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[127.0.0.1]) by director1.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:55 +0000 (UTC) Received: from mta11.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.108.2.182]) by director1.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpKH2KM5zHcF1; Fri, 4 Apr 2025 19:17:55 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.3]) by mta11.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id C6DDF263964; Fri, 4 Apr 2025 19:17:54 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-114S0089308c5f2-da6b-40bc-80e7-945597026776, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 38/38] gnu: python-itemloaders: Update to 1.3.2. Date: Fri, 4 Apr 2025 21:17:10 +0200 Message-ID: <20250404191717.32747-38-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3486630540058092258 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpeejnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeivdgmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=3ovzSwwjWn/MwMbmhUlBfbe2Gqy9PgzQDOPFK4gaH30=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794275; v=1; b=KoZ993VLd35UwoaPIpFJagk04L58wDNhsHF3Rel/px+HAEl03/ULj+H4aZ72RNIRPr1X/Mp/ 7Ah0qCZL1hFfmyOzQb7RCbaC9kiaGpUIezgCXMa9aamXkhGR+GRrbQV0UFWDGB9/QakyscDBUIt L6cY3lAbbfTWMGVBBADP8fHkwLxR5/pOaN9SNsZIt/wtFzmBNxuG3XNwtWUX4EiyFfuEt8cuVwp mNX8yYoj8Kae3f5mH0uyECgiJMyyQZ8INb8vI3vRN/Vv5pl1fpkRfm2qrhLNxP/ddYFbf6E6c8r tmYweslX+eCtVWpIXJGIZhmcAiw5zdXmNAE5O69b988Ew== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-xyz.scm (python-itemloaders): Update to 1.3.2. [native-inputs]: Add python-packaging. [propagated-inputs]: Remove python-w3lib. --- gnu/packages/python-xyz.scm | 12 ++++++++---- 1 file changed, 8 insertions(+), 4 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index d18e4cfebd..ceebb018d9 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -39158,17 +39158,21 @@ (define-public python-itemadapter (define-public python-itemloaders (package (name "python-itemloaders") - (version "1.1.0") + (version "1.3.2") (source (origin (method url-fetch) (uri (pypi-uri "itemloaders" version)) (sha256 - (base32 "0j2aw4ipalj208594x80blpgkh1i63gqqa4nb67b823av9hirn11")))) + (base32 "0w37g31n06x6v6b4w7cz3nbq4wl6cv7rrzg3fr203gw3pqx5pbsg")))) (build-system pyproject-build-system) - (native-inputs (list python-pytest python-setuptools python-wheel)) + (native-inputs + (list python-packaging + python-pytest + python-setuptools + python-wheel)) (propagated-inputs - (list python-itemadapter python-jmespath python-parsel python-w3lib)) + (list python-itemadapter python-jmespath python-parsel)) (home-page "https://github.com/scrapy/itemloaders") (synopsis "Base library for scrapy's ItemLoader") (description "Itemloaders is a library that helps you collect data -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[native-inputs]: Add python-pyre-extensions. --- gnu/packages/machine-learning.scm | 7 ++++--- 1 file changed, 4 insertions(+), 3 deletions(-) diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm index 4bf7442e09..e62535d890 100644 --- a/gnu/packages/machine-learning.scm +++ b/gnu/packages/machine-learning.scm @@ -6161,7 +6161,7 @@ (define-public python-gpytorch (define-public python-botorch (package (name "python-botorch") - (version "0.11.3") + (version "0.13.0") (source (origin (method git-fetch) ;no tests in PyPI (uri (git-reference @@ -6170,7 +6170,7 @@ (define-public python-botorch (file-name (git-file-name name version)) (sha256 (base32 - "0nf9zrg1khvckb8kdpffqc3bnlhc0x03jd1560qmjamwl3j59m02")))) + "1sxgxdq892vg5xj30kb86003b9rwsipc95c7p1zdv865y4f38a8y")))) (build-system pyproject-build-system) (arguments (list #:test-flags #~(list "-k" "not test_all_cases_covered") @@ -6189,7 +6189,8 @@ (define-public python-botorch python-pyro-ppl python-pytorch python-scipy)) - (native-inputs (list python-pytest + (native-inputs (list python-pyre-extensions + python-pytest python-pytest-cov python-setuptools python-setuptools-scm -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director3.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:54 +0000 (UTC) Received: from mta7.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.108.9.234]) by director3.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpKG16rKz7wVr; Fri, 4 Apr 2025 19:17:54 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.4]) by mta7.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id B892EC3966; Fri, 4 Apr 2025 19:17:53 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-96R001e5824580-c181-4f06-9619-c830a3934b04, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 37/38] gnu: python-country-converter: Add missing native-input. Date: Fri, 4 Apr 2025 21:17:09 +0200 Message-ID: <20250404191717.32747-37-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3486349063618355938 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpeejnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeivdgmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=PkBd/vL4Kd7PUCO9tku6o7JQikgZf8fuXAKfVmIzT9c=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794274; v=1; b=ec0Rnj++p18F23jzEpWDESkt+QxXo9bm7kFMPQVY1Gypm079qBJUwDQ1oe2rBmoRbg37QSrd 9SO1nQhwfFoCTJyi0pH+1n1DIohgtKEx8P6eSnhSDVBeJSrSCN/Ba++9pfQQQkpXALCIBJsdJ1I W5rS2rnyx4cfGoaEAEEc0m8ympZdCDOgr39xScOt6kJd76/4ItkkEZJDiBfIGw08NGYRElJ/7PK BFCXO62lVqBIf7L9RzYiP4MVI2e7iNbaSkgNf9I0V9RqUpKGM9YUxec91A+0BhHMiFfFHy53jfj mIBfz+UsM3Za4cQry6EpgwIW6f6zZohViSR8AdWN0sFNg== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/iso-codes.scm (python-country-converter)[native-inputs]: Add python-wheel. --- gnu/packages/iso-codes.scm | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/gnu/packages/iso-codes.scm b/gnu/packages/iso-codes.scm index fd04d13a9f..ad9b90a564 100644 --- a/gnu/packages/iso-codes.scm +++ b/gnu/packages/iso-codes.scm @@ -122,7 +122,8 @@ (define-public python-country-converter (build-system pyproject-build-system) (native-inputs (list python-pytest - python-setuptools)) + python-setuptools + python-wheel)) (propagated-inputs (list python-pandas)) (home-page "https://github.com/IndEcol/country_converter") -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:17:08 +0200 Message-ID: <20250404191717.32747-36-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3486067587894338274 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepleffjeetueethfefkeffffefvddukeejkefgleduiedthfekvefhiedvhfffgeegnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgepudenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehiedvmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=by6P82HvCZ4aBokG3e/P//RquiMEE7B5z8vmuFULDMs=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794273; v=1; b=pfMuFVR0r2/+9VItD6Fr7DJPc1XfsZ/07vRih4IoKI+ronlotNkCeKb76XEJKoi+KnL09iDf x9RUV4JYh066BgdrFkGn68hNXjCieVpnQ43frnlgzEdvbp3xxInlDPP+fMnQ8WLt4+NrbjCLmwA BRr5WUkyboJG5cBSNQrs4FxxbWHzH8NNXbR1ooGcBdlVaLIKg/KsqH8J7xiPKAUAUraOu+q1Nsd 6B8elwEly7yOGbHUTB+vHGExJGfu4vMBrwv7krdqvMTLz5EUAKd2e+gm2Oy3NyeAkEbjeSrAyzA LG/HPKKxM2fMmGJJmO955uT3JHuQJu/gMqzJTaaopb3bQ== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-web.scm (python-flask-seasurf): Update to 2.0.0. --- gnu/packages/python-web.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm index 8bb808b846..a740f9638b 100644 --- a/gnu/packages/python-web.scm +++ b/gnu/packages/python-web.scm @@ -5433,13 +5433,13 @@ (define-public python-flask-compress (define-public python-flask-seasurf (package (name "python-flask-seasurf") - (version "1.1.1") + (version "2.0.0") (source (origin (method url-fetch) (uri (pypi-uri "Flask-SeaSurf" version)) (sha256 (base32 - "1aaib4n27q0f2alp87mhv3f79vg7qckp71rphbd0mb39qw470lsl")))) + "0g5dsm2ikv8q4qcrb2446pbs972l5wkxyfmxsriqdsl02nz06h4f")))) (build-system pyproject-build-system) (arguments (list #:tests? #false)) ;there are none -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director3.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:52 +0000 (UTC) Received: from mta7.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.109.139.133]) by director3.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpKD3NVPz7wVq; Fri, 4 Apr 2025 19:17:52 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.2]) by mta7.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 18E81C3966; Fri, 4 Apr 2025 19:17:52 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-107S00143ffc855-05f5-4c58-a760-530141560935, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 35/38] gnu: python-django-rq: Update to 3.0.0. Date: Fri, 4 Apr 2025 21:17:07 +0200 Message-ID: <20250404191717.32747-35-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3485786112849928930 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpeejnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeivdgmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=8Q+Bexx4JALbjsRYXFa1MTUUmaOvVTbnkSw45waWiTE=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794272; v=1; b=0dqZJT05wdKqz2YWU6kIIUmN6Jw0v2ZsMfIVHofATG7cPJ/BzTzcbyzR4mR8o+6/RqkpL5xr Pj40axMb5MKLYe1x+iY1ZenRS5okHUfChM3LJoryh1VRAi5JsWXtR9i15I+N255Bao92CRwdxMc 576sbM/jV84w1xC5zEmX786CsR2iHrJjXGXHutVn81/5Xyj59hl86cZAXcd7JmUoHHO13sCpvWZ Gl7SwmWsL18nSdkgXqYKiwEL7FBhh3E6iLi0LJrbAHWntOntQJMM2jU3MfbRTqVdftd8B6kcuH3 C67vJOlvJ8DIMIRNwlj8l5KJSHrylHJcBW22kY0byeD1g== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/django.scm (python-django-rq): Update to 3.0.0. [arguments]{test-flags}: Ignore failing tests. {phases}: Replace 'check phase replacement by a simpler 'pre-check configuration phase. [native-inputs]: Add python-pytest, python-pytest-django. [propagated-inputs]: Add python-redis, python-pyaml. --- gnu/packages/django.scm | 28 +++++++++++++++------------- 1 file changed, 15 insertions(+), 13 deletions(-) diff --git a/gnu/packages/django.scm b/gnu/packages/django.scm index cb9df0d2df..44d47b39ab 100644 --- a/gnu/packages/django.scm +++ b/gnu/packages/django.scm @@ -1055,39 +1055,41 @@ (define-public python-django-redis (define-public python-django-rq (package (name "python-django-rq") - (version "2.7.0") + (version "3.0.0") (source (origin (method url-fetch) (uri (pypi-uri "django-rq" version)) (sha256 (base32 - "0aw0fi0lg80qgdp9fhjbnlhvfh2p09rgy1nj6hxpyhi37kihni2h")))) + "1b371w4cdjlz83i2sg4gpx0z3svl3bfrn6zfy661374hv62xpnkv")))) (build-system pyproject-build-system) (arguments (list + #:test-flags + #~(list "-k" "not test_scheduled_jobs and not test_started_jobs") #:phases - '(modify-phases %standard-phases - (replace 'check - (lambda* (#:key tests? #:allow-other-keys) - (when tests? - (invoke "redis-server" "--daemonize" "yes") - (invoke "django-admin" "test" "django_rq" - "--settings=django_rq.tests.settings" - "--pythonpath=."))))))) + #~(modify-phases %standard-phases + (add-before 'check 'pre-check + (lambda* (#:key tests? #:allow-other-keys) + (when tests? + (invoke "redis-server" "--daemonize" "yes") + (setenv "DJANGO_SETTINGS_MODULE" "django_rq.tests.settings") + (setenv "PYTHONPATH" (getcwd)))))))) (native-inputs (list python-django-redis - python-mock + python-pytest + python-pytest-django python-rq-scheduler python-setuptools python-wheel redis tzdata-for-tests)) (propagated-inputs - (list python-django python-rq)) + (list python-django python-redis python-rq python-pyaml)) (home-page "https://github.com/ui/django-rq") (synopsis "Django integration with RQ") (description - "Django integration with RQ, a Redis based Python queuing library. + "Django integration with RQ, a Redis based Python queuing library. Django-RQ is a simple app that allows you to configure your queues in django's settings.py and easily use them in your project.") (license license:expat))) -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director2.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:51 +0000 (UTC) Received: from mta7.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.108.17.72]) by director2.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpKC4y3SzyF8; Fri, 4 Apr 2025 19:17:51 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.2]) by mta7.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 56FB9C3960; Fri, 4 Apr 2025 19:17:51 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-102R0046b516b8b-717c-4e08-9dac-52357a1c7650, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 34/38] gnu: Remove python-cookies. Date: Fri, 4 Apr 2025 21:17:06 +0200 Message-ID: <20250404191717.32747-34-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3485504638776697570 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepffekgffhkedttdfgkeegfeeifedvgeejhefhfeelgfdtgeegleeviedvgeeufedvnecuffhomhgrihhnpehgihhtlhgrsgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpedtnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeifegmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=UymMTuymJrpNBEsapT3vUU1jdCsQwRsy7vX1aFUe+qk=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794271; v=1; b=1CJWvLwjWFNYii41Dq6pK3RzUq5Hwm9CWuwhECA3y7o6Wj/TmwDa4g4Lz48Qej1YpA444XnJ WgExAkKJ7/Gle4GzVBFJnfzo9YuzgsuljVrYCLFArpsExPZjJ+Pq2WCUn1XTIF5FHOwM/gkkCwC S4AdhaSI3yp4Qv5xXHFz6Hz0VKZi/4LoxKWB7WqwWc5pSgCiMhi+kt1HGFDP+sLbA2f8xFDiGF2 W4k3mvRH8DOeftzby8ZVE1I72fAUfZqVCyElZJED4Bh3j0Jq4jOgvZqIz6Zx+FAusnOZnq/Re4E NnEr4ion24Wv9Rtjpnrzl3FYi6hrYIc5eUpAPBTLJUP8A== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) This is a leaf package in python, broken and undevelopped for 10 years. * gnu/packages/python-web.scm (python-cookies): Delete variable. --- gnu/packages/python-web.scm | 22 ---------------------- 1 file changed, 22 deletions(-) diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm index e82d59037c..8bb808b846 100644 --- a/gnu/packages/python-web.scm +++ b/gnu/packages/python-web.scm @@ -5496,28 +5496,6 @@ (define-public python-flask-multistatic for overriding static files.") (license license:gpl3+))) -(define-public python-cookies - (package - (name "python-cookies") - (version "2.2.1") - (source (origin - (method url-fetch) - (uri (pypi-uri "cookies" version)) - (sha256 - (base32 - "13pfndz8vbk4p2a44cfbjsypjarkrall71pgc97glk5fiiw9idnn")))) - (build-system python-build-system) - (arguments - `(;; test are broken: https://gitlab.com/sashahart/cookies/issues/3 - #:tests? #f)) - (native-inputs - (list python-pytest)) - (synopsis "HTTP cookie parser and renderer") - (description "A RFC 6265-compliant HTTP cookie parser and renderer in -Python.") - (home-page "https://gitlab.com/sashahart/cookies") - (license license:expat))) - (define-public python-responses (package (name "python-responses") -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:17:05 +0200 Message-ID: <20250404191717.32747-33-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3485223162362585826 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpeejnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeivdgmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=A2CqAaRHw0fEJJTWN/aaeC7lg+bfK+ZL7gxW4tv+I0o=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794271; v=1; b=mNUv1T9Zkb1YmUNjcfcilFl3Gz+HfbleG9ecX+M6M/X4iwQKcaqDNZ8rYdzM05FgQJQVaH5u satSQ3o7LWkZdPlAdklU3v1ljEJgn2qeZ8He0uQrMpr49MnXRIt3c670qlLihPZ37I9dMpI3wzJ lWofMcYFfpsL4OmtFfhYrSoW6zGuEYH16/lRbYZKRONLtOVNGDrcNHS08eQzcpBjdodfcSBzU1N qYVEYM6mOSEv9Jw3qfAV63ebH71uIrFaRmvyds7dzSjtlO0wc17N9WbBV+jH8d2tzf5iwU6J3UF KOyMDOriNKf5C/PefjSDKSWWUbtltcNx8AGiEGO7SsbIQ== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-web.scm (python-port-for): Update to 0.7.4. [build-system]: Switch to pyproject. [native-inputs]: Remove python-mock. Add python-setuptools, python-wheel. --- gnu/packages/python-web.scm | 18 +++++------------- 1 file changed, 5 insertions(+), 13 deletions(-) diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm index 579386e5ab..e82d59037c 100644 --- a/gnu/packages/python-web.scm +++ b/gnu/packages/python-web.scm @@ -7701,26 +7701,18 @@ (define-public grip (define-public python-port-for (package (name "python-port-for") - (version "0.4") + (version "0.7.4") (source (origin (method url-fetch) - (uri (pypi-uri "port-for" version)) + (uri (pypi-uri "port_for" version)) (sha256 - (base32 - "1pncxlj25ggw99r0ijfbkq70gd7cbhqdx5ivsxy4jdp0z14cpda7")))) - (build-system python-build-system) - (arguments - `(#:phases - (modify-phases %standard-phases - (add-after 'unpack 'use-urllib3 - (lambda _ - (substitute* "port_for/_download_ranges.py" - (("urllib2") "urllib3"))))))) + (base32 "13826s2d4hzzmv69wws6a7ryhminclv2bqaw6cpl929gnbki6xzw")))) + (build-system pyproject-build-system) (propagated-inputs (list python-urllib3)) (native-inputs - (list python-mock)) + (list python-pytest python-setuptools python-wheel)) (home-page "https://github.com/kmike/port-for/") (synopsis "TCP localhost port finder and association manager") (description -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director2.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:49 +0000 (UTC) Received: from mta3.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.109.148.152]) by director2.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpK95wNXzy9b; Fri, 4 Apr 2025 19:17:49 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.4]) by mta3.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 59C833A3EA6; Fri, 4 Apr 2025 19:17:49 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-108S00250fd5c91-9014-40d1-9028-afe5b74d9542, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 32/38] gnu: python-rq-scheduler: Update to 0.14. 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[build-system]: Switch to pyproject. [arguments]{test-flags}: Ignore failing tests. They fail because of mcron's requirements to be run with root when -u flag is used. {phases}: Remove 'check phase replacement. [native-inputs]: Add python-crontab, python-freezegun, python-pytest, python-setuptools, python-wheel. Remove which. --- gnu/packages/databases.scm | 37 +++++++++++++++++++++++-------------- 1 file changed, 23 insertions(+), 14 deletions(-) diff --git a/gnu/packages/databases.scm b/gnu/packages/databases.scm index 4ecf237115..1aebf982ae 100644 --- a/gnu/packages/databases.scm +++ b/gnu/packages/databases.scm @@ -4647,7 +4647,7 @@ (define-public python-rq (define-public python-rq-scheduler (package (name "python-rq-scheduler") - (version "0.10.0") + (version "0.14") (home-page "https://github.com/rq/rq-scheduler") (source (origin (method git-fetch) @@ -4657,21 +4657,30 @@ (define-public python-rq-scheduler (file-name (git-file-name name version)) (sha256 (base32 - "0xg6yazqs5kbr2ayvhvljs1h5vgx5k5dds613fmhswln7gglf9hk")))) - (build-system python-build-system) + "09fh9m2vcl1jndq35xp1x0j8ih009r71qmhn2pkl93fykrqfavyn")))) + (build-system pyproject-build-system) (arguments - '(#:phases (modify-phases %standard-phases - (add-before 'check 'start-redis - (lambda _ - (invoke "redis-server" "--daemonize" "yes"))) - (replace 'check - (lambda _ - (substitute* "run_tests.py" - (("/usr/bin/env") - (which "env"))) - (invoke "./run_tests.py")))))) + (list + #:test-flags + #~(list "-k" (string-append "not test_cron" + " and not test_job_creation_with" + " and not test_job_with_crontab")) + #:phases #~(modify-phases %standard-phases + (add-before 'check 'start-redis + (lambda _ + (invoke "redis-server" "--daemonize" "yes"))) + (add-after 'unpack 'loosen-requirements + (lambda _ + (substitute* "setup.py" + (("crontab>=[0-9.]*") + "python-crontab"))))))) (native-inputs - (list redis which)) + (list python-crontab + python-freezegun + python-pytest + python-setuptools + python-wheel + redis)) (propagated-inputs (list python-croniter python-rq)) (synopsis "Job scheduling capabilities for RQ (Redis Queue)") -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:17:03 +0200 Message-ID: <20250404191717.32747-31-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3484941690418029282 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpeegnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeivdgmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=06JTOoaGWltD35Oh6/FyI/1N+vmpe0xMJNBo2zsOBQc=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794269; v=1; b=3DxuxrgQiOm/8Bvg52EbildObrwcheRbyLuC6/KMahYOLDpn3onH5NeVU2W0WSUtuYWIwKzc I+WGhp+lDM89qyk5JFU2eOKICOlap8MWnCnoIp//Es1CFMeUv3W6xHQvXR1To9NE1YNoxo978Wj 7JOP5AzzCEfG9kanVomf+awJaVkC4AZp4og3QYHafFhnKkxCsByeigJDRsG9CGpPCUr+TjNf/MR Tg6Kr3sjRABw4fA2ML0XavHmL30FUU1AHTECDPDXa9zmkOJo5q6UCtq8I2KSlnLEzs2ec5NKip8 GXta6uYnCPAlzy6d/qLQx7oYaGzsTv0028yVzZG/fVlkg== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-xyz.scm (python-stone): Update to 3.3.9. [source]: Switch to git-fetch. [build-system]: Switch to pyproject. [arguments]: Remove field. [propagated-inputs]: Add python-jinja2, python-packaging. [native-inputs]: Add python-setuptools, python-wheel. Remove python-coverage, python-mock. --- gnu/packages/python-xyz.scm | 41 +++++++++++-------------------------- 1 file changed, 12 insertions(+), 29 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index e63e41ba18..d18e4cfebd 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -29754,38 +29754,21 @@ (define-public python-userspacefs (define-public python-stone (package (name "python-stone") - (version "3.2.1") + (version "3.3.9") (source - (origin - (method url-fetch) - (uri (pypi-uri "stone" version)) - (sha256 - (base32 - "0xby5mpsms7b2rv8j6mvxzmzz5i9ii01brb9ylxz6kiv2i08piwv")))) - (build-system python-build-system) - (arguments - `(#:phases - (modify-phases %standard-phases - (add-after 'unpack 'change-version-requirements - (lambda _ - ;; Match the requirement in test/requirements.txt - (substitute* "setup.py" - (("pytest < 5") "pytest < 7")) - ;; We don't care about a coverage report. - (substitute* "test/requirements.txt" - (("coverage.*") "coverage\n")))) - (replace 'check - (lambda* (#:key tests? #:allow-other-keys) - (when tests? - ;; These tests don't import correctly. - (delete-file "test/test_js_client.py") - (delete-file "test/test_tsd_types.py") - (delete-file "test/test_python_gen.py") - (invoke "pytest"))))))) + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/dropbox/stone") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1x0kj4jygssjn66lbkln95chhf85vzy1wnpziy9jvpf4kbc1bmfy")))) + (build-system pyproject-build-system) (propagated-inputs - (list python-ply python-six)) + (list python-jinja2 python-packaging python-ply python-six)) (native-inputs - (list python-coverage python-mock python-pytest python-pytest-runner)) + (list python-pytest python-pytest-runner python-setuptools python-wheel)) (home-page "https://github.com/dropbox/stone") (synopsis "Official Api Spec Language for Dropbox") (description -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[build-system]: Switch to pyproject. [arguments]{test-flags}: Ignore test. {phases}: Remove phase 'disable-failing-tests. Add phase default-to-mcron. [inputs]: Add mcron. [native-inputs]: Add python-pytest, python-setuptools, python-wheel. --- gnu/packages/python-xyz.scm | 36 +++++++++++++++++------------------- 1 file changed, 17 insertions(+), 19 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index b526c6161a..e63e41ba18 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -231,6 +231,7 @@ (define-module (gnu packages python-xyz) #:use-module (gnu packages gsasl) #:use-module (gnu packages gstreamer) #:use-module (gnu packages gtk) + #:use-module (gnu packages guile-xyz) #:use-module (gnu packages haskell-xyz) #:use-module (gnu packages icu4c) #:use-module (gnu packages image) @@ -31789,32 +31790,29 @@ (define-public python-croniter (define-public python-crontab (package (name "python-crontab") - (version "3.0.0") + (version "3.2.0") (source (origin (method url-fetch) (uri (pypi-uri name version)) (sha256 - (base32 "0yd3vdhl7z8lxa30czsry65srha51ppdcwnhjgxx9pwx0djp9yvr")))) - (build-system python-build-system) + (base32 "0sy3qlki43n6qmhzzzyya4wcs50mcp3mg1ddn9h39plsscfps1j0")))) + (build-system pyproject-build-system) (arguments - (list - #:phases - #~(modify-phases %standard-phases - (add-before 'check 'disable-failing-tests - (lambda _ - (substitute* '("tests/test_compatibility.py" - "tests/test_frequency.py") - (("test_07_non_posix_shell") - "__off_test_07_non_posix_shell") - ;; Fails on leap years - (("test_19_frequency_at_month") - "__off_test_19_frequency_at_month") - ;; AssertionError: 48 != 24 - (("test_20_frequency_at_year") - "__off_test_20_frequency_at_year"))))))) + (list #:test-flags + ;; This test is made for Windows. + #~(list "-k" "not test_07_non_posix_shell") + #:phases + #~(modify-phases %standard-phases + (add-after 'unpack 'defaults-to-mcron + (lambda* (#:key inputs #:allow-other-keys) + (substitute* "crontab.py" + (("/usr/bin/crontab") + (search-input-file inputs "bin/crontab")))))))) (inputs - (list python-dateutil)) + (list mcron python-dateutil)) + (native-inputs + (list python-pytest python-setuptools python-wheel)) (home-page "https://gitlab.com/doctormo/python-crontab/") (synopsis "Module for reading and writing crontab files") (description "This Python module can read, write crontab files, and -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director4.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:41 +0000 (UTC) Received: from mta6.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.110.178.229]) by director4.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpK10Vj7zyD4; Fri, 4 Apr 2025 19:17:41 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.5]) by mta6.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 9E113D43D38; Fri, 4 Apr 2025 19:17:40 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-107S001d5f5dbf0-0e84-40d2-ad66-d93e944faba0, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 23/38] gnu: python-bed-reader: Fix build and enable tests. Date: Fri, 4 Apr 2025 21:16:55 +0200 Message-ID: <20250404191717.32747-23-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3482689889811358434 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 49 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucgoufhushhpvggtthffohhmrghinhculdegledmnecujfgurhephffvvefufffkofgjfhgggfestdekredtredttdenucfhrhhomheppfhitgholhgrshcuifhrrghvvghsuceonhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrqeenucggtffrrghtthgvrhhnpeeltdfhiefgtdffkeeitdeggeffieevteffieeigfelffegkeelhfegudfhudevueenucffohhmrghinhepghhithhhuhgsrdgtohhmpdhgihhthhhusghushgvrhgtohhnthgvnhhtrdgtohhmpdhgihhthhhusgdrihhonecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehiedvmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=Wr5mop/Npb6Aqxtnm/2tqbUqsZ19LUU5F21s83YH39s=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794261; v=1; b=NA7vMr9iBmM6Tq9wvZahqmhNINP8XZ2ytNOc4j8eO9CHL3FuRrRJt8WgV1Ie5Cb9dtXKw7q+ +avy3HKPnVI+FS8qy0s9QCRK2gIdohb0jAHDA7jkVGTP1H1W2g7hMF5vy8DN6HyUSJx5Mi/RVIw 3HK7bx29DQzDzK96AUbSYwAQXNkclUPDR9Xn60QgbMVBl1rhpK6prg8Ci9AgAnC1QsEb8NiNlKr 3qYHyVm39n1Uwk1oIb+1B9fLT9MIOLdHIT182jhcYeXws+T1jG3yV7HkhCwnhqForVbGZQ7Kepw cNpjjLxXkiNCwJiDnXy2N3Zx4elSnFqB6wJR33Rr/W61g== X-Spam-Score: 0.8 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -0.2 (/) * gnu/packages/bioinformatics.scm (python-bed-reader): Fix build and enable tests. [source]{snippet}: Delete bundled website-related javascript. {patches}: Use the store-cached instead of pooch-cached samples. [arguments]{tests?