From debbugs-submit-bounces@debbugs.gnu.org Sat Jan 20 08:59:08 2024 Received: (at submit) by debbugs.gnu.org; 20 Jan 2024 13:59:08 +0000 Received: from localhost ([127.0.0.1]:33177 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rRBsK-0000Uf-CS for submit@debbugs.gnu.org; Sat, 20 Jan 2024 08:59:08 -0500 Received: from lists.gnu.org ([2001:470:142::17]:57492) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rRBsE-0000U2-KE for submit@debbugs.gnu.org; Sat, 20 Jan 2024 08:59:06 -0500 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 1rRBs5-000193-V0 for guix-patches@gnu.org; Sat, 20 Jan 2024 08:58:53 -0500 Received: from mout-p-102.mailbox.org ([2001:67c:2050:0:465::102]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_CHACHA20_POLY1305:256) (Exim 4.90_1) (envelope-from ) id 1rRBs3-0006aQ-Sp for guix-patches@gnu.org; Sat, 20 Jan 2024 08:58:53 -0500 Received: from smtp2.mailbox.org (smtp2.mailbox.org [10.196.197.2]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256) (No client certificate requested) by mout-p-102.mailbox.org (Postfix) with ESMTPS id 4THJ443zN1z9sb6 for ; Sat, 20 Jan 2024 14:58:44 +0100 (CET) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=troyfigiel.com; s=MBO0001; t=1705759124; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version:content-type:content-type; bh=19GYmg7YCEVqmvC3whtuqjGS/R+Re/pgFQAEpxKCX+I=; b=TKxh/uGHLMSZ84CAFYycDiyNj+4oWbmd+db5NpUXhMriHlJjIvy7cPny9xz8dbfuDvkg5Y koNu0sG7+NCsudbNdZ2Mu54O6LawAafDaYgnoAFvNGlcbhUOUyVcfEY+C3yQFhZBdu7yHh WoLBBFWbxnw653k0a8zoK+KkUkPcZxb9pZBMzg7/6OfD7i6Ek+UzBnKcseSttV0PvnASNR t20v1BoM4y/i3/WKOvWEPMQrj4ZvnEY5Bh9JfdSOvSNNmMBtaBpdluWrdAUdk6pO2ZxPOw CSLkyeE5NjbcnPJHDywPZktM+KyEDHa0aIIReVQUefYpCBfQvUDiCJ85wTaZYA== From: Troy Figiel To: guix-patches@gnu.org Subject: [PATCH 0/2] gnu: python-pandera: Fix build. Date: Sat, 20 Jan 2024 14:42:29 +0100 Message-ID: <87le8kt8c8.fsf@troyfigiel.com> MIME-Version: 1.0 Content-Type: text/plain Received-SPF: pass client-ip=2001:67c:2050:0:465::102; envelope-from=troy@troyfigiel.com; helo=mout-p-102.mailbox.org 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, SPF_HELO_NONE=0.001, SPF_PASS=-0.001, T_SCC_BODY_TEXT_LINE=-0.01 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: 1.0 (+) X-Debbugs-Envelope-To: submit 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: -0.0 (/) With the 1.5.3 upgrade of python-pandas, python-modin is broken. I tried fixing it by upgrading it to a compatible version, but this has a ripple effect on a variety of packages such as python-boto3, python-fsspec, etc. For now, I would suggest to simply remove python-modin as a native-input from python-pandera. Since it is an optional dependency in the first place, not much is lost as long as python-modin is broken on master. Troy Figiel (2): gnu: python-pandas-stubs: Update to 1.5.3.230321. gnu: python-pandera: Fix build. gnu/packages/python-science.scm | 35 +++++++++++++++++++++++---------- 1 file changed, 25 insertions(+), 10 deletions(-) base-commit: 0eadd486484fcf9a234758842f74ba28361640db -- 2.42.0 From debbugs-submit-bounces@debbugs.gnu.org Sat Jan 20 09:02:33 2024 Received: (at 68609) by debbugs.gnu.org; 20 Jan 