From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from mp12.migadu.com ([2001:41d0:403:4876::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by ms8.migadu.com with LMTPS id EN0PMJNNbmVohQAAauVa8A:P1 (envelope-from ) for ; Mon, 04 Dec 2023 23:07:15 +0100 Received: from aspmx1.migadu.com ([2001:41d0:403:4876::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by mp12.migadu.com with LMTPS id EN0PMJNNbmVohQAAauVa8A (envelope-from ) for ; Mon, 04 Dec 2023 23:07:15 +0100 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by aspmx1.migadu.com (Postfix) with ESMTPS id 5D6DF2121E for ; Mon, 4 Dec 2023 23:07:15 +0100 (CET) Authentication-Results: aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=gmail.com header.s=20230601 header.b=KLKaJtIC; spf=pass (aspmx1.migadu.com: domain of "bug-guix-bounces+larch=yhetil.org@gnu.org" designates 209.51.188.17 as permitted sender) smtp.mailfrom="bug-guix-bounces+larch=yhetil.org@gnu.org"; dmarc=fail reason="SPF not aligned (relaxed)" header.from=gmail.com (policy=none) ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=yhetil.org; s=key1; t=1701727635; h=from:from:sender:sender:reply-to:subject:subject:date:date: message-id:message-id:to:to:cc:mime-version:mime-version: content-type:content-type:resent-cc:resent-from:resent-sender: resent-message-id:in-reply-to:in-reply-to:references:references: list-id:list-help:list-unsubscribe:list-subscribe:list-post: dkim-signature; bh=u7pe3vPekf/Jxg7w+36DtUn9udQoE1mPA/DptvHuO8k=; b=S16yrFU29n7pqSmsDuTJPpFNw0Nf2vqDS+XeHquqcZbSl95lAsW4ajSYrnyLpzj72V+R8u 7mP8adLiJdIWl1mtZy0amZsIpKFEdXhdQ4dFm965KqHSdRnYKrxOXAifE0eu1AXkhJQAtU Xw6Eh6C/HpJBOBhNaL1NcRoPBNWNfe67tcn7NDthus4Ba1MsjbbTr5DaX23ZDj4L0HJ9Hj FbaEuX1Vp6/AtM7vPHh9oT94gsvjKTZYGwMo6c4yDoTghZlmTkBRWAmgSUplYqqMpU5vAl ISB4ffNbrYsK75AwMHhSRpHvngjRXG5iCnQPi7D29PzYE7nyQ4FZnytoXljdvA== ARC-Authentication-Results: i=1; aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=gmail.com header.s=20230601 header.b=KLKaJtIC; spf=pass (aspmx1.migadu.com: domain of "bug-guix-bounces+larch=yhetil.org@gnu.org" designates 209.51.188.17 as permitted sender) smtp.mailfrom="bug-guix-bounces+larch=yhetil.org@gnu.org"; dmarc=fail reason="SPF not aligned (relaxed)" header.from=gmail.com (policy=none) ARC-Seal: i=1; s=key1; d=yhetil.org; t=1701727635; a=rsa-sha256; cv=none; b=sJjwxL+CY4HRPCUsG0LZlf8toxr49unxsQbi5fSE5F3W8CvLVJ4+K61C03c9WjLAak51Z6 5HBaEeWFhh5gNw8kNkxkRY3twp7L6Tu+6AMsFGGXR89Go1geqHHcqI1G6gxQwkK7ApBH29 6jkLG+W946srEbBnm9/BQ3F5oTDOW1wb3E9+SY6qo5ORTXmNbrmEPcfbUbskASWiyQxs81 C2MtjfZdliSrAnP7+AEtoqpsefD4NYYUL740tTxiK3nNXlZvd0K1How7lxwkg+Exegxcxd mT9VtDYvfUGsaGIgATYJgdS+ex1MWtDqG+X9oyWrQcZGF58aqHcgblPapGnCnA== Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1rAH5c-0006j6-7A; Mon, 04 Dec 2023 17:06:56 -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 1rAH5Z-0006ix-7A for bug-guix@gnu.org; Mon, 04 Dec 2023 17:06:53 -0500 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 1rAH5Y-0007RU-Vf for bug-guix@gnu.org; Mon, 04 Dec 2023 17:06:52 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1rAH5i-0006wP-LU for bug-guix@gnu.org; Mon, 04 Dec 2023 17:07:02 -0500 X-Loop: help-debbugs@gnu.org Subject: bug#67630: Build python-phenograph.x86_64-linux on master is broken. Resent-From: Maxim Cournoyer Original-Sender: "Debbugs-submit" Resent-CC: bug-guix@gnu.org Resent-Date: Mon, 04 Dec 2023 22:07:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 