}: Enable them. {cargo-test-flags}: Skip doc tests. Skip failing tests. {cargo-inputs}: Improve style. {cargo-development-inputs}: Improve style. {phases}: Add phases 'set-data-path, 'patch-data-path to use store-cached samples for library and tests. Rewrite phase 'prepare-python-module to rely more on the existing info in pyproject.toml. Rewrite phase 'check-python entirely, and marginaly rewrite phase 'install-python-library to match 'check-python phase style. {modules}: Adapt accordingly. {propagated-inputs}: Remove python-pooch. Add python-scipy. (bed-sample-files): Add origin, used in python-bed-reader. * gnu/packages/patches/python-bed-reader-use-store-samples.patch: Add patch. * gnu/local.mk: Record patch. --- gnu/local.mk | 1 + gnu/packages/bioinformatics.scm | 195 ++++++++++++------ .../python-bed-reader-use-store-samples.patch | 147 +++++++++++++ 3 files changed, 284 insertions(+), 59 deletions(-) create mode 100644 gnu/packages/patches/python-bed-reader-use-store-samples.patch diff --git a/gnu/local.mk b/gnu/local.mk index 1bf8f8deba..6c2466114d 100644 --- a/gnu/local.mk +++ b/gnu/local.mk @@ -2008,6 +2008,7 @@ dist_patch_DATA = \ %D%/packages/patches/python-3.12-fix-tests.patch \ %D%/packages/patches/python-accupy-use-matplotx.patch \ %D%/packages/patches/python-accupy-fix-use-of-perfplot.patch \ + %D%/packages/patches/python-bed-reader-use-store-samples.patch \ %D%/packages/patches/python-chai-drop-python2.patch \ %D%/packages/patches/python-clarabel-blas.patch \ %D%/packages/patches/python-docrepr-fix-tests.patch \ diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 4dbedc09f9..c5fe295f6c 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -2167,6 +2167,20 @@ (define-public python-bcbio-gff/biopython-1.73 (modify-inputs (package-propagated-inputs python-bcbio-gff) (replace "python-biopython" python-biopython-1.73)))))) +(define bed-sample-files + (let* ((name "bed-sample-files") + (commit "a06dc0450e484090f15656ffd5d317813a5e1e01") + (revision "0") + (version (git-version "0.0.0" revision commit))) + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/fastlmm/bed-sample-files") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1ldr2lvgbcykxa9i2s2298mhfh0sz96aaxs5dx217aipa9vsrjwk"))))) + (define-public python-bed-reader (package (name "python-bed-reader") @@ -2176,80 +2190,124 @@ (define-public python-bed-reader (method url-fetch) (uri (pypi-uri "bed_reader" version)) (sha256 - (base32 "1c8ibwvz3b069w7ffh9aasz16lfkmx4z0249c2v909a21mrkkd6n")))) + (base32 "1c8ibwvz3b069w7ffh9aasz16lfkmx4z0249c2v909a21mrkkd6n")) + (modules '((guix build utils))) + ;; Bundled unused javascript & co. + (snippet #~(delete-file-recursively "_static")) + (patches + (search-patches "python-bed-reader-use-store-samples.patch")))) (build-system cargo-build-system) (arguments (list - ;; Many of the tests (both the Rust tests and the Python tests) require - ;; Internet access to fetch samples. - #:tests? #false #:install-source? #false #:features '(list "extension-module") - #:cargo-test-flags '(list "--features=extension-module") + #:cargo-test-flags + '(list "--features=extension-module" + ;; Skip doc tests. + "--lib" "--bins" "--tests" "--" + ;; This test is the only one not matched by our regexp. + "--skip=http_one" + ;; These test require a 84 GB file. + "--skip=http_two" + "--skip=http_cloud_urls_md_3") #:cargo-inputs - `(("rust-anyinput" ,rust-anyinput-0.1) - ("rust-bytecount" ,rust-bytecount-0.6) - ("rust-byteorder" ,rust-byteorder-1) - ("rust-bytes" ,rust-bytes-1) - ("rust-cloud-file" ,rust-cloud-file-0.2) - ("rust-derive-builder" ,rust-derive-builder-0.20) - ("rust-dpc-pariter" ,rust-dpc-pariter-0.4) - ("rust-fetch-data" ,rust-fetch-data-0.2) - ("rust-futures-util" ,rust-futures-util-0.3) - ("rust-itertools" ,rust-itertools-0.13) - ("rust-ndarray" ,rust-ndarray-0.16) - ("rust-ndarray-npy" ,rust-ndarray-npy-0.9) - ("rust-num-traits" ,rust-num-traits-0.2) - ("rust-numpy" ,rust-numpy-0.22) - ("rust-pyo3" ,rust-pyo3-0.22) - ("rust-pyo3-build-config" ,rust-pyo3-build-config-0.22) - ("rust-rayon" ,rust-rayon-1) - ("rust-statrs" ,rust-statrs-0.17) - ("rust-thiserror" ,rust-thiserror-1) - ("rust-tokio" ,rust-tokio-1)) + (list rust-anyinput-0.1 + rust-bytecount-0.6 + rust-byteorder-1 + rust-bytes-1 + rust-cloud-file-0.2 + rust-derive-builder-0.20 + rust-dpc-pariter-0.4 + rust-fetch-data-0.2 + rust-futures-util-0.3 + rust-itertools-0.13 + rust-ndarray-0.16 + rust-ndarray-npy-0.9 + rust-num-traits-0.2 + rust-numpy-0.22 + rust-pyo3-0.22 + rust-pyo3-build-config-0.22 + rust-rayon-1 + rust-statrs-0.17 + rust-thiserror-1 + rust-tokio-1) #:cargo-development-inputs - `(("rust-anyhow" ,rust-anyhow-1) - ("rust-ndarray-rand" ,rust-ndarray-rand-0.15) - ("rust-rusoto-credential" ,rust-rusoto-credential-0.48) - ("rust-temp-testdir" ,rust-temp-testdir-0.2) - ("rust-thousands" ,rust-thousands-0.2)) + (list rust-anyhow-1 + rust-ndarray-rand-0.15 + rust-rusoto-credential-0.48 + rust-temp-testdir-0.2 + rust-thousands-0.2) #:imported-modules (append %cargo-build-system-modules %pyproject-build-system-modules) #:modules '((guix build cargo-build-system) ((guix build pyproject-build-system) #:prefix py:) - (guix build utils)) + (guix build utils) + (ice-9 match) + (ice-9 rdelim)) #:phases #~(modify-phases %standard-phases + (add-after 'configure 'set-data-path + (lambda _ + ;; This var is still necessary despite the patch-data-path phase. + ;; Otherwise more tests fail with a read-only filesystem error. + (setenv "BED_READER_DATA_DIR" #+bed-sample-files))) + (add-after 'unpack 'patch-data-path + (lambda _ + ;; If BED_READER_DATA_DIR is unset, default to bed-sample-files. + (substitute* "bed_reader/_sample_data.py" + (("os\\.environ\\.get\\(\"BED_READER_DATA_DIR\"" all) + (format #f "~a, ~s" all #+bed-sample-files))) + ;; XXX: More work is necessary to use another + ;; version of sample files with BED_READER_DATA_DIR + ;; Currently, only the hardcoded Guix version is working. + (substitute* '("bed_reader/tests/test_open_bed_cloud.py" + "src/bed_cloud.rs" + "src/lib.rs" + "src/supplemental_documents/cloud_urls_etc.md" + "tests/tests_api_cloud.rs") + (("\ +https://raw\\.githubusercontent\\.com/fastlmm/bed-sample-files/main") + (string-append "file://" #+bed-sample-files))) + (substitute* "src/tests.rs" + (("bed_reader/tests/data") + #+bed-sample-files)))) (add-after 'install 'prepare-python-module (lambda _ - ;; We don't use maturin. - (delete-file "pyproject.toml") - (call-with-output-file "pyproject.toml" - (lambda (port) - (format port "\ + ;; We don't use maturin. Conveniently, what we want to drop + ;; from pyproject.toml is at the end of the file. + (rename-file "pyproject.toml" "pyproject.toml.bak") + (call-with-input-file "pyproject.toml.bak" + (lambda (in) + (call-with-output-file "pyproject.toml" + (lambda (out) + (let loop () + (match (read-line in) + ((? eof-object? eof) + eof) + ("[build-system]" + (and (format out "\ [build-system] build-backend = 'setuptools.build_meta' requires = ['setuptools'] + +[tool.setuptools.packages.find] +where = [\".\"] +exclude = [\"src\", \"docs\", \"tests\", \"Cargo.toml\"] "))) - (call-with-output-file "setup.cfg" - (lambda (port) - (format port "\ -[metadata] -name = bed-reader -version = ~a - -[options] -packages = find: - -[options.packages.find] -exclude = - src - docs - tests - Cargo.toml -" #$version))))) + ("samples = [\"pooch>=1.5.0\"]" + (and (format out "samples = []~%") + (loop))) + ("[project]" + (and (format out "\ +[project] +version = ~s +" #$version) + (loop))) + (line + (and (format out "~a~%" line) + (loop))))))))))) (add-after 'prepare-python-module 'enable-bytecode-determinism (assoc-ref py:%standard-phases 'enable-bytecode-determinism)) (add-after 'enable-bytecode-determinism 'build-python-module @@ -2261,16 +2319,35 @@ (define-public python-bed-reader (let ((site (string-append #$output "/lib/python" #$(version-major+minor (package-version python)) - "/site-packages"))) - (mkdir-p site) + "/site-packages/"))) + (mkdir-p (string-append site "bed_reader")) (copy-file "target/release/libbed_reader.so" - (string-append site "/bed_reader/bed_reader.so"))))) + (string-append site "bed_reader/bed_reader.so"))))) (add-after 'install-python-library 'add-install-to-pythonpath (assoc-ref py:%standard-phases 'add-install-to-pythonpath)) (add-after 'add-install-to-pythonpath 'check-python - (lambda* (#:key tests? test-flags #:allow-other-keys) + (lambda* (#:key tests? #:allow-other-keys) (when tests? - (apply invoke "pytest" "-v" #$output test-flags))))))) + (let ((site (string-append #$output "/lib/python" + #$(version-major+minor + (package-version python)) + "/site-packages/")) + (data-dir "bed_reader/tests/data")) + (symlink (canonicalize-path data-dir) + (string-append site data-dir)) + (invoke "pytest" "-v" #$output + ;; These test require a 84 GB file. + "-k" (string-join + (list "not test_http_two" + "test_http_cloud_urls_rst_3" + "test_http_cloud_urls_rst_4" + ;; XXX: python-pooch dependency removed + "test_optional_dependencies") + " and not ")) + (delete-file-recursively + (string-append site "bed_reader/tests")) + (delete-file-recursively + (string-append #$output "/.pytest_cache"))))))))) (native-inputs (list python-pytest python-pytest-cov python-pytest-datadir @@ -2278,7 +2355,7 @@ (define-public python-bed-reader python-recommonmark python-sphinx)) (inputs (list python-wrapper)) - (propagated-inputs (list python-numpy python-pandas python-pooch)) + (propagated-inputs (list python-numpy python-pandas python-scipy)) (home-page "https://fastlmm.github.io/") (synopsis "Read and write the PLINK BED format, simply and efficiently") (description diff --git a/gnu/packages/patches/python-bed-reader-use-store-samples.patch b/gnu/packages/patches/python-bed-reader-use-store-samples.patch new file mode 100644 index 0000000000..813f155225 --- /dev/null +++ b/gnu/packages/patches/python-bed-reader-use-store-samples.patch @@ -0,0 +1,147 @@ +From 7e6bcdfeed54500ca533d2f0eb12078248c43c77 Mon Sep 17 00:00:00 2001 +Message-ID: <7e6bcdfeed54500ca533d2f0eb12078248c43c77.1743682382.git.ngraves@HIDDEN> +From: Nicolas Graves <ngraves@HIDDEN> +Date: Thu, 3 Apr 2025 11:33:58 +0200 +Subject: [PATCH] samples: Use deterministic samples in Guix. + +--- + bed_reader/_sample_data.py | 86 +++++++++----------------------------- + 1 file changed, 19 insertions(+), 67 deletions(-) + +diff --git a/bed_reader/_sample_data.py b/bed_reader/_sample_data.py +index 6ca4cc0..6a1146e 100644 +--- a/bed_reader/_sample_data.py ++++ b/bed_reader/_sample_data.py +@@ -1,33 +1,8 @@ ++import os + import tempfile + from pathlib import Path, PurePath + from typing import Union + +-try: +- import pooch +- +- """ +- Load sample data. +- """ +- +- POOCH = pooch.create( +- # Use the default cache folder for the OS +- path=pooch.os_cache("bed_reader"), +- # The remote data is on Github +- base_url="https://raw.githubusercontent.com/" +- + "fastlmm/bed-sample-files/main/", +- # If this is a development version, get the data from the master branch +- version_dev="main", +- # The registry specifies the files that can be fetched +- env="BED_READER_DATA_DIR", +- ) +- +- # Get registry file from package_data +- registry_file = Path(__file__).parent / "tests/registry.txt" +- # Load this registry file +- POOCH.load_registry(registry_file) +-except ImportError: +- pooch = None +- + + def sample_file(filepath: Union[str, Path]) -> str: + """Retrieve a sample .bed file. (Also retrieves associated .fam and .bim files). +@@ -40,50 +15,41 @@ def sample_file(filepath: Union[str, Path]) -> str: + Returns + ------- + str +- Local name of sample .bed file. +- +- +- .. note:: +- This function requires the :mod:`pooch` package. Install `pooch` with: +- +- .. code-block:: bash +- +- pip install --upgrade bed-reader[samples] +- +- +- By default this function puts files under the user's cache directory. +- Override this by setting +- the `BED_READER_DATA_DIR` environment variable. ++ Local path of sample .bed file. + + Example + -------- + + .. doctest:: + +- >>> # pip install bed-reader[samples] # if needed + >>> from bed_reader import sample_file + >>> + >>> file_name = sample_file("small.bed") + >>> print(f"The local file name is '{file_name}'") + The local file name is '...small.bed' +- + """ +- if pooch is None: +- raise ImportError( +- "The function sample_file() requires pooch. " +- + "Install it with 'pip install --upgrade bed-reader[samples]'.", ++ filepath = Path(filepath) ++ sample_dir = os.environ.get("BED_READER_DATA_DIR") ++ if sample_dir is None: ++ raise EnvironmentError( ++ "BED_READER_DATA_DIR environment variable is not set. " ++ "This should point to the directory containing the sample files." + ) + +- filepath = Path(filepath) +- file_string = str(filepath) +- if file_string.lower().endswith(".bed"): +- POOCH.fetch(file_string[:-4] + ".fam") +- POOCH.fetch(file_string[:-4] + ".bim") +- return POOCH.fetch(file_string) ++ file_path = Path(sample_dir) / filepath ++ ++ # Check if file exists ++ if not file_path.exists(): ++ raise FileNotFoundError( ++ f"Sample file '{filepath}' not found in {sample_dir}. " ++ f"Make sure you're using the latest samples in BED_READER_DATA_DIR." ++ ) ++ ++ return str(file_path) + + + def sample_url(filepath: Union[str, Path]) -> str: +- """Retrieve a URL to a sample .bed file. (Also makes ready associated .fam and .bim files). ++ """Retrieve a URL to a sample .bed file. + + Parameters + ---------- +@@ -95,25 +61,11 @@ def sample_url(filepath: Union[str, Path]) -> str: + str + URL to sample .bed file. + +- +- .. note:: +- This function requires the :mod:`pooch` package. Install `pooch` with: +- +- .. code-block:: bash +- +- pip install --upgrade bed-reader[samples] +- +- +- By default this function puts files under the user's cache directory. +- Override this by setting +- the `BED_READER_DATA_DIR` environment variable. +- + Example + -------- + + .. doctest:: + +- >>> # pip install bed-reader[samples] # if needed + >>> from bed_reader import sample_url + >>> + >>> url = sample_url("small.bed") +-- +2.49.0 + -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director4.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:46 +0000 (UTC) Received: from mta6.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.110.113.125]) by director4.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpK63fcFzyBh; Fri, 4 Apr 2025 19:17:46 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.4]) by mta6.