe-00022q-Pu for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:02 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=Fq+IORlK0kPhmBJloPwNk4doeqBckAt9/UFBb+UUoeI=; b=v1hUcZVlHPLLbg3Q3QZ111RAk1RIOpz1tl9gPc9Hi+r7+TEwQJowhjQpTqDbGDNrNZH04WwlR91YmlOXF50pm18LoCVvpER+I0+2gWG64siZ7qgsQf+IyvwHlDrqyKLTtkPw0IiT/SvQVML3OAKyXwR20GEyyDj01epJ403/3x2HJQyrHT/lSdgBRyS/qHWvYGLZc+P5nFYdbx3iqXPZDTa/P87T7puv8zKTeD5Oc3BQndIhwSCF1lOJWdaoMJLGFcAMCxJLIavBh8V4vw2F6fDpDcM2Ti5Iwn8vy7bhMfa1KXI5pCuiLN3qaV5tVmt5mFGLrZ/cgjR17TXQ7g5HqQ==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzBe-0003Gp-Jm for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 12/18] gnu: Add python-unix-ar. 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test-flags #:allow-other-keys) + (apply invoke "python" test-flags)))))) + (native-inputs (list python-pytest python-setuptools python-wheel)) + (home-page "https://github.com/getninjas/unix_ar") + (synopsis "AR file handling in Python") + (description "This package provides utilities to handle AR files in +Python.") + (license license:bsd-3))) + (define-public python-zipp (package (name "python-zipp") From patchwork Tue Mar 25 07:56:49 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40808 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 2646527BBEA; Tue, 25 Mar 2025 07:59:37 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 9BDE927BBE2 for ; Tue, 25 Mar 2025 07:59:36 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzBh-0008Pi-7X; Tue, 25 Mar 2025 03:59:05 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzBf-0008M7-K5 for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:03 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzBf-00022y-92 for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:03 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=rJK6/U1dlC7bXJIAH6NrkWIn0ZBlqyFq1+O9P0SIXFg=; b=hyGCRT1loDV/kzHyiRMJYKxH1QIyJbUY0HAgG7D1ZjLohIhIE5B0N8+m/T4RqB4YYFO6o1z9LY/FtxyGe1EZp1V/dSvyUfCSizNne4zTYXsc5x8WJvIfJRsSMHEO+phOdpqaIZ6RyciDQJnfBSr6OL1yuX1CSgYtBupeRXtmB6UnNIBvljN1yQMt6+TxGR6xYAShrxafxXyWwgJIypcq7xu+2FoR5h0VL2c4ZX2FrH/K1qHroCvDj+QvxbtPxCLVvqWAf9dDFyiin5h71Vs4GPiSoY5bcT3En8kjMypGshC6MAE+sQjci9oem6Uqlj8oMFsGHIRVcYROeCIkk/YJew==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzBf-0003Gw-2m for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:03 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 13/18] gnu: pwntools: Update to 4.4.0. 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#f)) ;XXX: needs a specific version of unicorn (propagated-inputs (list capstone + python-colored-traceback python-dateutil python-intervaltree python-mako python-packaging python-paramiko + python-pathlib2 python-psutil python-pyelftools python-pygments @@ -148,9 +153,14 @@ (define-public pwntools python-pysocks python-requests ropgadget + python-rpyc python-six python-sortedcontainers + python-unix-ar + python-zstandard unicorn)) + (native-inputs + (list python-setuptools python-toml python-wheel)) (home-page "https://github.com/Gallopsled/pwntools") (synopsis "Capture-the-flag (CTF) framework and exploit development library") From patchwork Tue Mar 25 07:56:50 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40803 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 87DA727BBEB; Tue, 25 Mar 2025 07:59:16 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id EFEBA27BBE2 for ; Tue, 25 Mar 2025 07:59:15 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzBl-0008WI-9v; Tue, 25 Mar 2025 03:59:09 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzBg-0008Mk-4W for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:04 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzBf-00023H-Ng for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:03 