From unknown Sat Jun 21 03:24:31 2025 X-Loop: help-debbugs@gnu.org Subject: [bug#63976] [PATCH] gnu: Add python-mudata. Resent-From: Navid Afkhami Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 09 Jun 2023 14:57:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 63976 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 63976@debbugs.gnu.org Cc: Navid Afkhami X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.168632261417450 (code B ref -1); Fri, 09 Jun 2023 14:57:01 +0000 Received: (at submit) by debbugs.gnu.org; 9 Jun 2023 14:56:54 +0000 Received: from localhost ([127.0.0.1]:60024 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1q7dXq-0004XM-9e for submit@debbugs.gnu.org; Fri, 09 Jun 2023 10:56:54 -0400 Received: from lists.gnu.org ([209.51.188.17]:49024) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1q7dXo-0004XE-GU for submit@debbugs.gnu.org; Fri, 09 Jun 2023 10:56:53 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1q7dXo-0008WS-A0 for guix-patches@gnu.org; Fri, 09 Jun 2023 10:56:52 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1q7dXk-0001uI-Fw for guix-patches@gnu.org; Fri, 09 Jun 2023 10:56:52 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1686322603; x=1688137004; bh=h53vGqzbnWi53ur ZCbDtgiCip0Czot2U6hRZNPJKVAg=; b=XGsP9xSX+UsivxZIfXxWXYCshfFI0dH qUW0UJN97+Ly4MGiOUPX6SAF1LsC4wjH/BN8AClBWZ/QSgyzGCPM6n1nM4eSk8HH IV0hG6ahtnOpj7tUcRGSa6l0xzrADLGtnud7xtFg4NRnffC5B1NWre3RneX2iSQD 6Dq3od7JZWk4= Received-SPF: Pass (mailfrom) identity=mailfrom; client-ip=141.80.113.62; helo=sw-it-p-ex4.mdc-berlin.net; envelope-from=navid.afkhami@mdc-berlin.de; receiver= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 9A83CA0150 for ; Fri, 9 Jun 2023 16:56:43 +0200 (CEST) Received: from localhost (141.80.218.27) by SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.23; Fri, 9 Jun 2023 16:56:42 +0200 From: Navid Afkhami Date: Fri, 9 Jun 2023 16:56:34 +0200 Message-ID: X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.218.27] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27682.000 X-TM-AS-Result: No-10--4.219300-5.000000 X-TMASE-MatchedRID: 4RK2gbhxGJN6fjezFKxXHArcxrzwsv5uwTlc9CcHMZerwqxtE531VCG+ Taaivvuao9+2xsWE9+wue6riVYm/hx1hN+DNBjvOa87CDXaKRVILwteD+QnyUBHfiujuTbedJEb gebEoSmWvN2rU6V+OPJWCr3WEl10zKgAlgjPhYpbdCok3ibXlQeuLFZZYlisfHxPMjOKY7A+6vV BUUydJCsRB0bsfrpPI34T9cYMsdwzkTAiZtubkTDgtFzJtcmuDC3IybDNfT4piZyhpNcAIAVwNQ Oi6br6xxqbLSW17ofDMHyZfCjBavtl0mSf2oktoOdDctFlYYn1riwk488+qotqkGs/LBEZa8EFY CHVRuBROWg+GSIftMY4TDtwwKftL X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--4.219300-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27682.000 X-TM-SNTS-SMTP: 8C84AA66ED2FBD6FCA0FAEFC64C791FCEE4BB82D0A51E046F011666B2099118D2002:F Received-SPF: pass client-ip=194.95.232.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=a2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001, T_SCC_BODY_TEXT_LINE=-0.01 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.4 (-) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.4 (--) * gnu/packages/bioinformatics.scm (python-mudata): New variable. --- gnu/packages/bioinformatics.scm | 26 ++++++++++++++++++++++++++ 1 file changed, 26 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 1caea80f86..13ae47d858 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3352,6 +3352,32 @@ (define-public python-mofax models trained with MOFA+ in Python.") (license license:expat)))) +(define-public python-mudata + (let ((commit "392f5464135d687fe64bc571d35cbf557b796ff0") + (revision "0")) + (package + (name "python-mudata") + (version (git-version "0.2.3" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/scverse/mudata") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "02h0k1q57589r0hdv8nwg1vk7g2ljvn5g66c47fy5gdilbm3gjws")))) + (build-system pyproject-build-system) + (propagated-inputs (list python-anndata python-h5py python-pandas python-flit-core)) + (native-inputs (list python-numpy python-pytest python-zarr)) + (home-page "https://github.com/scverse/mudata") + (synopsis "Python package for multi-omics data analysis") + (description + "Mudata is a Python package for multi-omics data analysis. +It is designed to provide functionality to load, process, and store +multimodal omics data.") + (license license:bsd-3)))) + (define-public python-pyega3 (package (name "python-pyega3") base-commit: dd587a4fefbd8841f609910af36e13aa890781b7 prerequisite-patch-id: c5352e197d46cff8e37f0ff85044983c550a9663 -- 2.34.1 From unknown Sat Jun 21 03:24:31 2025 MIME-Version: 1.0 X-Mailer: MIME-tools 5.505 (Entity 5.505) X-Loop: help-debbugs@gnu.org From: help-debbugs@gnu.org (GNU bug Tracking System) To: Navid Afkhami Subject: bug#63976: closed ([PATCH] gnu: Add python-mudata.) Message-ID: References: <87cz24oen0.fsf@elephly.net> X-Gnu-PR-Message: they-closed 63976 X-Gnu-PR-Package: guix-patches X-Gnu-PR-Keywords: patch Reply-To: 63976@debbugs.gnu.org Date: Fri, 09 Jun 2023 15:11:02 +0000 Content-Type: multipart/mixed; boundary="----------=_1686323462-19124-1" This is a multi-part message in MIME format... ------------=_1686323462-19124-1 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset="utf-8" Your bug report #63976: [PATCH] gnu: Add python-mudata. which was filed against the guix-patches package, has been closed. The explanation is attached below, along with your original report. If you require more details, please reply to 63976@debbugs.gnu.org. --=20 63976: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D63976 GNU Bug Tracking System Contact help-debbugs@gnu.org with problems ------------=_1686323462-19124-1 Content-Type: message/rfc822 Content-Disposition: inline Content-Transfer-Encoding: 7bit Received: (at 63976-done) by debbugs.gnu.org; 9 Jun 2023 15:10:38 +0000 Received: from localhost ([127.0.0.1]:60091 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1q7dl7-0004xq-NE for submit@debbugs.gnu.org; Fri, 09 Jun 2023 11:10:37 -0400 Received: from sender3-of-o57.zoho.com ([136.143.184.57]:21749) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1q7dl5-0004xh-Vp for 63976-done@debbugs.gnu.org; Fri, 09 Jun 2023 11:10:36 -0400 ARC-Seal: i=1; a=rsa-sha256; t=1686323433; cv=none; d=zohomail.com; s=zohoarc; b=HgzgjBFzuh1v84ninO1QectdEnTB3g2RuQV2XQ+3MqG5+hrex5C4N9hRD+hJPru+5MpbetkLS8X7sO+hF8nyWZPqobaQrRY6uTX3u/sEvceb96JoYAHn0JtOYT8qzJ++f/qcGo1gWovAFCIXuGvjR+2pbwiwTq9zye4yVO3vzEg= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1686323433; h=Content-Type:Date:From:MIME-Version:Message-ID:Subject:To; bh=6VlF254bxV00b01N4qbd3o+m59InWxICblBL4f5l27Q=; b=Vcu0bb+v9IjUsvTAgMtmhMEC2ouUzO49rUpmiWfSUPo89xDR3xq4QaAzUHBGiD2xR9HMJjezXsrldq274v1yKSj27iloy1/5irMlteMWAaVWfqFDuwfs04YQArpXVTtUQjDhGy6ykTkNdda9i99ScK1OkU1dCBe5f0dsJYMUT78= ARC-Authentication-Results: i=1; mx.zohomail.com; dkim=pass header.i=elephly.net; spf=pass smtp.mailfrom=rekado@elephly.net; dmarc=pass header.from= DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; t=1686323433; s=zoho; d=elephly.net; i=rekado@elephly.net; h=From:From:To:To:Subject:Subject:Date:Date:Message-ID:MIME-Version:Content-Type:Message-Id:Reply-To:Cc; bh=6VlF254bxV00b01N4qbd3o+m59InWxICblBL4f5l27Q=; b=FP8maeZ+T3cRDNXECJirZYWo+VF4F4JWh5E+Zjyr5uf/gjOMJQ8gEy8VIa/ztuis jueOLfQr3PEaeC2L2Igyf4kyVFP/EhksU2bqVlU40lUZIiV0Kbfm7GlzOgnBWFxwm3B 5m8El1+djXCLMMwqF+PpBLWcsJm06eiGLVPIKCDE= Received: from localhost (78-108-142-46.pool.kielnet.net [46.142.108.78]) by mx.zohomail.com with SMTPS id 1686323431175204.3440661585604; Fri, 9 Jun 2023 08:10:31 -0700 (PDT) User-agent: mu4e 1.10.2; emacs 28.2 From: Ricardo Wurmus To: 63976-done@debbugs.gnu.org Subject: [PATCH] gnu: Add python-mudata. Date: Fri, 09 Jun 2023 17:09:55 +0200 Message-ID: <87cz24oen0.