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 296D9D43D38; Fri, 4 Apr 2025 19:17:46 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-102R004ee5fe6d7-d07b-4d0e-990c-9415d4722c5c, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 29/38] gnu: python-rq: Update to 2.3.1. Date: Fri, 4 Apr 2025 21:17:01 +0200 Message-ID: <20250404191717.32747-29-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3484097263102386914 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepueduvdekfeejudduveefjeegveffleekgeffvdeugfehvdffgfeivdekvdeljeeunecuffhomhgrihhnpehphihthhhonhdqrhhqrdhorhhgnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehieefmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=KNKam4WCJemZAOyPnpur3+CCACUgjwph7Z3RcwK2xbc=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794266; v=1; b=WMt6JHbBy4ZXd53iUs8lY88b2EDe+/PjsvohkiwW1QSiJSfAfd1EnwjnJgAgkZrrHnLUgVla AnNP1GUfEXDqjlPloBk0v1YeM0Fw6W4XyH0BUxsJL8uUY6vMfdh2J2nkiZ4ZDD2BKyYfF5/ZGvu 50v1PUH2I+4KSVyw3akIGvMnL73Wpl2FzT3b9/iz/dTaOC/DCAginKwGiLQtuXNctc0SLZvRhHT p9BU2X5fBqoYZKwxacUHJYj5kfjWCNzgREcS6TUHDmeBzAWHhH+nzp5Jh4R4QmlVc0Cf1FxdpXZ z93W+2QUihb5E3dy/NhQW57wx5st6+GNowGdSg8bKlCQQ== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/databases.scm (python-rq): Update to 2.3.1. [build-system]: Switch to pyproject. [arguments]{phases}: Delete 'check phase replacement. Improve style. [native-inputs]: Add python-hatchling. --- gnu/packages/databases.scm | 30 +++++++++++++----------------- 1 file changed, 13 insertions(+), 17 deletions(-) diff --git a/gnu/packages/databases.scm b/gnu/packages/databases.scm index 097617e094..4ecf237115 100644 --- a/gnu/packages/databases.scm +++ b/gnu/packages/databases.scm @@ -4611,7 +4611,7 @@ (define-public python-aioredis (define-public python-rq (package (name "python-rq") - (version "1.11.1") + (version "2.3.1") (source (origin (method git-fetch) @@ -4620,24 +4620,20 @@ (define-public python-rq (commit (string-append "v" version)))) (file-name (git-file-name name version)) (sha256 - (base32 "0dnjm2s036l4j4ypq0h903vh132dp2wiwjrn8jicz1nw829dqpzf")))) - (build-system python-build-system) + (base32 "1w9aqvbvh1mfpgng0mdcskxl5y3ybcqqai5dnwgvg18am0xxhya6")))) + (build-system pyproject-build-system) (arguments - '(#:phases (modify-phases %standard-phases - (add-before 'check 'start-redis - (lambda _ - (invoke "redis-server" "--daemonize" "yes"))) - (replace 'check - (lambda* (#:key outputs #:allow-other-keys) - (let ((out (assoc-ref outputs "out"))) - ;; Drop test that needs the SDK for Sentry.io. - (delete-file "tests/test_sentry.py") - ;; Ensure 'rq' and 'rqworker' ends up on PATH. - (setenv "PATH" (string-append out "/bin:" - (getenv "PATH"))) - (invoke "pytest" "-vv"))))))) + (list + #:phases #~(modify-phases %standard-phases + (add-before 'check 'start-redis + (lambda _ + (invoke "redis-server" "--daemonize" "yes")))))) (native-inputs - (list python-mock python-psutil python-pytest redis)) + (list python-hatchling + python-mock + python-psutil + python-pytest + redis)) (propagated-inputs (list python-click python-redis)) (home-page "https://python-rq.org/") -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director2.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:45 +0000 (UTC) Received: from mta3.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.109.139.44]) by director2.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpK55MbZzyDq; Fri, 4 Apr 2025 19:17:45 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.7]) by mta3.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 50F703A3EB0; Fri, 4 Apr 2025 19:17:45 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-114S008d11cc458-bfef-45c8-b4e6-abd657e781c7, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 28/38] gnu: python-furl: Update to 2.1.4. Date: Fri, 4 Apr 2025 21:17:00 +0200 Message-ID: <20250404191717.32747-28-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3483815790371398370 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpeegnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeivdgmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=JHnb5nTIe+Bcn46BTqGgYSmnQ/0gvni3j7raluUYDX8=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794266; v=1; b=s/+Bdvkl9VqL8d7BqFFDU6Z+E4XyZOrxr1lq4Hc/644t6Gpk6ZKEzpjYWKNgY1KjsCH62v+V CuPEtf9irN/zgdXmX5iF4c08L8PR+8FZmPwF6EqvdoD/aJNVCbVPJOXWYssHTR8gx5uGe1P0omy xQO6h0Hm8EvPm+lfMtGmnzCSoiQQXvNpDPXToSIEXlyjXuaaqqI0TUYxYqqVh2CeDf1hhy+yZkf bP9znbDfdgoaLcmEKMy0SxMRf2KwJoqkPJn2fkfiqwjPB8ZgqW+Qdi5pxdNb0bXhPrrvgTnqNNW WD15jO9nFVUs6dMGtM75E1p1z1+J3PRN1xaE8jeUSFxAg== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-web.scm (python-furl): Update to 2.1.4. [build-system]: Swtich to pyproject. [arguments]{test-flags}: Ignore failing tests. [propagated-inputs]: Sort. [native-inputs]: Add python-pytest, python-setuptools, python-wheel. --- gnu/packages/python-web.scm | 16 ++++++++++------ 1 file changed, 10 insertions(+), 6 deletions(-) diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm index bf379c3699..579386e5ab 100644 --- a/gnu/packages/python-web.scm +++ b/gnu/packages/python-web.scm @@ -1941,19 +1941,23 @@ (define-public python-falcon-cors (define-public python-furl (package (name "python-furl") - (version "2.1.3") + (version "2.1.4") (source (origin (method url-fetch) (uri (pypi-uri "furl" version)) (sha256 - (base32 - "0knc76pm8pzigs3bpx9fccfsfxqrgblqphar46hq9i364vz8hqas")))) - (build-system python-build-system) + (base32 "05b058xisv8kghvcpaxvssml2jjkh1cmzyrrjwk2kjb62985fxl7")))) + (build-system pyproject-build-system) + (arguments + (list #:test-flags + #~(list "-k" (string-append "not test_hosts" + " and not test_netloc" + " and not test_odd_urls")))) (propagated-inputs - (list python-six python-orderedmultidict)) + (list python-orderedmultidict python-six)) (native-inputs - (list python-flake8)) + (list python-flake8 python-pytest python-setuptools python-wheel)) (home-page "https://github.com/gruns/furl") (synopsis "URL manipulation in Python") (description "Furl provides an easy-to-use alternative to the -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director2.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:44 +0000 (UTC) Received: from mta2.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.110.101.222]) by director2.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpK44lMrzyF8; Fri, 4 Apr 2025 19:17:44 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.7]) by mta2.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 4BC0BBA3E48; Fri, 4 Apr 2025 19:17:44 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-107S001ac365a67-0209-45bd-98c2-70a246cf2e81, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 27/38] gnu: python-pgpy: Fix tests. 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[build-system]: Switch to pyproject. [arguments]{phases}: Remove argument. {test-flags}: Ignore failing tests. [native-inputs]: Add python-setuptools. --- gnu/packages/python-crypto.scm | 15 ++++++--------- 1 file changed, 6 insertions(+), 9 deletions(-) diff --git a/gnu/packages/python-crypto.scm b/gnu/packages/python-crypto.scm index 13ad37bca8..fc57afb862 100644 --- a/gnu/packages/python-crypto.scm +++ b/gnu/packages/python-crypto.scm @@ -1634,17 +1634,14 @@ (define-public python-pgpy (uri (pypi-uri "PGPy" version)) (sha256 (base32 "10w3h934fi1ijx72ppn67a50yhkf8n1db6xx02gk2fjc7wsjx717")))) - (build-system python-build-system) + (build-system pyproject-build-system) (arguments - `(#:phases - (modify-phases %standard-phases - (replace 'check - (lambda* (#:key tests? #:allow-other-keys) - (when tests? - (invoke "pytest"))))))) + (list #:test-flags + ;; All broken tests are in this file. + ;; They fail with ValueError: key_size must be at least 1024-bits. + #~(list "--ignore" "tests/test_10_exceptions.py"))) (native-inputs - (list python-pytest - python-wheel)) + (list python-pytest python-setuptools python-wheel)) (propagated-inputs (list python-cryptography python-pyasn1)) (home-page "https://github.com/SecurityInnovation/PGPy") (synopsis "Python implementation of OpenPGP") -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director3.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:43 +0000 (UTC) Received: from mta11.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.109.140.156]) by director3.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpK35fhlz83Zk; Fri, 4 Apr 2025 19:17:43 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.4]) by mta11.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 45054263921; Fri, 4 Apr 2025 19:17:43 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-109S00334ef1edd-8a1b-4188-bfab-c72e4e74aae3, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 26/38] gnu: python-duniterpy: Update to 1.2.1. Date: Fri, 4 Apr 2025 21:16:58 +0200 Message-ID: <20250404191717.32747-26-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3483252840550294242 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepfeetudffvdeutdehkeefvefhhfejteeiffdutedujeejtdetffeivdeiheehueeinecuffhomhgrihhnpeguuhhnihhtvghrrdhorhhgnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehieefmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=uFSkaTv6DWHc306mZ++Hn+cB1Hn4I2HJHFFUVhXVOg4=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794264; v=1; b=HK9RRKMyrqL6FGTD7TEqmlMglxhTSytvbwm+1OqnQJV/7UoKvpsftt+2XNZqnIV5LXJfySkp F4CM06xrtlufqfrLoJ+9HdCI835iXdYscxIsdq1itWlJd0hy3PiNGtuKKnhPNGBvals/GZA0BRm CDbTyUUuyPHKr8f4unqKgmv1WvkqXN7/Dhi2DDwzuCL7RuoH2BTIM/oaro8IsfhT3LcTSZKDidE GHjQHPmcfeZwefPXSfrKRg5Y1dUMVW0dcsPdd9bfeXlEr6Yex48jwRCVORvHXLe1HD84E2TMyto PwLsjQK+/mRBMc9KzHRUOb7Z6xIFOzLwK6lIgDMG9F1gQ== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/finance.scm (python-duniterpy): Update to 1.2.1. [source]: Switch to git-fetch to get tests. [arguments]: Remove field. [native-inputs]: Replace python-poetry-core by python-poetry-core-next. Add python-pytest. [propagated-inputs]: Remove python-attrs. --- gnu/packages/finance.scm | 40 ++++++++++------------------------------ 1 file changed, 10 insertions(+), 30 deletions(-) diff --git a/gnu/packages/finance.scm b/gnu/packages/finance.scm index 69cee44386..680ebe467c 100644 --- a/gnu/packages/finance.scm +++ b/gnu/packages/finance.scm @@ -1412,42 +1412,22 @@ (define-public python-stdnum (define-public python-duniterpy (package (name "python-duniterpy") - (version "1.1.1") + (version "1.2.1") (source (origin - (method url-fetch) - (uri (pypi-uri "duniterpy" version)) + (method git-fetch) + (uri (git-reference + (url "https://git.duniter.org/clients/python/duniterpy") + (commit version))) + (file-name (git-file-name name version)) (sha256 - (base32 "0h0fsawsrjd50lb1bkysb21ph39qlhmiymd3r5vs695qxvbwaqaa")))) + (base32 "1ysh9b5lzg053hv4iw3zbn7hid05qssiwmrl8sir8qlk958r8x60")))) (build-system pyproject-build-system) - (arguments - ;; FIXME: Tests fail with: "TypeError: block_uid() missing 1 required - ;; positional argument: 'value'". - `(#:tests? #f - #:phases (modify-phases %standard-phases - (add-after 'unpack 'loosen-requirements - (lambda _ - (substitute* "pyproject.toml" - (("mnemonic = \"\\^0\\.19") - "mnemonic = \">=0.19") - (("jsonschema = \"\\^3\\.2") - "jsonschema = \">=3.2")))) - (add-after 'unpack 'adjust-for-new-libnacl - (lambda _ - ;; Mimic upstream commit ad8f6a26e9e7067; remove - ;; for newer versions of duniterpy. - (substitute* "pyproject.toml" - (("libnacl = \"1\\.8") - "libnacl = \">=1.9")) - (substitute* "duniterpy/key/ascii_armor.py" - (("from libnacl\\.version import version as libnacl_version") - "import importlib.metadata -libnacl_version = importlib.metadata.version('libnacl')"))))))) (native-inputs - (list python-poetry-core)) + (list python-poetry-core-next + python-pytest)) (propagated-inputs - (list python-attrs - python-base58 + (list python-base58 python-graphql-core python-jsonschema python-libnacl -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:16:57 +0200 Message-ID: <20250404191717.32747-25-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3482971363351978722 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepleffjeetueethfefkeffffefvddukeejkefgleduiedthfekvefhiedvhfffgeegnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgepfeenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehieefmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=/HAxnahZy7GdztM5l3DvIvFXgWj6nPwY5XKwSwpzUMk=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794262; v=1; b=Qmu43Yu0ZKpMIN18o8HL01v48d3cZO7Z451EMCaoRiTS/EdHlOJ/nQ0dl7jd9SyZoKxDLBxC IZQk97HdNHNlK5a65HajD4FOF/F0lFL7dMz0u/ip0xw7CfFr/iJCb5EJ6h4kfB2dTakOg3qEsJe xNiCMMTksw4tcHXHIByaBWQNBgfVkCOx/HPoHvUoRsSTMChq6xMcZiU1mW+VF6ppvpDK/m5kPXz L5PNsqzd0a69Vdvc2LzKsH571WkzSH6XtsREpY6udhEWpysfKpYpuop/OSj0o+vW409OjrJ4nsP CBQxUwrnqEAKmSnM+MKNBxjaHFVKgGvhz/55V8sve5qag== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-build.scm (python-poetry-core-next): New variable. --- gnu/packages/python-build.scm | 10 ++++++++++ 1 file changed, 10 insertions(+) diff --git a/gnu/packages/python-build.scm b/gnu/packages/python-build.scm index 6bea44fee6..9ac325094d 100644 --- a/gnu/packages/python-build.scm +++ b/gnu/packages/python-build.scm @@ -571,6 +571,16 @@ (define-public python-poetry-core compatible build front-ends to build Poetry managed projects.") (license license:expat))) +(define-public python-poetry-core-next + (package/inherit python-poetry-core + (version "2.1.2") + (source + (origin + (method url-fetch) + (uri (pypi-uri "poetry_core" version)) + (sha256 + (base32 "015a0802radb2x5wsbywm4fggv4s1srh8zyml5v58xgrxg8bpnzr")))))) + ;;; This package exists to bootstrap python-tomli. (define-public python-flit-core-bootstrap (package -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:16:56 +0200 Message-ID: <20250404191717.32747-24-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3482689888511255266 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhephedvtdffvdduudeluefhffdufeehleeffeevuefhjeevleelkeehkeeljeeiveevnecuffhomhgrihhnpehgihhthhhusgdrtghomhdpghhithhhuhgsuhhsvghrtghonhhtvghnthdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpedtnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeivdgmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=3TkHtLDjxOYACiJqk8Wpz7yH+X5EdOKRVdzlXVs1/lg=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794262; v=1; b=Ly29Au8RSM/TuNwz48z2y/yCSBTKEJXYiR/JqiI/O3teRgPlgWGJz4XzSQQ7tfa5++rlcF0f /5VHSs6gsaq426i3Srt6wEaU7I8URU5Jl0g258cr9rtoDmRadzs9F+Mx5QWseONBGAPLD1XJrKl 6/M8pk4qDzRD5G14ArC9xh4m1LUW/Ib6xmAlwRpOPBFpqfstZUQdPWwUc87fiXe5mR0LV6oKfNM /iJ2WqgzCxzBUzVUWMLgtkQpierpDboumUeWFa8SRvNd9l9YRCPyJG0H3muCBexLH5boyyxLqun 3doYSrGKgTU32wCIpBO1//kf/ZaGSvvpeCuXrZ45Ss+bw== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/bioinformatics.scm (python-pysnptools): Fix build and enable tests. [arguments]{test-flags}: Ignore failing tests. {phases}: Add 'patch-data-path and 'loosen-requirements phases. (pysnptools-examples-files): Add origin. (bgen-sample-files): Add origin. --- gnu/packages/bioinformatics.scm | 80 ++++++++++++++++++++++++++++++--- 1 file changed, 75 insertions(+), 5 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index c5fe295f6c..3f612fd701 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3715,6 +3715,49 @@ (define-public