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=RRyvwkR0hjEr1vRskQeVO5ajackO2APStU822bP02hs=; b=tlvPn6LJdSlbvuYujXRRnneAXXGMzAbkDVZL5X1HZJH+8PDHZkZkebYZCJj1bHhXitc4f7+koQp+mfpoMFxi4wWmoW9OarIBRZ8AmMvhGs/DCG96NZUDKcuYNFIKnbO9kc/z3AblnShQ1LfhfKKDh6U0Z41FZL01QygTahP0jvzRQPAc22tg7QI6wPF3fzeTLYT5saAn2h+Chxv6HYnwW48H3Asu5X7Pbz6lRwarYz35Nl0V+xB/4HeUYVlics0GRiogWA5uD9VeDdpiUbBfYY2U61xpP5v+mSBUNDk9xmDQjhWdNsPNnjUHqOWVBDSI2aP0g5SOGDsU7ZDWwm6h3Q==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzBf-0003H3-HD for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:03 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 14/18] gnu: python-debtcollector: Update to 3.0.0. 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[source]: Patch {origin} to remove unwanted native-inputs. [build-system]: Switch to pyproject-build-system. [propagated-inputs]: Remove python-six. [native-inputs]: Add python-doc8, python-fixtures, python-openstackdocstheme, python-reno, python-setuptools, python-stestr and python-wheel. Remove python-subunit and python-testrepository. --- gnu/packages/openstack.scm | 24 +++++++++++++++++------- 1 file changed, 17 insertions(+), 7 deletions(-) diff --git a/gnu/packages/openstack.scm b/gnu/packages/openstack.scm index ac283bd019..80fad32068 100644 --- a/gnu/packages/openstack.scm +++ b/gnu/packages/openstack.scm @@ -115,20 +115,30 @@ (define-public python-cliff (define-public python-debtcollector (package (name "python-debtcollector") - (version "1.19.0") + (version "3.0.0") (source (origin (method url-fetch) (uri (pypi-uri "debtcollector" version)) (sha256 - (base32 - "06c7vyn184y9f0lsrwaz13aq63hdz5fjrd191b8nifx6acsni42f")))) - (build-system python-build-system) + (base32 "0vzarkvjclci98d8lvkix6qj59f7rxp1qg2x6q6is7qfbg91g29a")) + (modules '((guix build utils))) + (snippet #~(begin + (substitute* "test-requirements.txt" + (("^(coverage|hacking|pre-commit).*") + "")))))) + (build-system pyproject-build-system) (propagated-inputs - (list python-pbr python-six python-wrapt)) + (list python-pbr python-wrapt)) (native-inputs - (list ;; Tests. - python-subunit python-testrepository python-testtools)) + (list python-doc8 + python-fixtures + python-openstackdocstheme + python-reno + python-setuptools + python-stestr + python-testtools + python-wheel)) (home-page "https://www.openstack.org/") (synopsis "Find deprecated patterns and strategies in Python code") From patchwork Tue Mar 25 07:56:51 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40807 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 4016D27BBEB; Tue, 25 Mar 2025 07:59:33 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 97AA427BBE2 for ; Tue, 25 Mar 2025 07:59:32 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzBh-0008Qz-MK; Tue, 25 Mar 2025 03:59:05 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzBg-0008O9-JB for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:04 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzBg-000242-6L for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:04 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=yLjYXYk6uo2rHETdiKxOfbzNxfpu4ppnerEfQ7KzEak=; b=DVjCVh7N6BN7KF1dmhFuoYDYfe36SXg8L9AgleZqZ7e8hGTx677sw7soyfodqha/LqhPoO7G5Sqd+2dUpJ9YPRj2ULEjg5kTN9VhNwhDAe2rj0gaTnzde3bZOFlhvSoeIq67PAmBwkXbQSXPJe2Ihfbqulsqcodr8Cn27bN/Zj+UyYWrGF4t6wM6gr6meVGCwnoo+3OxDM0J7C4mlAKMviTVXPWBWTYg/F+/dhrkjbfIoYf+VYXtyXaj3wYNzikNEdGtcgPdivXxyNKWDaFnPNp2rNUSVs08hvyMESa8HdaR+YckKiiZ2le3RAzMWOuVSBEbYxVb96Gx2fCc9A5tmA==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzBg-0003HA-0z for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:04 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 15/18] gnu: Standardize python-oslo.* package names. 