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain X-ZohoMailClient: External X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 63976-done X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) I simplified this a little and pushed this with commit 74443c30f3e20655a046c0d3ea236822ef130968. Thank you! -- Ricardo ------------=_1686323462-19124-1 Content-Type: message/rfc822 Content-Disposition: inline Content-Transfer-Encoding: 7bit Received: (at submit) by debbugs.gnu.org; 9 Jun 2023 14:56:54 +0000 Received: from localhost ([127.0.0.1]:60024 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1q7dXq-0004XM-9e for submit@debbugs.gnu.org; Fri, 09 Jun 2023 10:56:54 -0400 Received: from lists.gnu.org ([209.51.188.17]:49024) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1q7dXo-0004XE-GU for submit@debbugs.gnu.org; Fri, 09 Jun 2023 10:56:53 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1q7dXo-0008WS-A0 for guix-patches@gnu.org; Fri, 09 Jun 2023 10:56:52 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1q7dXk-0001uI-Fw for guix-patches@gnu.org; Fri, 09 Jun 2023 10:56:52 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1686322603; x=1688137004; bh=h53vGqzbnWi53ur ZCbDtgiCip0Czot2U6hRZNPJKVAg=; b=XGsP9xSX+UsivxZIfXxWXYCshfFI0dH qUW0UJN97+Ly4MGiOUPX6SAF1LsC4wjH/BN8AClBWZ/QSgyzGCPM6n1nM4eSk8HH IV0hG6ahtnOpj7tUcRGSa6l0xzrADLGtnud7xtFg4NRnffC5B1NWre3RneX2iSQD 6Dq3od7JZWk4= Received-SPF: Pass (mailfrom) identity=mailfrom; client-ip=141.80.113.62; helo=sw-it-p-ex4.mdc-berlin.net; envelope-from=navid.afkhami@mdc-berlin.de; receiver= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 9A83CA0150 for ; Fri, 9 Jun 2023 16:56:43 +0200 (CEST) Received: from localhost (141.80.218.27) by SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.23; Fri, 9 Jun 2023 16:56:42 +0200 From: Navid Afkhami To: Subject: [PATCH] gnu: Add python-mudata. Date: Fri, 9 Jun 2023 16:56:34 +0200 Message-ID: X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.218.27] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27682.000 X-TM-AS-Result: No-10--4.219300-5.000000 X-TMASE-MatchedRID: 4RK2gbhxGJN6fjezFKxXHArcxrzwsv5uwTlc9CcHMZerwqxtE531VCG+ Taaivvuao9+2xsWE9+wue6riVYm/hx1hN+DNBjvOa87CDXaKRVILwteD+QnyUBHfiujuTbedJEb gebEoSmWvN2rU6V+OPJWCr3WEl10zKgAlgjPhYpbdCok3ibXlQeuLFZZYlisfHxPMjOKY7A+6vV BUUydJCsRB0bsfrpPI34T9cYMsdwzkTAiZtubkTDgtFzJtcmuDC3IybDNfT4piZyhpNcAIAVwNQ Oi6br6xxqbLSW17ofDMHyZfCjBavtl0mSf2oktoOdDctFlYYn1riwk488+qotqkGs/LBEZa8EFY CHVRuBROWg+GSIftMY4TDtwwKftL X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--4.219300-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27682.000 X-TM-SNTS-SMTP: 8C84AA66ED2FBD6FCA0FAEFC64C791FCEE4BB82D0A51E046F011666B2099118D2002:F Received-SPF: pass client-ip=194.95.232.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=a2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001, T_SCC_BODY_TEXT_LINE=-0.01 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.4 (-) X-Debbugs-Envelope-To: submit Cc: Navid Afkhami X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.4 (--) * gnu/packages/bioinformatics.scm (python-mudata): New variable. --- gnu/packages/bioinformatics.scm | 26 ++++++++++++++++++++++++++ 1 file changed, 26 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 1caea80f86..13ae47d858 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3352,6 +3352,32 @@ (define-public python-mofax models trained with MOFA+ in Python.") (license license:expat)))) +(define-public python-mudata + (let ((commit "392f5464135d687fe64bc571d35cbf557b796ff0") + (revision "0")) + (package + (name "python-mudata") + (version (git-version "0.2.3" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/scverse/mudata") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "02h0k1q57589r0hdv8nwg1vk7g2ljvn5g66c47fy5gdilbm3gjws")))) + (build-system pyproject-build-system) + (propagated-inputs (list python-anndata python-h5py python-pandas python-flit-core)) + (native-inputs (list python-numpy python-pytest python-zarr)) + (home-page "https://github.com/scverse/mudata") + (synopsis "Python package for multi-omics data analysis") + (description + "Mudata is a Python package for multi-omics data analysis. +It is designed to provide functionality to load, process, and store +multimodal omics data.") + (license license:bsd-3)))) + (define-public python-pyega3 (package (name "python-pyega3") base-commit: dd587a4fefbd8841f609910af36e13aa890781b7 prerequisite-patch-id: c5352e197d46cff8e37f0ff85044983c550a9663 -- 2.34.1 ------------=_1686323462-19124-1--