python-pygam familiar to anyone with experience of scikit-learn or scipy.") (license license:asl2.0))) +(define bgen-sample-files + (let* ((name "bgen-sample-files") + (commit "7b1bc74f58b326ca19606fa5f3c6093d48367993") + (revision "0") + (version (git-version "0.0.0" revision commit))) + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/fastlmm/bgen-sample-files") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1b8jkscccyspfr3y1b66xvwnljcha08r2i24v9d6hcm5zii0l54w"))))) + +(define pynsptools-examples-files + (let* ((name "pysnptools-examples-files") + ;; taken from pysnptools/util/pysnptools.hashdown.json + (commit "ed14e050b2b75e7f4ddb73d512fbe928bbdb2b85") + (revision "0") + (version (git-version "0.0.0" revision commit))) + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/fastlmm/PySnpTools") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "0hznpj15kx2sla16wlmcqz21n2vi2qb1493v30vz75hnm1m4iwm1")) + (modules '((guix build utils) + (ice-9 ftw))) + (snippet + #~(begin + ;; Delete everything except for examples directory: + (define (delete-except exceptions) + (lambda (file) + (unless (member file `("." ".." ,@exceptions)) + (delete-file-recursively file)))) + (for-each (delete-except '("pysnptools" "tests")) (scandir ".")) + (with-directory-excursion "pysnptools" + (for-each (delete-except '("examples")) (scandir "."))) + (with-directory-excursion "tests" + (for-each (delete-except '("datasets")) (scandir ".")))))))) + (define-public python-pysnptools (package (name "python-pysnptools") @@ -3724,12 +3767,39 @@ (define-public python-pysnptools (method url-fetch) (uri (pypi-uri "pysnptools" version)) (sha256 - (base32 - "1babnyky5fk93as1ybdvpz9x3x5099gkgscxflngzfswin23mspk")))) + (base32 "1babnyky5fk93as1ybdvpz9x3x5099gkgscxflngzfswin23mspk")))) (build-system pyproject-build-system) - ;; Tests require test data from python-bed-reader, which fetches data with - ;; python-pooch. - (arguments (list #:tests? #f)) + (arguments + (list + #:test-flags + #~(list + ;; These tests require the bgen feature and an additional input. + "--ignore" "pysnptools/distreader/bgen.py" + "--ignore" "pysnptools/distreader/test_bgen2.py" + "--ignore" "pysnptools/distreader/distreader.py" + "-k" "not pysnptools.distreader.distdata.DistData.val \ +and not pysnptools.distreader.disthdf5.DistHdf5.write \ +and not pysnptools.distreader.distmemmap.DistMemMap.write" + ;; These tests require network connection. + "--ignore" "pysnptools/util/_example_file.py" + "--ignore" "pysnptools/util/filecache/hashdown.py") + #:phases + #~(modify-phases %standard-phases + (add-after 'unpack 'patch-data-path + (lambda _ + (substitute* "pysnptools/util/pysnptools.hashdown.json" + (("https://github\\.com/fastlmm/PySnpTools/\ +raw/ed14e050b2b75e7f4ddb73d512fbe928bbdb2b85") + (string-append "file://" #+pynsptools-examples-files))) + (substitute* "pysnptools/util/bgen.hashdown.json" + (("https://raw\\.githubusercontent\\.com\ +/fastlmm/bgen-sample-files/7b1bc74f58b326ca19606fa5f3c6093d48367993") + (string-append "file://" #+bgen-sample-files))))) + (add-after 'unpack 'loosen-requirements + (lambda _ + (substitute* "pyproject.toml" + (("(h5py|psutil|wheel)>=[0-9.]*" all target) + target))))))) (propagated-inputs (list python-bed-reader python-cloudpickle -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director4.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:35 +0000 (UTC) Received: from mta2.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.110.168.35]) by director4.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpJv6VMWzy98; Fri, 4 Apr 2025 19:17:35 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.7]) by mta2.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 822FEBA3E48; Fri, 4 Apr 2025 19:17:35 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-104R0056556b265-5e51-4aae-b16c-cd7d19c8a190, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 17/38] gnu: gpytorch: Remove uneeded inputs. 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[arguments]{test-flags}: Ignore costly examples tests. [native-inputs]: Remove python-coverage, python-flake8, python-flake8-print, python-twine. --- gnu/packages/machine-learning.scm | 12 +++++------- 1 file changed, 5 insertions(+), 7 deletions(-) diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm index 615768c492..dcebf89376 100644 --- a/gnu/packages/machine-learning.scm +++ b/gnu/packages/machine-learning.scm @@ -6135,18 +6135,16 @@ (define-public python-gpytorch (arguments (list #:test-flags ;; test_deprecated_methods fails with an AssertionError. - #~(list "-k" (string-append "not test_deprecated_methods")))) + #~(list "-k" (string-append "not test_deprecated_methods") + ;; Ignore lenghty tests of little relevance. + "--ignore=test/examples/"))) (propagated-inputs (list python-linear-operator python-mpmath python-scikit-learn python-scipy)) - (native-inputs (list python-coverage - python-flake8 - python-flake8-print - python-nbval + (native-inputs (list python-nbval python-pytest - python-setuptools - python-twine)) + python-setuptools)) (home-page "https://gpytorch.ai") (synopsis "Implementation of Gaussian Processes in PyTorch") (description -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[arguments]{test-flags}: Ignore failing tests. [native-inputs]: Add python-pyro-ppl, python-setuptools, python-wheel, python-xgboost. --- gnu/packages/statistics.scm | 16 +++++++++++++--- 1 file changed, 13 insertions(+), 3 deletions(-) diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 40991caab5..f883786f81 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -8312,7 +8312,7 @@ (define-public ruby-enumerable-statistics (define-public python-pgmpy (package (name "python-pgmpy") - (version "0.1.24") + (version "1.0.0") (source (origin (method git-fetch) ;pypi package does not include test data @@ -8322,8 +8322,14 @@ (define-public python-pgmpy (file-name (git-file-name name version)) (sha256 (base32 - "0fvzh6v0yhgdryczamvzhfy2ymywkh0ssx4rl47xnfvi43hnij90")))) + "1hg6wrg3jcac71zn4gknni1wrn38wa86ka3sgp2bndz59mx6sr2s")))) (build-system pyproject-build-system) + (arguments + (list #:test-flags + #~(list "-k" (string-append + "not test_pillai" + " and not test_estimate_with_cache_no_llm_calls" + " and not test_estimate_with_orientations")))) (propagated-inputs (list python-daft python-joblib python-networkx @@ -8337,7 +8343,11 @@ (define-public python-pgmpy python-statsmodels python-tqdm)) (native-inputs (list python-mock - python-pytest)) + python-pyro-ppl + python-pytest + python-setuptools + python-wheel + python-xgboost)) (home-page "https://github.com/pgmpy/pgmpy") (synopsis "Probabilistic Graphical Models library") (description "This package provides a library for Probabilistic -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[arguments]{test-flags}: Ignore additional failing test. [propagated-inputs]: Add python-jaxtyping. [native-inputs]: Add python-setuptools, python-wheel. --- gnu/packages/machine-learning.scm | 19 +++++++++++++------ 1 file changed, 13 insertions(+), 6 deletions(-) diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm index e5dd247c7d..4bf7442e09 100644 --- a/gnu/packages/machine-learning.scm +++ b/gnu/packages/machine-learning.scm @@ -6124,27 +6124,34 @@ (define-public python-linear-operator (define-public python-gpytorch (package (name "python-gpytorch") - (version "1.12") + (version "1.14") (source (origin (method url-fetch) (uri (pypi-uri "gpytorch" version)) (sha256 (base32 - "1pwsccll1hrgkifdmlxzcn6cvnwvyq2cimqzbfgihr13yw51cb6w")))) + "13cs6dx8qa5j4ygji9w5xbmaqc68ihqyzz33fyyf9qa6d8gc2b03")))) (build-system pyproject-build-system) (arguments (list #:test-flags - ;; test_deprecated_methods fails with an AssertionError. - #~(list "-k" (string-append "not test_deprecated_methods") + #~(list "-k" (string-append + ;; test_deprecated_methods fails with an AssertionError. + "not test_deprecated_methods" + ;; This test is flaky: Expects gradients of 0 exactly, + ;; can get negligible ones (e-10 to e-16). + " and not test_optimization_optimal_error") ;; Ignore lenghty tests of little relevance. "--ignore=test/examples/"))) - (propagated-inputs (list python-linear-operator + (propagated-inputs (list python-jaxtyping + python-linear-operator python-mpmath python-scikit-learn python-scipy)) (native-inputs (list python-nbval python-pytest - python-setuptools)) + python-setuptools + python-setuptools-scm + python-wheel)) (home-page "https://gpytorch.ai") (synopsis "Implementation of Gaussian Processes in PyTorch") (description -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director3.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:34 +0000 (UTC) Received: from mta7.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.108.2.46]) by director3.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpJt6bcPz82Vw; Fri, 4 Apr 2025 19:17:34 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.6]) by mta7.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 7EAC5C3960; Fri, 4 Apr 2025 19:17:34 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-107S001eec644aa-4c4f-4960-8f52-f0a070a7f2f6, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 16/38] gnu: python-linear-operator: Update to 0.6. Date: Fri, 4 Apr 2025 21:16:48 +0200 Message-ID: <20250404191717.32747-16-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3480719563765179106 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpedtnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeivdgmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=tHzX/YlQ/9Bft7s/3AFCfMuw5UG8ifSK1+rhpdx1V1A=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794255; v=1; b=aU9OyxD6nQBab5ncZ3hYRo/ZjWOZO809mYR28DIZz7iwaCDp2G5CaT5WshhG1CJLz1EcTN/n pYLCXv8P1zSn91jNSOAnrBatUZVs8K7TSxzTjMVzJlwbqXGyY+C+uCCMvCglmtLrPGkkXJif+sL LuuWdIWzNuELssERdvqW/9abkwY59X9C6rboV0ru77orqXLoL6VDhkIul+BxTWp8Pq6Bq/Z4djb RUyVJo2+s8vHwAmBRGFnj5zzUYaJYBdAMP7PvClWdTZTcekfnF05QW8TfZBVtNLnK3haoHS/Ba9 eBH9C7xz0DHbYBOxdlB6///v2837iBwaO2VUbKQyFnXsg== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/machine-learning.scm (python-linear-operator): Update to 0.6. [propagated-inputs]: Remove python-typeguard. Add python-mpmath. [native-inputs]: Remove python-flake8, python-flake8-print, python-twine. Add python-typeguard, python-wheel. --- gnu/packages/machine-learning.scm | 15 +++++++-------- 1 file changed, 7 insertions(+), 8 deletions(-) diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm index fb1d5d2eed..615768c492 100644 --- a/gnu/packages/machine-learning.scm +++ b/gnu/packages/machine-learning.scm @@ -6098,24 +6098,23 @@ (define-public python-pyro-ppl (define-public python-linear-operator (package (name "python-linear-operator") - (version "0.5.2") + (version "0.6") (source (origin (method url-fetch) (uri (pypi-uri "linear_operator" version)) (sha256 (base32 - "03drb4hn9nn8jrqd9vbalihhahgpdm956hbs05bix7svradhknaw")))) + "0m56f3zrm8xh1bpwh4g7jfc79rf4j94g6zmz663b58pig4w6dqm9")))) (build-system pyproject-build-system) (propagated-inputs (list python-jaxtyping + python-mpmath python-pytorch - python-scipy - python-typeguard)) - (native-inputs (list python-flake8 - python-flake8-print - python-pytest + python-scipy)) + (native-inputs (list python-pytest python-setuptools python-setuptools-scm - python-twine)) + python-typeguard + python-wheel)) (home-page "https://github.com/cornellius-gp/linear_operator/") (synopsis "Linear operator implementation") (description "LinearOperator is a PyTorch package for abstracting away the -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director3.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:33 +0000 (UTC) Received: from mta3.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.108.17.113]) by director3.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpJs6r7mz82Vw; Fri, 4 Apr 2025 19:17:33 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.1]) by mta3.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 6E2623A3EA6; Fri, 4 Apr 2025 19:17:33 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-109S003d37df7e6-c6c4-4ee4-9728-8f47f8a6482c, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 15/38] gnu: python-lcapy: Add missing native-inputs. 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It -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:16:46 +0200 Message-ID: <20250404191717.32747-14-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3480438088591467234 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepleevueeghffgtdeiueegffduvefhleehtedtffehgeetudfhgfdvledvteelkeegnecuffhomhgrihhnpehrvggrughthhgvughotghsrdhiohenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpedtnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeivdgmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=encm68WVVEs/0f3y5e6o5Q7lbmLA+jhw1kWxRVuYZYQ=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794253; v=1; b=4KusF2FXwH1PqNl8y6Hac0y52U1PK7Yckat3QDgmKlIIUj19VVAFzLko2R5uZlI8LkgzOtoN 9YiuvzvjRzYNBACPA8xlrD3ufpjPRD7/SPxFHrfX0jD+bfz0D4a8azQcgR1wcchfrIUXk8fqfM3 1HjFieNiNRFm0jjwaJZYi7FwWd3WcBdfljB5tzgAx/yj/G8lmx/r3vQsTm5JERlFDNT7/sJAuKQ oAYs1Z0REFCKpE04XbkDt+J2HXeBdkY+PBpxvNQim61JQI4hI1Do917V+nfZXMaDWasCgPCfYyi DsIDgRwsXP4xWOQmsQ+fIcn6lUxsslaITI4l2jIllWdTw== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-xyz.scm (python-pyro4): Update to 4.82. [build-system]: Switch to pyproject-build-system. [arguments]{tests?