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(license asl2.0))) -(define-public python-oslo.config +(define-public python-oslo-config (package - (name "python-oslo.config") + (name "python-oslo-config") (version "8.7.1") (source (origin @@ -525,7 +525,7 @@ (define-public python-oslo.config (propagated-inputs (list python-debtcollector python-netaddr - python-oslo.i18n + python-oslo-i18n python-rfc3986 python-requests python-stevedore @@ -537,9 +537,9 @@ (define-public python-oslo.config .ini style configuration files.") (license asl2.0))) -(define-public python-oslo.context +(define-public python-oslo-context (package - (name "python-oslo.context") + (name "python-oslo-context") (version "5.0.0") (source (origin @@ -576,9 +576,9 @@ (define-public python-oslo.context pipeline and used by various modules such as logging.") (license asl2.0))) -(define-public python-oslo.i18n +(define-public python-oslo-i18n (package - (name "python-oslo.i18n") + (name "python-oslo-i18n") (version "3.20.0") (source (origin @@ -602,9 +602,9 @@ (define-public python-oslo.i18n in an application or library.") (license asl2.0))) -(define-public python-oslo.log +(define-public python-oslo-log (package - (name "python-oslo.log") + (name "python-oslo-log") (version "5.0.0") (source (origin @@ -622,11 +622,11 @@ (define-public python-oslo.log (propagated-inputs (list python-dateutil python-debtcollector - python-oslo.config - python-oslo.context - python-oslo.i18n - python-oslo.utils - python-oslo.serialization + python-oslo-config + python-oslo-context + python-oslo-i18n + python-oslo-utils + python-oslo-serialization python-pyinotify)) (native-inputs (list python-fixtures python-oslotest python-stestr python-testtools @@ -639,9 +639,9 @@ (define-public python-oslo.log handlers and support for context specific logging (like resource id’s etc).") (license asl2.0))) -(define-public python-oslo.serialization +(define-public python-oslo-serialization (package - (name "python-oslo.serialization") + (name "python-oslo-serialization") (version "4.2.0") (source (origin @@ -657,10 +657,10 @@ (define-public python-oslo.serialization (lambda* (#:key tests? #:allow-other-keys) (when tests? (invoke "stestr" "run"))))))) (propagated-inputs - (list python-msgpack python-oslo.utils python-pbr python-pytz)) + (list python-msgpack python-oslo-utils python-pbr python-pytz)) (native-inputs ;; For tests. - (list python-netaddr python-oslo.i18n python-oslotest python-stestr)) + (list python-netaddr python-oslo-i18n python-oslotest python-stestr)) (home-page "https://launchpad.net/oslo") (synopsis "Oslo serialization library") (description @@ -767,9 +767,9 @@ (define-public python-oslotest for debugging, and better support for mocking results.") (license asl2.0))) -(define-public python-oslo.utils +(define-public python-oslo-utils (package - (name "python-oslo.utils") + (name "python-oslo-utils") (version "4.12.0") (source (origin @@ -786,7 +786,7 @@ (define-public python-oslo.utils (when tests? (invoke "stestr" "run"))))))) (propagated-inputs (list python-debtcollector - python-oslo.i18n + python-oslo-i18n python-iso8601 python-netaddr python-netifaces @@ -853,8 +853,8 @@ (define-public python-keystoneauth1 python-hacking python-lxml python-oauthlib - python-oslo.config - python-oslo.utils + python-oslo-config + python-oslo-utils python-oslotest python-pbr python-pyyaml @@ -917,10 +917,10 @@ (define-public python-keystoneclient python-iso8601 python-keystoneauth1 python-netaddr - python-oslo.config - python-oslo.i18n - python-oslo.serialization - python-oslo.utils + python-oslo-config + python-oslo-i18n + python-oslo-serialization + python-oslo-utils python-prettytable python-requests python-six @@ -1081,7 +1081,7 @@ (define-public python-openstacksdk python-statsd python-stestr python-testscenarios - python-oslo.config + python-oslo-config