2024 14:02:33 +0000 Received: from localhost ([127.0.0.1]:33183 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rRBvd-0000dR-27 for submit@debbugs.gnu.org; Sat, 20 Jan 2024 09:02:33 -0500 Received: from mout-p-102.mailbox.org ([80.241.56.152]:58940) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rRBvX-0000d2-D8 for 68609@debbugs.gnu.org; Sat, 20 Jan 2024 09:02:31 -0500 Received: from smtp1.mailbox.org (smtp1.mailbox.org [IPv6:2001:67c:2050:b231:465::1]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256) (No client certificate requested) by mout-p-102.mailbox.org (Postfix) with ESMTPS id 4THJ890Q0Dz9sb6 for <68609@debbugs.gnu.org>; Sat, 20 Jan 2024 15:02:17 +0100 (CET) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=troyfigiel.com; s=MBO0001; t=1705759337; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version:content-type:content-type; bh=TKCHpYu0sQvQ9I6HBmnmu0N6gdNGNONfkYNzqheK7Lo=; b=DZbk+nSv/P3KNsCV8Ll0COSOMtcVrwHgOWtQ0zwpw0tu/CkpBH6k8+dgn9Is3Jl4CbYENl iYIDJKMlgdjeX60p+x4FJw5u62f9o/IVinvqwhJmCT1raC8b1ZN7aUpoCZdMvGbPVgJXjk m+gY7QRcQOA495kUJv3vqgb7j7qTzAIcfJW4y5Q3kYdhptdj9tzDWtgdXJof1lqJ3gxp+M pz+0BnVwRXsFJ0pKN0QpxDV6LHgZs2KB9qH0Yz8wbB3Rcoa5XRRm7hjJDOQWj0s95OBFfW CRFl6/t+13aSXjE+IHJYxbzMtRb97Rc6icqYRvkRksFtdX8ERzW259isYYSRAA== From: Troy Figiel To: 68609@debbugs.gnu.org Subject: [PATCH 1/2] gnu: python-pandas-stubs: Update to 1.5.3.230321. Date: Sat, 20 Jan 2024 14:10:40 +0100 Message-ID: <87jzo4t85z.fsf@troyfigiel.com> MIME-Version: 1.0 Content-Type: text/plain X-Rspamd-Queue-Id: 4THJ890Q0Dz9sb6 X-Spam-Score: -0.7 (/) X-Debbugs-Envelope-To: 68609 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/python-science.scm (python-pandas-stubs): Update to 1.5.3.230321. [arguments]<#:test-flags>: Ignore tests that require a version of python-pyarrow with ORC integration. [native-inputs]: Add python-odfpy. --- gnu/packages/python-science.scm | 20 ++++++++++++++++---- 1 file changed, 16 insertions(+), 4 deletions(-) diff --git a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm index 3c131fe730..4eb0195889 100644 --- a/gnu/packages/python-science.scm +++ b/gnu/packages/python-science.scm @@ -580,8 +580,8 @@ (define-public python-pandas-stubs (name "python-pandas-stubs") ;; The versioning follows that of Pandas and uses the date of the ;; python-pandas-stubs release. This is the latest version of - ;; python-pandas-stubs for python-pandas 1.4.4. - (version "1.4.4.220919") + ;; python-pandas-stubs for python-pandas 1.5.3. + (version "1.5.3.230321") (source (origin ;; No tests in the PyPI tarball. @@ -591,10 +591,21 @@ (define-public python-pandas-stubs (commit (string-append "v" version)))) (file-name (git-file-name name version)) (sha256 - (base32 "14fhj1y71akwl41ws7cpazsbq5b8wf4rwaydqq2h39q7gylpcp99")))) + (base32 "1blwlq5053pxnmx721zdd6v8njiybz4azribx2ygq33jcpmknda6")))) (build-system pyproject-build-system) (arguments - '(#:phases (modify-phases %standard-phases + (list + #:test-flags #~(list "-k" + (string-append + ;; The python-pyarrow package in Guix is not built + ;; with ORC integration, causing these tests to + ;; fail. + "not test_orc" + " and not test_orc_path" + " and not