67630 X-GNU-PR-Package: guix X-GNU-PR-Keywords: To: 67630@debbugs.gnu.org X-Debbugs-Original-To: bug-guix Received: via spool by submit@debbugs.gnu.org id=B.170172757026608 (code B ref -1); Mon, 04 Dec 2023 22:07:02 +0000 Received: (at submit) by debbugs.gnu.org; 4 Dec 2023 22:06:10 +0000 Received: from localhost ([127.0.0.1]:35978 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rAH4s-0006v4-Ak for submit@debbugs.gnu.org; Mon, 04 Dec 2023 17:06:10 -0500 Received: from lists.gnu.org ([2001:470:142::17]:34320) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1rAH4q-0006uS-0U for submit@debbugs.gnu.org; Mon, 04 Dec 2023 17:06:08 -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 1rAH4Y-0006bb-DT for bug-guix@gnu.org; Mon, 04 Dec 2023 17:05:50 -0500 Received: from mail-qv1-xf30.google.com ([2607:f8b0:4864:20::f30]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1rAH4U-0007IX-Lh for bug-guix@gnu.org; Mon, 04 Dec 2023 17:05:49 -0500 Received: by mail-qv1-xf30.google.com with SMTP id 6a1803df08f44-67ad891ff36so3461756d6.1 for ; Mon, 04 Dec 2023 14:05:46 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20230601; t=1701727545; x=1702332345; darn=gnu.org; h=mime-version:message-id:date:user-agent:references:in-reply-to :subject:to:from:from:to:cc:subject:date:message-id:reply-to; bh=u7pe3vPekf/Jxg7w+36DtUn9udQoE1mPA/DptvHuO8k=; b=KLKaJtICdxyWMn9Xerh6ESBVCVm8kVBUUzMfBerox8xzBGKsckSnMMcxHuhVsnySIC 1JAjuuaIq+98e4crIkK8LcLliOdCF93PRmBbZvKEwFEal/I7/2uuI5VpjkcD/U0PB6hy uPwDR5aIFxNSN1TrujEOfnkpMvEzrpasVJaK2AACEAhjcyaXEHuYTWUv0iyOvGCRUWR8 lSQQOFlg/nwXmFXuNYrWXb1PTYW2Y+VROVAhN8FbcbvMPTBX2lShXTIDP9pmCZ7J8TLH 9VIUEoGHZB2kflOhcUIJbVWn57h8iFc+ydl9g6A29xArwXpfC5U9qoXjyW723kyt1deJ 9ecg== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20230601; t=1701727545; x=1702332345; h=mime-version:message-id:date:user-agent:references:in-reply-to :subject:to:from:x-gm-message-state:from:to:cc:subject:date :message-id:reply-to; bh=u7pe3vPekf/Jxg7w+36DtUn9udQoE1mPA/DptvHuO8k=; b=u4x8tS9ba53Fy0JHpm/SD4iSjNAZ0DfiwxAkBDYSUbJZtave5/m3Br8bG9Sg8mSxfN 0dd7vGCYdbyQAB5yxd6epJROHVYeEB3V9fjfvM1bN6hx7Rhnabw2MYzM+wjNTBHpxTIl yQFbcSfWZV2Lm49QJ6ehU1oyrS+MNY9WgC38bF4P1holrKS2U5tEceomoa/woVdPzDju q4m0iP7INw/rnDPy/QHPfIRSSGylwsIJVh5cPPhHAYXD7m1j8iaIMWJ70drgRWbBDrUB nsmDA2k8GtRL0l+BOVhFpohuuBG/ubmAgF5chK71ny+PoV6yi4upmtsIkGKWGVI98HP7 bSBA== X-Gm-Message-State: AOJu0YxVCDnBm5Ss+dcTUsQOJqr11TU77GXapenb4ZLsx48dxqFVZC7+ jRUEhpsktRB4PzS9tZIhHGGritg6xgn3Ow== X-Google-Smtp-Source: AGHT+IETXeC7KwEJtTx+X3BXqEcw0zu7LetLNQKNw85O5zB8KJEN0GAOqkq+/3hFgGA/R3NMLdixEQ== X-Received: by 2002:ad4:59c6:0:b0:67a:d7d5:9512 with SMTP id el6-20020ad459c6000000b0067ad7d59512mr246983qvb.126.1701727545315; Mon, 04 Dec 2023 14:05:45 -0800 (PST) Received: from hurd (dsl-141-198.b2b2c.ca. [66.158.141.198]) by smtp.gmail.com with ESMTPSA id z6-20020a0cf006000000b0067a17c8696esm3009554qvk.82.2023.12.04.14.05.44 for (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Mon, 04 Dec 2023 14:05:44 -0800 (PST) From: Maxim Cournoyer In-Reply-To: <2246@guix-ci.nnrss> (cuirass@gnu.org's message of "Sat, 02 Dec 2023 13:31:37 +0000") References: <2246@guix-ci.nnrss> User-Agent: Gnus/5.13 (Gnus v5.13) Date: Mon, 04 Dec 2023 17:05:43 -0500 Message-ID: <87zfypr5c8.fsf@gmail.com> MIME-Version: 1.0 Content-Type: text/plain Received-SPF: pass client-ip=2607:f8b0:4864:20::f30; envelope-from=maxim.cournoyer@gmail.com; helo=mail-qv1-xf30.google.com