python-oslotest)) (propagated-inputs (list python-appdirs python-cryptography From patchwork Tue Mar 25 07:56:52 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40806 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 7049527BBEA; Tue, 25 Mar 2025 07:59:32 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id E7B0D27BBE2 for ; Tue, 25 Mar 2025 07:59:31 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzBi-0008S1-0i; Tue, 25 Mar 2025 03:59:06 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzBh-0008PU-3N for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:05 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzBg-00024N-MX for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:04 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=kWD045Gm73lC5fB4W93a0tNnZGb7TWIQvdpUkV4qxBU=; b=sUrNd/QwZ4xzr18QXmM4OHy8IePVB8Bl77vdywmA5SnKrOb3V6Sro8+vQIbpearqVpPkHWuKgd5BiBtjVEZddMrLhNTKLmx5URQnyXQYCp3PFocVe+xhFxy43DgTARetfWPK9bkhRD1W2XnuruPAIXmFDMxC2X0zu+Ae7vyCz5mWpmdFm52u91HWyyKdQj2Kw2oA+zdihxED4bpZ1uCD8xUtrtgc9VuNeXYo0318UQh8KThaYlFaJRrM4OLg0WXnz1Ks0cBKt5awW+hsbX09lWMxk5D1so+pAOr8RXIdCB5xF4Pjgngxl6cm/6SwKmLU95gRJKIu0HZuAwAh7Zt+rA==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzBg-0003HH-Hd for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:04 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 16/18] gnu: python-netaddr: Move to (gnu packages python-web). 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#f)) ;; No tests. + (home-page "https://github.com/drkjam/netaddr/") + (synopsis "Pythonic manipulation of network addresses") + (description + "A Python library for representing and manipulating IPv4, IPv6, CIDR, EUI +and MAC network addresses.") + (license license:bsd-3))) + (define-public python-nh3 (package (name "python-nh3") diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 5c849ca6a2..4ff34b0551 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -17221,26 +17221,6 @@ (define-public python-msgpack-transitional ((".fromstring\\(") ".frombytes(")) #t)))))))) -(define-public python-netaddr - (package - (name "python-netaddr") - (version "0.8.0") - (source - (origin - (method url-fetch) - (uri (pypi-uri "netaddr" version)) - (sha256 - (base32 - "0hx2npi0wnhwlcybilgwlddw6qffx1mb7a3sj4p9s7bvl33mgk6n")))) - (build-system python-build-system) - (arguments `(#:tests? #f)) ;; No tests. - (home-page "https://github.com/drkjam/netaddr/") - (synopsis "Pythonic manipulation of network addresses") - (description - "A Python library for representing and manipulating IPv4, IPv6, CIDR, EUI -and MAC network addresses.") - (license license:bsd-3))) - (define-public python-openstep-plist (package (name "python-openstep-plist") From patchwork Tue Mar 25 07:56:53 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Nicolas Graves X-Patchwork-Id: 40804 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 CE81B27BBEA; Tue, 25 Mar 2025 07:59:20 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 5D4C427BBE2 for ; Tue, 25 Mar 2025 07:59:20 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1twzBn-00007x-Re; Tue, 25 Mar 2025 03:59:12 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1twzBh-0008Q8-DO for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:05 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1twzBh-00024o-3n for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:05 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=ZniMZFG0CEJOm876lO6imIpC6JRw2vJzehtR23CrpCs=; b=ODMqVu+Dol2YmOWA8i4K/5o0yYyJbWxkSJ4egz1DfUEWH8y0Be/TU5lNkn8c9jFW3VPfTXJ5nBHHs+n8H1htqEhUwM/r1grHE19xS6GHSyyy+fybeCvvTptqIHC1oG9JcRzw6vFIiUx+wuEHk+us8rQog5YmLYjQI+9rZ5RsDoIlrbVl3XBATs7g+J15o1Q4AWZbKbhDDNrnHV8MDimCxPd8twy0Uq+a8N5JxWbUwdguzHo0SDivT0EcdPsijOoqxeE0YoRA+JuwcHKFyTlgTKwsRkJTWR4Ug+/aYgSctU5mE0KtT3hHJy89WZ1LQ6WWtFHbuYHmVJr9cW401lgt/g==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1twzBg-0003HO-VP for guix-patches@gnu.org; Tue, 25 Mar 2025 03:59:04 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77246] [PATCH 17/18] gnu: python-netaddr: Update to 1.3.0. 