}: Remove to enable tests. {test-flags}: Skip missing tests. {phases}: Add 'check phase replacement. [native-inputs]: Add python-setuptools, python-wheel. --- gnu/packages/python-xyz.scm | 45 ++++++++++++++++++++++++++++++++----- 1 file changed, 40 insertions(+), 5 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index f36e5a3141..f262ccefcb 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -28438,18 +28438,53 @@ (define-public python-semver (define-public python-pyro4 (package (name "python-pyro4") - (version "4.77") + (version "4.82") (source (origin (method url-fetch) (uri (pypi-uri "Pyro4" version)) (sha256 - (base32 "0gsjg869y4gpy265s1gj1f2qy6jn5iz8r2bwwnq78r1r5yi15zib")))) - (build-system python-build-system) + (base32 "1yr1rv2afmq55wb14sx9qplzkqw7fya9rprsqdyxfbg90h45n7si")))) + (build-system pyproject-build-system) (arguments - '(#:tests? #f)) ;FIXME: Some tests require network access. + (list #:test-flags + #~(list "-k" + (string-join + ;; Those tests require network. + (list "testBCstart" + "testAutoClean" + "testDaemonPyroObj" + "testLookupAndRegister" + "testLookupInvalidHmac" + "testLookupUnixsockParsing" + "testMulti" + "testRefuseDottedNames" + "testResolve" + "testBCLookup0000" + "testPyroname" + "testResolveAsymmetricHmacUsage" + "testResolveWrongHmac" + "testStartNSfunc" + "testCustomDictClass" + "testDictClassFail" + "testBroadcast" + "testGetIP" + ;; XXX: Unclear why this test fails. + "testCustomClassFail") + " and not ")) + #:phases + #~(modify-phases %standard-phases + (replace 'check + (lambda* (#:key tests? test-flags #:allow-other-keys) + (if tests? + (apply invoke "python" "-m" "unittest" test-flags) + (format #t "test suite not run.~%"))))))) (native-inputs - (list python-cloudpickle python-dill python-msgpack)) + (list python-cloudpickle + python-dill + python-msgpack + python-setuptools + python-wheel)) (propagated-inputs (list python-serpent)) (home-page "https://pyro4.readthedocs.io") -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:16:44 +0200 Message-ID: <20250404191717.32747-12-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3479875138666619618 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpedtnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeifegmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=aHlceCsE23Hcm1UhE0aIWt5UB8XdL/vIJp7h83J5SEA=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794251; v=1; b=iPhucNbOPbtcheV/EXB5X1n4qHdXWSRXcyhdgh+G7UEpWx9xGmdI4ovcyWiJtltvfNtx257b 95IcpFgNk0AdO1rYxQuTDDzWSdk/bndqf5vxBNe/33sALYG8GOsW4N2mivIjyYE8xQd6ZSebAmV /Fln7CMj1CpQqrroEYFdGBHlo380lD7iS6SWfcOqNo33F36CyvtCBVEdHRf2NLxayCtsFrGTngq G4M2SEvGTZVsFCjTEtYLXDQYdxR9wRmpk+NlsazVkjeSOt130of6TQIaGmEN5drKTknH6NdwnYp qwilUElh6ZXMLw0FQ1Fah1jOnc1tdS1DNf8OIeul5VqsA== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-xyz.scm (python-attr): Update to 0.3.2. --- gnu/packages/python-xyz.scm | 9 +++++---- 1 file changed, 5 insertions(+), 4 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 01dfc0799f..8100b030c5 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -31373,15 +31373,16 @@ (define-public python-doctest-ignore-unicode (define-public python-attr (package (name "python-attr") - (version "0.3.1") + (version "0.3.2") (source (origin (method url-fetch) (uri (pypi-uri "attr" version)) (sha256 - (base32 - "0pbpskvxp5hzdvcaf766ljwpckshir8sf7z6jqji6zyib20594ch")))) - (build-system python-build-system) + (base32 "1x2627x0n2rxx8wib4cksbjjnncff8finq97k37dq70qd2kvrvhw")))) + (build-system pyproject-build-system) + (native-inputs + (list python-setuptools python-wheel)) (home-page "https://github.com/denis-ryzhkov/attr") (synopsis "Decorator for attributes of target function or class") (description "Simple decorator to set attributes of target function or -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[build-system]: Switch to pyproject-build-system. [native-inputs]: Add python-setuptools, python-wheel. --- gnu/packages/python-xyz.scm | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 8100b030c5..f36e5a3141 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -4368,16 +4368,16 @@ (define-public python-semantic-version (define-public python-serpent (package (name "python-serpent") - (version "1.28") + (version "1.41") (source (origin (method url-fetch) (uri (pypi-uri "serpent" version)) (sha256 - (base32 "1arnckykpkvv2qrp49l1k7q5mr5pisswl0rvdx98x8wsl1n361pk")))) - (build-system python-build-system) + (base32 "15bhxpihxvbphsvp4wyh2kwfz7xasmki9zwcsj3l6r66wdgh61q4")))) + (build-system pyproject-build-system) (native-inputs - (list python-attrs python-pytz)) + (list python-attrs python-pytz python-setuptools python-wheel)) (home-page "https://github.com/irmen/Serpent") (synopsis "Serializer for literal Python expressions") (description -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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SQF156RuR79ZgBCCMlUwr293KxFhD6+FFT3f8jDnstU4HIavDE2p/zerVJWcV7v0PrGvvVSqdnk mjOYpFCYtNXpFCZDmCNAlf9NMJVkhlo9bGcnhDDhUaZzVMaQz2I7+o6119r8/9lt0B/e1NoACkw gVOoz2/FKu3fPjff9dLG/qyiimvLstQ4FXu2cCJ2CLtBGv0fxK3v8nL6M6gySFTvTrEWEqFI1gd 9DiRB5PK3Pf0Y7v3jO6t7W5o57qNmG112UN6s9d5fXrpg== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-xyz.scm (python-property-cached): Fix build. * gnu/packages/patches/python-property-cached-asyncio-3_11.patch: Add patch. * gnu/local.mk: Record patch. --- gnu/local.mk | 1 + .../python-property-cached-asyncio-3_11.patch | 201 ++++++++++++++++++ gnu/packages/python-xyz.scm | 4 +- 3 files changed, 205 insertions(+), 1 deletion(-) create mode 100644 gnu/packages/patches/python-property-cached-asyncio-3_11.patch diff --git a/gnu/local.mk b/gnu/local.mk index 93f346481d..1bf8f8deba 100644 --- a/gnu/local.mk +++ b/gnu/local.mk @@ -2129,6 +2129,7 @@ dist_patch_DATA = \ %D%/packages/patches/python-memcached-syntax-warnings.patch \ %D%/packages/patches/python-mox3-python3.6-compat.patch \ %D%/packages/patches/python-packaging-test-arch.patch \ + %D%/packages/patches/python-property-cached-asyncio-3_11.patch \ %D%/packages/patches/python-pyan3-fix-absolute-path-bug.patch \ %D%/packages/patches/python-pyan3-fix-positional-arguments.patch \ %D%/packages/patches/python-pytorch-fix-codegen.patch \ diff --git a/gnu/packages/patches/python-property-cached-asyncio-3_11.patch b/gnu/packages/patches/python-property-cached-asyncio-3_11.patch new file mode 100644 index 0000000000..21c176947e --- /dev/null +++ b/gnu/packages/patches/python-property-cached-asyncio-3_11.patch @@ -0,0 +1,201 @@ +From d89186b47dc25c5ef5907c146edf3f792d50774b Mon Sep 17 00:00:00 2001 +Message-ID: <d89186b47dc25c5ef5907c146edf3f792d50774b.1743608515.git.ngraves@HIDDEN> +From: Nicolas Graves <ngraves@HIDDEN> +Date: Wed, 2 Apr 2025 17:29:45 +0200 +Subject: [PATCH] Update to python 3.11 + +--- + property_cached/__init__.py | 21 +++------- + tests/test_async_cached_property.py | 3 +- + tests/test_coroutine_cached_property.py | 51 ++++++++++--------------- + 3 files changed, 27 insertions(+), 48 deletions(-) + +diff --git a/property_cached/__init__.py b/property_cached/__init__.py +index 3353048..c033542 100644 +--- a/property_cached/__init__.py ++++ b/property_cached/__init__.py +@@ -3,6 +3,7 @@ import functools + import pkg_resources + import threading + import weakref ++from inspect import iscoroutinefunction + from time import time + + +@@ -31,12 +32,12 @@ class cached_property(property): + if obj is None: + return self + +- if asyncio and asyncio.iscoroutinefunction(self.func): +- return self._wrap_in_coroutine(obj) +- + value = self.cache.get(obj, self._sentinel) + if value is self._sentinel: +- value = self.cache[obj] = self.func(obj) ++ if iscoroutinefunction(self.func): ++ self.cache[obj] = value = asyncio.ensure_future(self.func(obj)) ++ else: ++ self.cache[obj] = value = self.func(obj) + + return value + +@@ -49,18 +50,6 @@ class cached_property(property): + def __delete__(self, obj): + del self.cache[obj] + +- def _wrap_in_coroutine(self, obj): +- +- @functools.wraps(obj) +- @asyncio.coroutine +- def wrapper(): +- value = self.cache.get(obj, self._sentinel) +- if value is self._sentinel: +- self.cache[obj] = value = asyncio.ensure_future(self.func(obj)) +- return value +- +- return wrapper() +- + + class threaded_cached_property(cached_property): + """ +diff --git a/tests/test_async_cached_property.py b/tests/test_async_cached_property.py +index 1af139d..32b3410 100644 +--- a/tests/test_async_cached_property.py ++++ b/tests/test_async_cached_property.py +@@ -9,8 +9,7 @@ import property_cached as cached_property + + def unittest_run_loop(f): + def wrapper(*args, **kwargs): +- coro = asyncio.coroutine(f) +- future = coro(*args, **kwargs) ++ future = f(*args, **kwargs) + loop = asyncio.get_event_loop() + loop.run_until_complete(future) + +diff --git a/tests/test_coroutine_cached_property.py b/tests/test_coroutine_cached_property.py +index 40e443b..5864301 100644 +--- a/tests/test_coroutine_cached_property.py ++++ b/tests/test_coroutine_cached_property.py +@@ -14,8 +14,7 @@ import property_cached as cached_property + + def unittest_run_loop(f): + def wrapper(*args, **kwargs): +- coro = asyncio.coroutine(f) +- future = coro(*args, **kwargs) ++ future = f(*args, **kwargs) + loop = asyncio.get_event_loop() + loop.run_until_complete(future) + +@@ -33,14 +32,12 @@ def CheckFactory(cached_property_decorator): + self.control_total = 0 + self.cached_total = 0 + +- @asyncio.coroutine +- def add_control(self): ++ async def add_control(self): + self.control_total += 1 + return self.control_total + + @cached_property_decorator +- @asyncio.coroutine +- def add_cached(self): ++ async def add_cached(self): + self.cached_total += 1 + return self.cached_total + +@@ -52,74 +49,68 @@ class TestCachedProperty(unittest.TestCase): + + cached_property_factory = cached_property.cached_property + +- @asyncio.coroutine +- def assert_control(self, check, expected): ++ async def assert_control(self, check, expected): + """ + Assert that both `add_control` and 'control_total` equal `expected` + """ +- value = yield from check.add_control() ++ value = await check.add_control() + self.assertEqual(value, expected) + self.assertEqual(check.control_total, expected) + +- @asyncio.coroutine +- def assert_cached(self, check, expected): ++ async def assert_cached(self, check, expected): + """ + Assert that both `add_cached` and 'cached_total` equal `expected` + """ + print("assert_cached", check.add_cached) +- value = yield from check.add_cached ++ value = await check.add_cached + self.assertEqual(value, expected) + self.assertEqual(check.cached_total, expected) + + @unittest_run_loop +- @asyncio.coroutine +- def test_cached_property(self): ++ async def test_cached_property(self): + Check = CheckFactory(self.cached_property_factory) + check = Check() + + # The control shows that we can continue to add 1 +- yield from self.assert_control(check, 1) +- yield from self.assert_control(check, 2) ++ await self.assert_control(check, 1) ++ await self.assert_control(check, 2) + + # The cached version demonstrates how nothing is added after the first +- yield from self.assert_cached(check, 1) +- yield from self.assert_cached(check, 1) ++ await self.assert_cached(check, 1) ++ await self.assert_cached(check, 1) + + # The cache does not expire + with freeze_time("9999-01-01"): +- yield from self.assert_cached(check, 1) ++ await self.assert_cached(check, 1) + + # Typically descriptors return themselves if accessed though the class + # rather than through an instance. + self.assertTrue(isinstance(Check.add_cached, self.cached_property_factory)) + + @unittest_run_loop +- @asyncio.coroutine +- def test_reset_cached_property(self): ++ async def test_reset_cached_property(self): + Check = CheckFactory(self.cached_property_factory) + check = Check() + + # Run standard cache assertion +- yield from self.assert_cached(check, 1) +- yield from self.assert_cached(check, 1) ++ await self.assert_cached(check, 1) ++ await self.assert_cached(check, 1) + + # Clear the cache + del check.add_cached + + # Value is cached again after the next access +- yield from self.assert_cached(check, 2) +- yield from self.assert_cached(check, 2) ++ await self.assert_cached(check, 2) ++ await self.assert_cached(check, 2) + + @unittest_run_loop +- @asyncio.coroutine +- def test_none_cached_property(self): ++ async def test_none_cached_property(self): + class Check(object): + def __init__(self): + self.cached_total = None + + @self.cached_property_factory +- @asyncio.coroutine +- def add_cached(self): ++ async def add_cached(self): + return self.cached_total + +- yield from self.assert_cached(Check(), None) ++ await self.assert_cached(Check(), None) +-- +2.49.0 + diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 46efd10292..01dfc0799f 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -11700,7 +11700,9 @@ (define-public python-property-cached (method url-fetch) (uri (pypi-uri "property-cached" version ".zip")) (sha256 - (base32 "0wxv5sdx1p7ils36j6j6hfscz8v2vzbq212i8y8r0lrnxpqlx71y")))) + (base32 "0wxv5sdx1p7ils36j6j6hfscz8v2vzbq212i8y8r0lrnxpqlx71y")) + (patches + (search-patches "python-property-cached-asyncio-3_11.patch")))) (build-system pyproject-build-system) (arguments (list -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:16:41 +0200 Message-ID: <20250404191717.32747-9-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3479030713936044770 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpedtnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeifegmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=66Sgzt2DmnR0I5i4pPLNsv3WZIJZVZcEGZYlAI2tSl0=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794248; v=1; b=tTCKH9NYqvwsLsI8+s51eNa46Q3x+JFXbY160Dhvt1VQTlyA1LQtnXETqiwO7/mIwWHlkSNs 7zxNCVAlwIOXbimTmIwqMdHPqO1wrK2GTnswFSSZjbrMLUDjlUB16XojKZ/R52f3U4Nz/ORakol ZBC1B7YdUawX0F3YjqXa2lVDYrMQaI1LWQvaZ4jF+wCXD6FIApEZOjv5R3uT8zrXoRwbJXEbt5D ronxN8U1PdVIFb/psZ1T59VT1NCmseOKDeNnxwbYFW1ydlSEFXOSfZZoOzoGyOG0ZP+Vkq7Owr9 cGca7utedl6I8Yrf0Fy//0TtrJyH5e5MXq0qAaEoHL5VA== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-science.scm (python-vaex-core): Update to 4.17.1. * gnu/packages/patches/python-vaex-core-fix-tsl-use.patch: Add patch. * gnu/local.mk: Record patch. --- gnu/local.mk | 1 + .../python-vaex-core-fix-tsl-use.patch | 67 +++++++++++++++++++ gnu/packages/python-science.scm | 44 ++++++++---- 3 files changed, 100 insertions(+), 12 deletions(-) create mode 100644 gnu/packages/patches/python-vaex-core-fix-tsl-use.patch diff --git a/gnu/local.mk b/gnu/local.mk index 18ba0073fc..93f346481d 100644 --- a/gnu/local.mk +++ b/gnu/local.mk @@ -2142,6 +2142,7 @@ dist_patch_DATA = \ %D%/packages/patches/python-robotframework-sshlibrary-rf5-compat.patch \ %D%/packages/patches/python-unittest2-python3-compat.patch \ %D%/packages/patches/python-unittest2-remove-argparse.patch \ + %D%/packages/patches/python-vaex-core-fix-tsl-use.patch \ %D%/packages/patches/python-vega-datasets-remove-la-riots-code.patch \ %D%/packages/patches/python-versioneer-guix-support.patch \ %D%/packages/patches/python-werkzeug-tests.patch \ diff --git a/gnu/packages/patches/python-vaex-core-fix-tsl-use.patch b/gnu/packages/patches/python-vaex-core-fix-tsl-use.patch new file mode 100644 index 0000000000..f4f6fc1c48 --- /dev/null +++ b/gnu/packages/patches/python-vaex-core-fix-tsl-use.patch @@ -0,0 +1,67 @@ +From 8cb8808b3ceccf4ab3ac542739ef490abe7e76b3 Mon Sep 17 00:00:00 2001 +Message-ID: <8cb8808b3ceccf4ab3ac542739ef490abe7e76b3.1743597010.git.ngraves@HIDDEN> +From: Nicolas Graves <ngraves@HIDDEN> +Date: Wed, 2 Apr 2025 14:29:40 +0200 +Subject: [PATCH] Fix tsl map use + +--- + packages/vaex-core/src/hash_string.hpp | 25 ++++++++++++++++--------- + 1 file changed, 16 insertions(+), 9 deletions(-) + +diff --git a/packages/vaex-core/src/hash_string.hpp b/packages/vaex-core/src/hash_string.hpp +index d3b60199..0ed69d1c 100644 +--- a/packages/vaex-core/src/hash_string.hpp ++++ b/packages/vaex-core/src/hash_string.hpp +@@ -39,13 +39,15 @@ class hash_base : public hash_common<Derived, T, hashmap<T, int64_t>> { + for (int i = 0; i < nmaps; i++) { + string_arrays.emplace_back(std::make_shared<StringList64>()); + StringList64 *strings = string_arrays[i].get(); +- // equal_to<string_ref>& eq = this->maps[i].key_eq(); +- this->maps[i].m_ht.strings_equals = strings; +- this->maps[i].m_ht.strings_hash = strings; ++ equal_to<key_type> eq; ++ eq.strings_equals = strings; ++ hash<key_type> h; ++ h.strings_hash = strings; ++ this->maps[i] = hashmap_type(8, h, eq); + } + }; + +- virtual std::string _get(hashmap_type &map, typename hashmap_type::key_type key) override { return map.m_ht.strings_equals->get(key.index); }; ++ virtual std::string _get(hashmap_type &map, typename hashmap_type::key_type key) override { return string_arrays[0]->get(key.index); }; + + size_t bytes_used() const { + int64_t buffer_size = 0; // collect buffer size +@@ -391,9 +393,12 @@ class ordered_set : public hash_base<ordered_set<T>, T, T, V> { + template <class SL> + static ordered_set *create(std::shared_ptr<SL> keys, int64_t null_value, int64_t nan_count, int64_t null_count, std::string *fingerprint) { + ordered_set *set = new ordered_set(1); +- set->maps[0].m_ht.strings_equals = keys.get(); +- set->maps[0].m_ht.strings_hash = keys.get(); + set->string_arrays[0] = keys; ++ equal_to<key_type> eq; ++ eq.strings_equals = keys.get(); ++ hash<key_type> h; ++ h.strings_hash = keys.get(); ++ set->maps[0] = hashmap_type(keys->length, h, eq); + { + size_t size = keys->length; + set->maps[0].reserve(size); +@@ -701,9 +706,11 @@ class index_hash : public hash_base<index_hash<T>, T, T, V> { + // string_arrays_overflow.emplace_back(std::make_shared<StringList64>()); + // for each key in overflow, it should be present in the main string array + StringList64 *strings = this->string_arrays[i].get(); +- // equal_to<string_ref>& eq = this->maps[i].key_eq(); +- overflows[i].m_ht.strings_equals = strings; +- overflows[i].m_ht.strings_hash = strings; ++ equal_to<key_type> eq; ++ eq.strings_equals = strings; ++ hash<key_type> h; ++ h.strings_hash = strings; ++ overflows[i] = overflow_type(8, h, eq); + } + } + +-- +2.49.0 + diff --git a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm index 3bf266582d..73e08fccbe 100644 --- a/gnu/packages/python-science.scm +++ b/gnu/packages/python-science.scm @@ -4097,24 +4097,44 @@ (define-public python-opt-einsum (define-public python-vaex-core (package (name "python-vaex-core") - (version "4.17.1") + (version "4.18.1") (source (origin - (method url-fetch) - (uri (pypi-uri "vaex-core" version)) + (method git-fetch) + (uri (git-reference + (url "https://www.github.com/maartenbreddels/vaex") + (commit (string-append "core-v" version)))) + (file-name (git-file-name name version)) (sha256 - (base32 "1rzx5px3fwi5mh1z8y91brvffk7dkhj287lnmqp8zp6836kkqhya")) - (modules '((guix build utils))) + (base32 "1sp096msbzgjlwi8c1ink2bp4pjff9pvikqz1y1li8d3in4gpgdr")) + (patches + (search-patches "python-vaex-core-fix-tsl-use.patch")) + (modules '((guix build utils) + (ice-9 ftw))) (snippet - ;; Remove bundled libraries - '(for-each delete-file-recursively - (list "vendor/boost" - "vendor/pcre" - "vendor/pybind11"))))) + #~(begin + ;; Delete everything except for vaex-core itself: + (define (delete-except exception) + (lambda (file) + (unless (member file `("." ".." ,exception)) + (delete-file-recursively file)))) + (for-each (delete-except "packages") (scandir ".")) + (with-directory-excursion "packages" + (for-each (delete-except "vaex-core") (scandir "."))) + (for-each (lambda (file) + (unless (member file '("." "..")) + (rename-file + (string-append "packages/vaex-core/" file) + file))) + (scandir "packages/vaex-core")) + (delete-file-recursively "packages") + (delete-file-recursively "vendor"))))) (build-system pyproject-build-system) - (arguments (list #:tests? #false)) ;require vaex.server and others, which require vaex-core. + (arguments + ;; require vaex.server and others, which require vaex-core. + (list #:tests? #false)) (inputs - (list boost pcre pybind11-2.3)) + (list boost pcre pybind11 string-view-lite tsl-hopscotch-map)) (propagated-inputs (list python-aplus python-blake3 -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:16:40 +0200 Message-ID: <20250404191717.32747-8-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3478749237482808034 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepleffjeetueethfefkeffffefvddukeejkefgleduiedthfekvefhiedvhfffgeegnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgepudenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehieefmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=pWmUJcn+pDxzrmhUDElIva61tu1JUjT4UFBsL/bCOkY=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794247; v=1; b=mIF5yVyaeo7cMhpepy3dafilfMKGL4vkT7xdOyCV/N7/NT0FMh529pBQtnKw12O8qnR5t+J0 5v2uXKfgf7HJ+ajxGvrnZkANrIi+tcN97Olt3uBTawifQRm3xDq7Q+DVYHwbR4fnbYmG1hRvw16 dvTs1iHLBsY9xrFzSam636Q/yOkflK07kbdEkeC7M8i21U62eVSD1m/z0XmdiZsr6HbaPExLsiv IzOLCsmXubJuaoYBjGOVhKRXl9WnouZ4q2pgymPXcOEXtK3D5MEM6oee3O4cbMdJR/0CZDlW+nq kbiXYp6ee/GtHxKr7Wg2MplpdLYmCw5ULq7SmvuIzc78w== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-science.scm (python-pytensor): Update to 2.30.1. [arguments]{test-flags}: Use field. {phases}: Remove 'check phase replacement. Add phase 'pre-check. --- gnu/packages/python-science.scm | 43 +++++++++++++++++---------------- 1 file changed, 22 insertions(+), 21 deletions(-) diff --git a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm index 49e46f7ff3..3bf266582d 100644 --- a/gnu/packages/python-science.scm +++ b/gnu/packages/python-science.scm @@ -2465,7 +2465,7 @@ (define-public python-xarray-schema (define-public python-pytensor (package (name "python-pytensor") - (version "2.18.1") + (version "2.30.1") (source (origin (method git-fetch) (uri (git-reference @@ -2474,10 +2474,28 @@ (define-public python-pytensor (file-name (git-file-name name version)) (sha256 (base32 - "0qa0y13xfm6w7ry7gp0lv84c8blyg34a9ns7ynwqyhf9majq08s5")))) + "008ivcrab9j256mcrfrcd1xlkq5qicsx97wqaxaxwk1ynnmxdqbn")))) (build-system pyproject-build-system) (arguments (list + #:test-flags + #~(list ;; test_tensor_basic.py file requires JAX. + "--ignore" "tests/link/jax/test_tensor_basic.py" + ;; No module named 'pytensor.scan.scan_perform' + "--ignore" "pytensor/scan/scan_perform_ext.py" + ;; Skip benchmark tests. + "-k" (string-append + "not test_elemwise_speed" + " and not test_logsumexp_benchmark" + " and not test_fused_elemwise_benchmark" + " and not test_scan_multiple_output" + " and not test_vector_taps_benchmark" + " and not test_cython_performance") + ;; Skip computationally intensive tests. + "--ignore" "tests/scan/" + "--ignore" "tests/tensor/" + "--ignore" "tests/sandbox/" + "--ignore" "tests/sparse/sandbox/") #:phases #~(modify-phases %standard-phases ;; Replace version manually because pytensor uses @@ -2499,27 +2517,10 @@ (define-public python-pytensor (substitute* "setup.py" (("versioneer.get_version\\(\\)") (string-append "\"" #$version "\""))))) - (replace 'check + (add-before 'check 'pre-check (lambda* (#:key tests? #:allow-other-keys) (when tests? - (setenv "HOME" "/tmp") ; required for most tests - ;; Test discovery fails, have to call pytest by hand. - ;; test_tensor_basic.py file requires JAX. - (invoke "python" "-m" "pytest" "-vv" - "--ignore" "tests/link/jax/test_tensor_basic.py" - ;; Skip benchmark tests. - "-k" (string-append - "not test_elemwise_speed" - " and not test_logsumexp_benchmark" - " and not test_fused_elemwise_benchmark" - " and not test_scan_multiple_output" - " and not test_vector_taps_benchmark" - " and not test_cython_performance") - ;; Skip computationally intensive tests. - "--ignore" "tests/scan/" - "--ignore" "tests/tensor/" - "--ignore" "tests/sandbox/" - "--ignore" "tests/sparse/sandbox/"))))))) + (setenv "HOME" "/tmp"))))))) ; required for most tests (native-inputs (list python-cython python-pytest python-pytest-mock -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:16:39 +0200 Message-ID: <20250404191717.32747-7-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3478467765694816994 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepvdehleeiffehtedvlefhffffjeefgfduhfetkeevheeiteduiedugfekuedtheejnecuffhomhgrihhnpehgihhthhhusgdrtghomhenucfkphepuddvjedrtddrtddruddpledtrdelvddruddujedrudeggeenucevlhhushhtvghrufhiiigvpedtnecurfgrrhgrmhepihhnvghtpeduvdejrddtrddtrddupdhmrghilhhfrhhomhepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdhnsggprhgtphhtthhopedvpdhrtghpthhtohepjeejheegudesuggvsggsuhhgshdrghhnuhdrohhrghdprhgtphhtthhopehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpoffvtefjohhsthepmhhoheeifegmpdhmohguvgepshhmthhpohhuth DKIM-Signature: a=rsa-sha256; bh=pbRqSqtN8FffvXKBbMvUI2lobhqwLNPky70iA+BquNg=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794247; v=1; b=QRZllu9vLvEfylBl8dElbZdY+WiNFEUCOB7W5FF7aLVd7eydAES3JrdbKlZdk4+mQdrV8V78 DXXJ8/wY8Ucs2i44aIqpchVDHD2aScjw+oSIBNHoNfeo4yauEVVdguXDWFdQN2teIY/CTG3znEX VR2keo+gdKcq72v/CH5hkHNKzc5gmKsLMwPy9i9iuNpnaMQbKI6DGWCYbkMhmQoNfEyGmZSkZF5 GH37HFjgjy6/cnvHbTok8AWNzYjWMESDlUyP0Q/LywHfXYyaTOk2r63uAsF7729AhrGgaiDJobR d8g9U2sAOFggx4icuc2DmLV1bKpFRCm1YJ2Zx3lr6Emcg== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/cpp.scm (string-view-lite): New variable. --- gnu/packages/cpp.scm | 20 ++++++++++++++++++++ 1 file changed, 20 insertions(+) diff --git a/gnu/packages/cpp.scm b/gnu/packages/cpp.scm index 4c645f0f9d..7d0135044a 100644 --- a/gnu/packages/cpp.scm +++ b/gnu/packages/cpp.scm @@ -3795,6 +3795,26 @@ (define-public nativefiledialog-extended \"source files\" or \"image files\") where supported.") (license license:zlib))) +(define-public string-view-lite + (package + (name "string-view-lite") + (version "1.8.0") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/martinmoene/string-view-lite") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1mfp3lmqx7ac0545akxd2v05rrapa3byz8q4gb9rqy94pcqbfyc5")))) + (build-system cmake-build-system) + (home-page "https://github.com/martinmoene/string-view-lite") + (synopsis "C++17 string-view for older C++") + (description "This package provides a compatibility header-only library +for C++17 string-view.") + (license license:boost1.0))) + (define-public tsl-hopscotch-map (package (name "tsl-hopscotch-map") -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:16:38 +0200 Message-ID: <20250404191717.32747-6-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3478186289878983394 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdehucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepleffjeetueethfefkeffffefvddukeejkefgleduiedthfekvefhiedvhfffgeegnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehiedvmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=v1pfKyCJqjnjYyK1z0/yaTPFlcWIH6+xxgyKrZViaHE=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794245; v=1; b=V9oz/pRXHNfrl2IspBDOYIUSMRvke8lT4v7c0Q8FOaPzltajoPulZjroNyJME9La3yTyKACr 5BOTmxcl7p4opCyWeqPcuhOkzkia8ag/rBEN1N2wjQ3v2DjaFGCe3GlsFlfbLnk2iBUtbiPJF+r 5j+W88CkZmTtAhqf8CyrhXR3f6xWGS9cZUcfP6jA2Me1n29mfUjctPRytTJggQLcD6sMQPhcrw4 vUefd9rFWPOl+T5fmxurVkm+IprdUSWRakwl6fuSiOYCr1jGAiU003qKIjNkYceoARQjDur0bTt wiLwIOZlpx1a3ur56Rkt9biUG0vWDpP4NdmvwGxEj9sCQ== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/machine-learning.scm (python-pytroch-geometric): [arguments]{test-flags}: Skip test_type_repr failing test. --- gnu/packages/machine-learning.scm | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm index e7923bd503..fb1d5d2eed 100644 --- a/gnu/packages/machine-learning.scm +++ b/gnu/packages/machine-learning.scm @@ -5399,7 +5399,10 @@ (define-public python-pytorch-geometric ;; These refuse to be run on CPU and really want a GPU " and not test_add_random_walk_pe" " and not test_asap" - " and not test_two_hop")) + " and not test_two_hop" + ;; Failed when switched to python@HIDDEN + ;; typing module internals + " and not test_type_repr")) #:phases '(modify-phases %standard-phases (add-after 'unpack 'delete-top-level-directories -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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Date: Fri, 4 Apr 2025 21:16:36 +0200 Message-ID: <20250404191717.32747-4-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3477623341024797410 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdehucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepleffjeetueethfefkeffffefvddukeejkefgleduiedthfekvefhiedvhfffgeegnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehiedvmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=FKlXzC6r0eYKiFWW+0Ds2RtLFfA0sKYzLGLS8sepJ5c=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794243; v=1; b=OFnVTqAHnnt4a4NHA8G4FK8QZ8Tae3wDFhTi7UMnIqK/GDm40+6zZ+UAgVOko9NmPrkQ72Pu NCdlz48sdi2nHGVASdDuVZX3U1KvXbt7KoO0tSWtoVUm068JsRWzaqLFvUoGdDrr9ZuWYQTs+nw 54xujocQ8peqo2QYdP/Q6iA4t5rRnzPdKjjocpNw+wfbSBWRhaA96dwxaul0tb7r/P8TH2iL2LP 68FvDZjzXKA41ncuUj/prea4lubzDW8WSIR15gPxotgpTy9Xr7lI2Nymao8By0pGp4DCwMvU9pa I9HUsDueKFhEEXSxhA1c2uAe/d+206xg4ZYAuXtNWN8DQ== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/python-xyz.scm (autokey)[native-inputs]: Add python-wheel. --- gnu/packages/python-xyz.scm | 6 +++++- 1 file changed, 5 insertions(+), 1 deletion(-) diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 12d6800a1c..4abe04007d 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -7938,7 +7938,11 @@ (define-public autokey (setenv "LANG" "") ;; required for tests/test_configmanager.py (setenv "HOME" "/tmp")))))) - (native-inputs (list python-pytest python-pytest-cov python-pyhamcrest)) + (native-inputs + (list python-pytest + python-pytest-cov + python-pyhamcrest + python-wheel)) (inputs (list bash-minimal ; for wrap-program gtksourceview-3 -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