X-Spam_score_int: -20 X-Spam_score: -2.1 X-Spam_bar: -- X-Spam_report: (-2.1 / 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, FREEMAIL_FROM=0.001, RCVD_IN_DNSWL_NONE=-0.0001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001, T_SCC_BODY_TEXT_LINE=-0.01, WEIRD_PORT=0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: bug-guix@gnu.org List-Id: Bug reports for GNU Guix List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: bug-guix-bounces+larch=yhetil.org@gnu.org Sender: bug-guix-bounces+larch=yhetil.org@gnu.org X-Migadu-Flow: FLOW_IN X-Migadu-Country: US X-Migadu-Queue-Id: 5D6DF2121E X-Spam-Score: -5.04 X-Migadu-Scanner: mx10.migadu.com X-Migadu-Spam-Score: -5.04 X-TUID: oqxYULS68Om1 Hi, cuirass@gnu.org (Cuirass) writes: >

The build python-phenograph.x86_64-linux for specification master is > broken. You can find the detailed information about this build href="https://ci.guix.gnu.org/build/2736972/details">here.

> > https://ci.guix.gnu.org/build/2736972/details The failure reads: --8<---------------cut here---------------start------------->8--- =================================== FAILURES =================================== ___________________________ test_classify_generated ____________________________ cluster_dataset_generated = def test_classify_generated(cluster_dataset_generated): output, _ = classify( cluster_dataset_generated.train_set, cluster_dataset_generated.test_set ) actual = cluster_dataset_generated.test_labels > assert all([p == a for p, a in zip(output, actual)]) E assert False E + where False = all([True, True, False]) tests/test_classify.py:9: AssertionError ----------------------------- Captured stdout call ----------------------------- Finding 30 nearest neighbors using minkowski metric and 'auto' algorithm =============================== warnings summary =============================== phenograph/cluster.py:13 /tmp/guix-build-python-phenograph-1.5.7.drv-0/PhenoGraph-1.5.7/phenograph/cluster.py:13: DeprecationWarning: Please use `spmatrix` from the `scipy.sparse` namespace, the `scipy.sparse.base` namespace is deprecated. from scipy.sparse.base import spmatrix tests/test_classify.py::test_classify_generated tests/test_classify.py::test_classify_generated tests/test_classify.py::test_classify_generated tests/test_classify.py::test_classify_fixed tests/test_classify.py::test_classify_fixed tests/test_classify.py::test_classify_fixed tests/test_classify.py::test_random_walk_probabilities_fixed tests/test_classify.py::test_random_walk_probabilities_fixed tests/test_classify.py::test_random_walk_probabilities_fixed /tmp/guix-build-python-phenograph-1.5.7.drv-0/PhenoGraph-1.5.7/phenograph/classify.py:43: DeprecationWarning: Please use `bicgstab` from the `scipy.sparse.linalg` namespace, the `scipy.sparse.linalg.isolve` namespace is deprecated. sp.linalg.isolve.bicgstab(Lu, b.T.todense(), atol="legacy") for b in B.T -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html =========================== short test summary info ============================ FAILED tests/test_classify.py::test_classify_generated - assert False =================== 1 failed, 5 passed, 10 warnings in 3.48s =================== --8<---------------cut here---------------end--------------->8--- The test is probably flaky and should be reported upstream and disabled in our package meanwhile. -- Thanks, Maxim