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[build-system]: Switch to pyproject. [native-inputs]: Add python-poetry-core, python-pytest, python-setuptools, python-wheel. --- gnu/packages/python-web.scm | 18 ++++++++++-------- 1 file changed, 10 insertions(+), 8 deletions(-) diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm index 4d4a6d9422..1638ea0a45 100644 --- a/gnu/packages/python-web.scm +++ b/gnu/packages/python-web.scm @@ -54,7 +54,7 @@ ;;; Copyright © 2022 Peter Polidoro ;;; Copyright © 2022 Antero Mejr ;;; Copyright © 2022 Luis Henrique Gomes Higino -;;; Copyright © 2022 Nicolas Graves +;;; Copyright © 2022, 2025 Nicolas Graves ;;; Copyright © 2022 Tomasz Jeneralczyk ;;; Copyright © 2022 msimonin ;;; Copyright © 2022 Michael Rohleder @@ -4365,18 +4365,20 @@ (define-public python-ndg-httpsclient (define-public python-netaddr (package (name "python-netaddr") - (version "0.8.0") + (version "1.3.0") (source (origin (method url-fetch) (uri (pypi-uri "netaddr" version)) (sha256 - (base32 - "0hx2npi0wnhwlcybilgwlddw6qffx1mb7a3sj4p9s7bvl33mgk6n")))) - (build-system python-build-system) - (arguments `(#:tests? #f)) ;; No tests. - (home-page "https://github.com/drkjam/netaddr/") - (synopsis "Pythonic manipulation of network addresses") + (base32 "12p4ysgawhgkka0sz1dkwgwc2za80dxdp9wvfxivfldmjnc3sg2w")))) + (build-system pyproject-build-system) + (native-inputs (list python-poetry-core + python-pytest + python-setuptools + python-wheel)) + (home-page "https://netaddr.readthedocs.io") + (synopsis "Pythonic manipulation of network addresses") (description "A Python library for representing and manipulating IPv4, IPv6, CIDR, EUI and MAC network addresses.") 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[build-system]: Switch to pyproject. [arguments]{phases}: Delete it. {test-flags}: Switch a QA test. [native-inputs]: Remove python-flufl-testing, python-node. Add python-pytest, python-pytest-asyncio, python-pytest-cov, python-pytest-mock, python-setuptools, python-wheel. --- gnu/packages/mail.scm | 27 ++++++++++++--------------- 1 file changed, 12 insertions(+), 15 deletions(-) diff --git a/gnu/packages/mail.scm b/gnu/packages/mail.scm index 8668cda211..23ecf8660b 100644 --- a/gnu/packages/mail.scm +++ b/gnu/packages/mail.scm @@ -4706,30 +4706,27 @@ (define-public python-authheaders (define-public python-aiosmtpd (package (name "python-aiosmtpd") - (version "1.2.2") + (version "1.4.6") (source (origin (method git-fetch) (uri (git-reference (url "https://github.com/aio-libs/aiosmtpd") - (commit version))) + (commit (string-append "v" version)))) (sha256 - (base32 "0083d6nf75xv8nq1il6jabz36v6c452svy4p402csxwwih5pw6sk")) + (base32 "0b5y94zc8pq75sjwsifblzgjnliyclkwypi68b2zffrxcdnz27r2")) (file-name (git-file-name name version)))) - (build-system python-build-system) + (build-system pyproject-build-system) (arguments - '(#:phases - (modify-phases %standard-phases - (add-after 'unpack 'delete-failing-tests - (lambda _ - ;; This test uses an expired certificate. - (delete-file "aiosmtpd/tests/test_smtps.py") - #t)) - (replace 'check - (lambda _ - (invoke "python" "-m" "nose2" "-v")))))) + ;; This QA test requires git. + (list #:test-flags ''("-k" "not test_ge_master"))) (native-inputs - (list python-flufl-testing python-nose2)) + (list python-pytest + python-pytest-asyncio + python-pytest-cov + python-pytest-mock + python-setuptools + python-wheel)) (propagated-inputs (list python-atpublic)) (home-page "https://aiosmtpd.readthedocs.io/")