test_orc_buffer" + " and not test_orc_columns" + " and not test_orc_bytes")) + #:phases '(modify-phases %standard-phases (add-before 'check 'prepare-x (lambda _ (system "Xvfb &") @@ -607,6 +618,7 @@ (define-public python-pandas-stubs ;; tests will be skipped for now. (native-inputs (list python-lxml python-matplotlib + python-odfpy python-pandas python-poetry-core python-pyarrow -- 2.42.0 From debbugs-submit-bounces@debbugs.gnu.org Sat Jan 20 09:03:07 2024 Received: (at 68609) by debbugs.gnu.org; 20 Jan 2024 14:03:08 +0000 Received: from localhost ([127.0.0.1]:33188 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rRBwB-0000er-HQ for submit@debbugs.gnu.org; Sat, 20 Jan 2024 09:03:07 -0500 Received: from mout-p-103.mailbox.org ([2001:67c:2050:0:465::103]:55468) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rRBw9-0000eC-Ou for 68609@debbugs.gnu.org; Sat, 20 Jan 2024 09:03:06 -0500 Received: from smtp202.mailbox.org (smtp202.mailbox.org [10.196.197.202]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256) (No client certificate requested) by mout-p-103.mailbox.org (Postfix) with ESMTPS id 4THJ8t368Yz9slL for <68609@debbugs.gnu.org>; Sat, 20 Jan 2024 15:02:54 +0100 (CET) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=troyfigiel.com; s=MBO0001; t=1705759374; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version:content-type:content-type; bh=PuuuO/y76wvFkTxuixWNllePHQYx62ywLXD34s2+K/g=; b=MDrcal6p9Cx3mdHh6caP85OWBvwJd72sdeXK//2Vtp0akujWdcYCSkqt2yAjO7JyRI78MQ 4RyBC9z/9a5ICFyuD0FavzjwT3habF2EE6DyKx73+9aeP2HJYjH/2Hz7+NZF+yvvTWimq2 SBYMksrq8fuKzjruOqBXqZw9DQeRs2vXGBrKEkCmwGjsst0NbYX7fPW3RN7npdGhNSgcRy YpQCrMWwt4g9DADU6FY79xVDlaTC1SPKnXHAXGxHB7Oq9wfOS4o1oTCzBKq4ut7zjBUvWm oTCRz0+v9e349y4Xo+faq6gU7Ee4+ib+VbZx/06YBp8a2QHr4sj/S69HBaAFWQ== From: Troy Figiel To: 68609@debbugs.gnu.org Subject: [PATCH 2/2] gnu: python-pandera: Fix build. Date: Sat, 20 Jan 2024 14:55:28 +0100 Message-ID: <87il3ot84y.fsf@troyfigiel.com> MIME-Version: 1.0 Content-Type: text/plain X-Spam-Score: -0.7 (/) X-Debbugs-Envelope-To: 68609 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/python-science.scm (python-pandera): Fix build. [source]: Delete tests/modin directory. [native-inputs]: Remove python-modin. --- gnu/packages/python-science.scm | 15 +++++++++------ 1 file changed, 9 insertions(+), 6 deletions(-) diff --git a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm index 4eb0195889..3422302a87 100644 --- a/gnu/packages/python-science.scm +++ b/gnu/packages/python-science.scm @@ -661,16 +661,20 @@ (define-public python-pandera (sha256 (base32 "1mnqk583z90k1n0z3lfa4rd0ng40v7hqfk7phz5gjmxlzfjbxa1x")) (modules '((guix build utils))) - ;; These tests require PySpark. We need to remove the entire directory, - ;; since the conftest.py in this directory contains a PySpark import. - ;; (See: https://github.com/pytest-dev/pytest/issues/7452) - (snippet '(delete-file-recursively "tests/pyspark")))) + ;; These tests require PySpark and Modin. We need to remove the entire + ;; directory, since the conftest.py in these directories contain + ;; imports. (See: https://github.com/pytest-dev/pytest/issues/7452) + (snippet '(begin + (delete-file-recursively "tests/pyspark") + (delete-file-recursively "tests/modin"))))) (build-system pyproject-build-system) (arguments (list #:test-flags '(list "-k" (string-append - ;; Needs python-pandas >= 1.5 + ;; Mypy functionality is experimental and relying + ;; on pandas-stubs can lead to false + ;; positives. These tests currently fail. "not test_python_std_list_dict_generics" " and not test_python_std_list_dict_empty_and_none" " and not test_pandas_modules_importable")))) @@ -692,7 +696,6 @@ (define-public python-pandera (native-inputs (list python-dask ;dask extra python-fastapi ;fastapi extra python-geopandas ;geopandas extra - python-modin ;modin extra python-pyarrow ;needed to run fastapi tests python-pytest python-pytest-asyncio -- 2.42.0 From debbugs-submit-bounces@debbugs.gnu.org Sat Jan 20 17:11:24 2024 Received: (at 68609-done) by debbugs.gnu.org; 20 Jan 2024 22:11:25 +0000 Received: from localhost ([127.0.0.1]:36042 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rRJYi-0001MV-KN for submit@debbugs.gnu.org; Sat, 20 Jan 2024 17:11:24 -0500 Received: from mail-wm1-x330.google.com ([2a00:1450:4864:20::330]:48347) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rRJYe-0001MA-3M for 68609-done@debbugs.gnu.org; Sat, 20 Jan 2024 17:11:23 -0500 Received: by mail-wm1-x330.google.com with SMTP id 5b1f17b1804b1-40ea5654271so7596635e9.0 for <68609-done@debbugs.gnu.org>; Sat, 20 Jan 2024 14:11:16 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20230601; t=1705788671; x=1706393471; darn=debbugs.gnu.org; h=mime-version:message-id:date:subject:to:from:from:to:cc:subject :date:message-id:reply-to; bh=EwwxtNitaoNvRaFZnnnQ0asgeEmUrEscnghKPWiSZ6A=; b=lkAjcg2dUXGAUJUANoA9yjexuUbco9cKEHw1HJOFJpgt+SxK1QHM1t2Zrlp+B7VCHs TBWM8z4zMs9dO+MDYIldsC20hZgFNeRX9tjdnHgZKzHCLKtdiUtcd4bvvKx2v7PCLASc gN9qgoo6U21OS8dUvFGzr0RMPE5E9TXsHmATUWrI1yEiEvCaoG4lmmjlgCyULwJ2P+Gd WRFMv+NRvwdrcx1DUYW3uyhYE1KD6rV0lA9p1pICEg4ZYBM6xJfdVPuOJvcVtTR0/tDa qwU7k0dqnIDq11T3nd0Gyrjy53JVcncfZH11EMDHZsuTVJu9ksXZxxrvERnN8sCsok79 vo5g== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20230601; t=1705788671; x=1706393471; h=mime-version:message-id:date:subject:to:from:x-gm-message-state :from:to:cc:subject:date:message-id:reply-to; bh=EwwxtNitaoNvRaFZnnnQ0asgeEmUrEscnghKPWiSZ6A=; b=Rolavj/DDpXy7Il2u+34+1iCqTDAhIUDC4XRdbqm8PihtFKwoXrHktDVA1uzxV41l9 7OzNn0kyNlpcpZxIBjTHARbRF9wMAJDVAwmqogLWiUArv+8SQwEUrnJTYcFbCXJEvAcI 8ZdpDAzEc8EgWwa/i2B7PYbKqS8uF+7OFPtIniD9Dqhy1IT+8UUO9MBw04YlWYNeRNNU RPQrVanFLE1VK2Wj+AakirOWee1cKmpiQywsPG1a8SKE3m1BsxIBUt/WGiZnhv1+g1uc OI7iVuYyV06hwOtVMv+QPacABb3e9cSXE7aSL9Grr1UJyc8t/X+Xr5xyEOVu8QlDtQ16 QXEg== X-Gm-Message-State: AOJu0YzKABFT0T4hjyQkwho2I0ffOw2E0DkcEpJrzUwA8vHWkP8gHPt5 uEM1LpQ3qOn/h8B0fSopLlSyhogoHyc14WLUbcltgTiaKkH8mlGkJS/UnaXzzFU= X-Google-Smtp-Source: AGHT+IGVmyxjk4W8KjZdEK5w+OiZYNR1kxGg/7ofjGAXyz0HtZvB/ZiSySlDWa9y11bpAjLlqWTTiQ== X-Received: by 2002:a7b:cb46:0:b0:40e:555f:12ca with SMTP id v6-20020a7bcb46000000b0040e555f12camr998510wmj.135.1705788670704; Sat, 20 Jan 2024 14:11:10 -0800 (PST) Received: from guxtil (cpc100856-bagu15-2-0-cust368.1-3.cable.virginm.net. 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