Full text available.Received: (at 77541) by debbugs.gnu.org; 4 Apr 2025 19:17:27 +0000 From debbugs-submit-bounces <at> debbugs.gnu.org Fri Apr 04 15:17:27 2025 Received: from localhost ([127.0.0.1]:39988 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from <debbugs-submit-bounces <at> debbugs.gnu.org>) id 1u0mXe-0007Di-PD for submit <at> debbugs.gnu.org; Fri, 04 Apr 2025 15:17:27 -0400 Received: from 8.mo562.mail-out.ovh.net ([46.105.60.65]:53803) by debbugs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.84_2) (envelope-from <ngraves@HIDDEN>) id 1u0mXb-0007Cu-HR for 77541 <at> debbugs.gnu.org; Fri, 04 Apr 2025 15:17:24 -0400 Received: from director1.derp.mail-out.ovh.net (director1.derp.mail-out.ovh.net [51.68.80.175]) by mo562.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpJf14bHz1dFy; Fri, 4 Apr 2025 19:17:22 +0000 (UTC) Received: from director1.derp.mail-out.ovh.net (director1.derp.mail-out.ovh.net. [127.0.0.1]) by director1.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:21 +0000 (UTC) Received: from mta3.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.109.140.109]) by director1.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpJd6WXXzHZcS; Fri, 4 Apr 2025 19:17:21 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.7]) by mta3.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 60B1C3A3EA6; Fri, 4 Apr 2025 19:17:21 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-96R00136b9f35e-d399-4b92-985f-50cff2b204fc, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 03/38] gnu: scregseg: Add missing native-inputs. Date: Fri, 4 Apr 2025 21:16:35 +0200 Message-ID: <20250404191717.32747-3-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3477060388044071650 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdehucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepleffjeetueethfefkeffffefvddukeejkefgleduiedthfekvefhiedvhfffgeegnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehiedvmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=9B1UkN5neWXj2PKIdsZ30RJhsI1yN0mbnxCQuPNE4kA=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794242; v=1; b=Z0Q5wnJp892Rq1JaONUfcWATkSTsAeNKRwnkz9ND/9Ty78ubFwckzxg/mspt3wysDbcaI5rp zwqTFqr3sZQ+LoeND7qKtf/IeMgmvBi8t8WEEfnMhARJVN9i3uCYdAbnG1hvVXH0EgyTnRmvw/W JwJzqNyo7l3FRUA8WAvXnsNY91/vCrpCXUyMbqQh+Bgan6G1277L7CfM89fIc4ZpqQLl5B714Zq +yG/jJRl2jvgMq81bpkVVckzu/oxlB4YZ24OKg9680YQiTY1YgXaBLqjHXwTQeobPfzHRC2/bv7 t2hZP7Gc0jhnXDIW8pnTUGXmCML1E92HzqN3dIDiDZokg== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/bioinformatics.scm (scregseg)[native-inputs]: Add python-wheel. --- gnu/packages/bioinformatics.scm | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index e7685faf02..804cf057e2 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -24241,7 +24241,8 @@ (define-public scregseg (substitute* "setup.py" (("'sklearn',") ""))))))) (native-inputs - (list python-cython)) + (list python-cython + python-wheel)) (propagated-inputs (list python-scikit-learn python-scipy -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
Full text available.Received: (at 77541) by debbugs.gnu.org; 4 Apr 2025 19:17:25 +0000 From debbugs-submit-bounces <at> debbugs.gnu.org Fri Apr 04 15:17:25 2025 Received: from localhost ([127.0.0.1]:39984 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from <debbugs-submit-bounces <at> debbugs.gnu.org>) id 1u0mXd-0007DM-6X for submit <at> debbugs.gnu.org; Fri, 04 Apr 2025 15:17:25 -0400 Received: from 5.mo563.mail-out.ovh.net ([46.105.53.64]:39143) by debbugs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.84_2) (envelope-from <ngraves@HIDDEN>) id 1u0mXa-0007Cp-9b for 77541 <at> debbugs.gnu.org; Fri, 04 Apr 2025 15:17:22 -0400 Received: from director4.derp.mail-out.ovh.net (director4.derp.mail-out.ovh.net [79.137.60.37]) by mo563.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpJc5Nzsz1VQM; Fri, 4 Apr 2025 19:17:20 +0000 (UTC) Received: from director4.derp.mail-out.ovh.net (director4.derp.mail-out.ovh.net. [127.0.0.1]) by director4.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:20 +0000 (UTC) Received: from mta7.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.108.2.66]) by director4.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpJc54fWzyFv; Fri, 4 Apr 2025 19:17:20 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.5]) by mta7.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 2F6B9C3960; Fri, 4 Apr 2025 19:17:20 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-95G0011f3397cc-51ee-4cee-afc0-e9b904fe7bca, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 02/38] gnu: labelme: Add missing native-inputs. Date: Fri, 4 Apr 2025 21:16:34 +0200 Message-ID: <20250404191717.32747-2-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 In-Reply-To: <20250404191717.32747-1-ngraves@HIDDEN> References: <20250404191717.32747-1-ngraves@HIDDEN> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3476778913118216930 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffojghfggfgsedtkeertdertddtnecuhfhrohhmpefpihgtohhlrghsucfirhgrvhgvshcuoehnghhrrghvvghssehnghhrrghvvghsrdhfrheqnecuggftrfgrthhtvghrnhepleffjeetueethfefkeffffefvddukeejkefgleduiedthfekvefhiedvhfffgeegnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehieefmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=um7mAO6RWwOmElmn4ukPN8wWm+DJbkJ2Bm0uVlsr92Q=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794240; v=1; b=Ine4znHd/QRtbo7bhAgDXNHm+TyoFM/60Pk5tuTo8CrPpo2LrBZ809GFUhnikpqgfoKW0Dhy KvzknDWAVswz1/vyKmcJ3nbZ4qTDwMq8CylVsRT1mjC73pCoLxQDmGVulZY7XMq+xIVrdP2ftAK 9STgUD9y0MummK6GjbaSX5dODRTNursTCzTLbR7rY7UxR66t22addUSdkzAdjFzLIhfMRSZ5uAl tK0RsPE1qs2Lisfs/FbE03GEc1/uAVjmLYKljQk40fT7UNpTZaStY9geLJTwFkMUcsMprAFSQUX PouQRJlhL3Y0B/uYcdnoqOvxkA2PHARD0MG4q0aXPfOsQ== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/image-processing.scm (labelme)[native-inputs]: Add python-wheel. --- gnu/packages/image-processing.scm | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/gnu/packages/image-processing.scm b/gnu/packages/image-processing.scm index 296dec738a..5a3e6f69ef 100644 --- a/gnu/packages/image-processing.scm +++ b/gnu/packages/image-processing.scm @@ -1845,7 +1845,8 @@ (define-public labelme (native-inputs (list python-pytest python-pytest-qt - xorg-server-for-tests)) + xorg-server-for-tests + python-wheel)) (propagated-inputs (list python-imgviz python-matplotlib -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
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[127.0.0.1]) by director4.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <77541 <at> debbugs.gnu.org>; Fri, 4 Apr 2025 19:17:19 +0000 (UTC) Received: from mta6.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.110.168.168]) by director4.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTpJb3N2ZzyD4; Fri, 4 Apr 2025 19:17:19 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.4]) by mta6.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 12918D43D38; Fri, 4 Apr 2025 19:17:19 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-110S0044dec632e-4935-4604-b00c-e4e3b7dda108, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: 77541 <at> debbugs.gnu.org Subject: [PATCH 01/38] gnu: Add clipper2. Date: Fri, 4 Apr 2025 21:16:33 +0200 Message-ID: <20250404191717.32747-1-ngraves@HIDDEN> X-Mailer: git-send-email 2.49.0 MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Ovh-Tracer-Id: 3476497439615869666 X-VR-SPAMSTATE: OK X-VR-SPAMSCORE: 0 X-VR-SPAMCAUSE: gggruggvucftvghtrhhoucdtuddrgeefvddrtddtgdduledvvdeiucetufdoteggodetrfdotffvucfrrhhofhhilhgvmecuqfggjfdpvefjgfevmfevgfenuceurghilhhouhhtmecuhedttdenucenucfjughrpefhvfevufffkffogggtgfesthekredtredtjeenucfhrhhomheppfhitgholhgrshcuifhrrghvvghsuceonhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrqeenucggtffrrghtthgvrhhnpeelueehgfevfeevhffftdetgedugeevveehteeileeuueejhfegffetteffhffhvdenucffohhmrghinhepghhithhhuhgsrdgtohhmnecukfhppeduvdejrddtrddtrddupdeltddrledvrdduudejrddugeegnecuvehluhhsthgvrhfuihiivgeptdenucfrrghrrghmpehinhgvthepuddvjedrtddrtddruddpmhgrihhlfhhrohhmpehnghhrrghvvghssehnghhrrghvvghsrdhfrhdpnhgspghrtghpthhtohepvddprhgtphhtthhopeejjeehgeduseguvggssghughhsrdhgnhhurdhorhhgpdhrtghpthhtohepnhhgrhgrvhgvshesnhhgrhgrvhgvshdrfhhrpdfovfetjfhoshhtpehmohehieefmgdpmhhouggvpehsmhhtphhouhht DKIM-Signature: a=rsa-sha256; bh=JAPz8HAQStx6rSFaHJsrG69AtX1J5SS9Eoh+b1DvRX8=; c=relaxed/relaxed; d=ngraves.fr; h=From; s=ovhmo4487190-selector1; t=1743794239; v=1; b=jrz9NYrnxPIWmQEOQX6xDO5DH/nB+m3/51z3YOJ93mFjODUkR91LKRKwS2xCIMtjeRjaAshQ UHYLZgEf/JsnSJNFzAt8AJ3cJyQQGSDd1ceudkuT4AgQ6XP6kUNWoCOsVMuADD3Jl7mWmCuAaMO 9lCTnBS16NwMQXSoMiN4DfCS6EWbOGFaIEFbpWy8gic4AMxJNUGElmafHM/nKv8v3Eq3ap+i3b1 dkNxg83YsI5iHdQBYs9EulKaZeqGWxHY0dTwTua9Sq6MZfS1+9LD2CW4dGRaDeimrbMcjwAV0BJ iMm/nRZFjioZp4jTmuu+nKf6wHXJBbeJrYpBDD1Va/h3A== X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 77541 Cc: Nicolas Graves <ngraves@HIDDEN> X-BeenThere: debbugs-submit <at> debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: <debbugs-submit.debbugs.gnu.org> List-Unsubscribe: <https://debbugs.gnu.org/cgi-bin/mailman/options/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=unsubscribe> List-Archive: <https://debbugs.gnu.org/cgi-bin/mailman/private/debbugs-submit/> List-Post: <mailto:debbugs-submit <at> debbugs.gnu.org> List-Help: <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=help> List-Subscribe: <https://debbugs.gnu.org/cgi-bin/mailman/listinfo/debbugs-submit>, <mailto:debbugs-submit-request <at> debbugs.gnu.org?subject=subscribe> Errors-To: debbugs-submit-bounces <at> debbugs.gnu.org Sender: "Debbugs-submit" <debbugs-submit-bounces <at> debbugs.gnu.org> X-Spam-Score: -1.0 (-) * gnu/packages/cpp.scm (clipper2): New variable. --- gnu/packages/cpp.scm | 35 +++++++++++++++++++++++++++++++++++ 1 file changed, 35 insertions(+) diff --git a/gnu/packages/cpp.scm b/gnu/packages/cpp.scm index a102a5d468..4c645f0f9d 100644 --- a/gnu/packages/cpp.scm +++ b/gnu/packages/cpp.scm @@ -44,6 +44,7 @@ ;;; Copyright © 2024 Jakob Kirsch <jakob.kirsch@HIDDEN> ;;; Copyright © 2025 Sharlatan Hellseher <sharlatanus@HIDDEN> ;;; Copyright © 2025 Sergio Pastor Pérez <sergio.pastorperez@HIDDEN> +;;; Copyright © 2025 Nicolas Graves <ngraves@HIDDEN> ;;; ;;; This file is part of GNU Guix. ;;; @@ -2620,6 +2621,40 @@ (define-public clipper The library is based on Vatti's clipping algorithm.") (license license:boost1.0))) +(define-public clipper2 + (package + (inherit clipper) + (name "clipper2") + (version "1.5.2") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/AngusJohnson/Clipper2") + (commit (string-append "Clipper2_" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1w8cmx712k45cb8gh9dakmbmybiwdx8c0b45mwpcldywx2lwxi2j")) + (modules '((guix build utils))) + (snippet #~(for-each + delete-file-recursively + '("CSharp" "DLL" "Delphi"))))) + (build-system cmake-build-system) + (arguments + (list + #:configure-flags + #~(list "-DUSE_EXTERNAL_GTEST=ON" + "-DCLIPPER2_EXAMPLES=OFF") + #:phases #~(modify-phases %standard-phases + (add-after 'unpack 'chdir + (lambda _ + (chdir "CPP")))))) + (native-inputs (list googletest)) + (home-page "https://github.com/AngusJohnson/Clipper2") + (description + (string-append (package-description clipper) "\ +Note: This package is a major update of the original clipper library.")))) + (define-public pcg-cpp (let ((commit "ffd522e7188bef30a00c74dc7eb9de5faff90092") (revision "2")) -- 2.49.0
guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
Full text available.Nicolas Graves <ngraves@HIDDEN>
to control <at> debbugs.gnu.org
.
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[127.0.0.1]) by director3.derp.mail-out.ovh.net (inspect_sender_mail_agent) with SMTP for <guix-patches@HIDDEN>; Fri, 4 Apr 2025 19:10:02 +0000 (UTC) Received: from mta6.priv.ovhmail-u1.ea.mail.ovh.net (unknown [10.110.188.32]) by director3.derp.mail-out.ovh.net (Postfix) with ESMTPS id 4ZTp8B6r8Dz86Jk; Fri, 4 Apr 2025 19:10:02 +0000 (UTC) Received: from ngraves.fr (unknown [10.1.6.4]) by mta6.priv.ovhmail-u1.ea.mail.ovh.net (Postfix) with ESMTPSA id 863BCD43D38; Fri, 4 Apr 2025 19:10:02 +0000 (UTC) Authentication-Results: garm.ovh; auth=pass (GARM-114S008a563d658-17d0-47d3-855f-b548a7b28b56, 5C763BAE2B049B0552D0CEA89988AE409CD35AAA) smtp.auth=ngraves@HIDDEN X-OVh-ClientIp: 90.92.117.144 From: Nicolas Graves <ngraves@HIDDEN> To: guix-patches@HIDDEN Subject: [PATCH 01/38] gnu: Add clipper2. 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(license license:boost1.0))) +(define-public clipper2 + (package + (inherit clipper) + (name "clipper2") + (version "1.5.2") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/AngusJohnson/Clipper2") + (commit (string-append "Clipper2_" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1w8cmx712k45cb8gh9dakmbmybiwdx8c0b45mwpcldywx2lwxi2j")) + (modules '((guix build utils))) + (snippet #~(for-each + delete-file-recursively + '("CSharp" "DLL" "Delphi"))))) + (build-system cmake-build-system) + (arguments + (list + #:configure-flags + #~(list "-DUSE_EXTERNAL_GTEST=ON" + "-DCLIPPER2_EXAMPLES=OFF") + #:phases #~(modify-phases %standard-phases + (add-after 'unpack 'chdir + (lambda _ + (chdir "CPP")))))) + (native-inputs (list googletest)) + (home-page "https://github.com/AngusJohnson/Clipper2") + (description + (string-append (package-description clipper) "\ +Note: This package is a major update of the original clipper library.")))) + (define-public pcg-cpp (let ((commit "ffd522e7188bef30a00c74dc7eb9de5faff90092") (revision "2")) -- 2.49.0
Nicolas Graves <ngraves@HIDDEN>
:guix-patches@HIDDEN
.
Full text available.guix-patches@HIDDEN
:bug#77541
; Package guix-patches
.
Full text available.
GNU bug tracking system
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