From unknown Sun Jun 22 08:03:27 2025 X-Loop: help-debbugs@gnu.org Subject: [bug#71344] [PATCH] gnu: Add r-rnacrosslinkoo. Resent-From: "Afkhami, Navid" Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Mon, 03 Jun 2024 15:56:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 71344 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 71344@debbugs.gnu.org Cc: "Afkhami, Navid" X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.17174301512445 (code B ref -1); Mon, 03 Jun 2024 15:56:02 +0000 Received: (at submit) by debbugs.gnu.org; 3 Jun 2024 15:55:51 +0000 Received: from localhost ([127.0.0.1]:45193 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1sEA2J-0000dI-9B for submit@debbugs.gnu.org; Mon, 03 Jun 2024 11:55:51 -0400 Received: from lists.gnu.org ([209.51.188.17]:52338) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1sEA2G-0000co-Q6 for submit@debbugs.gnu.org; Mon, 03 Jun 2024 11:55:50 -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 1sE9Tk-0000mM-I0 for guix-patches@gnu.org; Mon, 03 Jun 2024 11:20:08 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1sE9Ti-00066g-6V for guix-patches@gnu.org; Mon, 03 Jun 2024 11:20:08 -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=1717428001; x=1719242402; bh=rI48c80l92l7z65 lNKN9mlegeZs6AzIFaRutZ01QRAE=; b=VHooQ7VWv8CK0Q/7Lg92J8aWv/DPlHE rQ7qILY3xncZ/Y6PAuhLQY3329QRxK7NLwUbbiiygszTnowfoeEd+hDLe4AJOh9V jtVULYUvwPts/zwC1t7DuBbr/Brplb/udf3DHWD4A1gTca2/rgtegNdl4uejOsy3 icbPT41bqn7Q= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by c2062.mx.srv.dfn.de (Postfix) with ESMTPS id B39E430016F for ; Mon, 3 Jun 2024 17:20:01 +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 15.2.1544.11; Mon, 3 Jun 2024 17:20:01 +0200 From: "Afkhami, Navid" Date: Mon, 3 Jun 2024 15:18:44 +0000 Message-ID: <949ef0263a1335466bb53572cc4b5d2e98f2c596.1717427924.git.Navid.Afkhami@mdc-berlin.de> 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-EX4.mdc-berlin.net (141.80.113.62) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3152-9.1.2019-28430.000 X-TM-AS-Result: No-10--5.152400-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfNYhP20o6vOMFY9XYa1m8xAJ3y+iqiko29rIVA3IGfCC6DE DQa+uiKUXJ5suMuDH9GX7N8/O92sJRFj276yv/MdYBS4BO08ckNf0iqNWpSwuD4mDuxB3OdogyC DHnWW5JQMkbHh8hhHAEF0fWsfQ90fVXS3CAt+DxgarEv/I2gPylwJ057ljktmGJuJCTvCT4nRSb yPS2HFdyJsZ0L4JGotWJcN1bMRSvflXdnkMuZ1VvB7HeL+0SU1kuel57dFvANkjNFgfJkEOW1Q+ rs6OO9OXT5J6SB8fGI= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--5.152400-5.000000 X-TMASE-Version: SMEX-14.0.0.3152-9.1.2019-28430.000 X-TM-SNTS-SMTP: 7BC6BF1AD9511F1972C4ACD0D0CC93D8D23C549BB2C666D594375C64FCBB59452000:F Received-SPF: pass client-ip=194.95.238.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=c2062.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 (r-rnacrosslinkoo): New variable. Change-Id: I1ca6dcef9c093627c3743d1176e587cf40053ba0 --- gnu/packages/bioinformatics.scm | 44 +++++++++++++++++++++++++++++++++ 1 file changed, 44 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index cdda029809..afdf818b07 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -13915,6 +13915,50 @@ (define-public r-raremetals2 trait.") (license license:gpl3))) +(define-public r-rnacrosslinkoo + (let ((commit "a317e0fa6ddf34c309529d57390769e2b2b5bfb7") + (revision "1")) + (package + (name "r-rnacrosslinkoo") + (version (git-version "0.1.3" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/cran/rnaCrosslinkOO") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "0csv9924z0ish960k034qzv3gxh1yabnxni8hsrn5j6xl1r3cdpl")))) + (properties `((upstream-name . "rnaCrosslinkOO"))) + (build-system r-build-system) + (propagated-inputs (list r-classdiscovery + r-doparallel + r-foreach + r-genomicranges + r-ggplot2 + r-ggrepel + r-heatmap3 + r-igraph + r-iranges + r-mass + r-mixtools + r-patchwork + r-r4rna + r-rcolorbrewer + r-reshape2 + r-rrna + r-s4vectors + r-seqinr + r-tidyverse + r-topdom)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/cran/rnaCrosslinkOO") + (synopsis "Analysis of RNA crosslinking data") + (description + "The package is ideal for analyzing RNA structure and chemical probing data.") + (license license:gpl3)))) + (define-public r-rnaseqdtu (let ((commit "5bee1e769d2e1dc6a3f1cecb78078050eeb5b9ac") (revision "1")) base-commit: 1615084a9a4115d48b75b3db048761e7534efc87 prerequisite-patch-id: 191a8394dbe6f865a9dc55bfc1b62e9dffc2180d prerequisite-patch-id: 3ddb7b281335b1bb4ced1e60a1f243a12a5cba2b prerequisite-patch-id: 23c7f331c5a70d80ff65f3b52bd29d19d87c5b8d prerequisite-patch-id: a5f9464498560b3ba9ddb894482fc48a3a472d74 -- 2.34.1 From unknown Sun Jun 22 08:03:27 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: "Afkhami, Navid" Subject: bug#71344: closed ([PATCH] gnu: Add r-rnacrosslinkoo.) Message-ID: References: <87h6ddwdzn.fsf@elephly.net> <949ef0263a1335466bb53572cc4b5d2e98f2c596.1717427924.git.Navid.Afkhami@mdc-berlin.de> X-Gnu-PR-Message: they-closed 71344 X-Gnu-PR-Package: guix-patches X-Gnu-PR-Keywords: patch Reply-To: 71344@debbugs.gnu.org Date: Fri, 28 Jun 2024 10:37:02 +0000 Content-Type: multipart/mixed; boundary="----------=_1719571022-17230-1" This is a multi-part message in MIME format... ------------=_1719571022-17230-1 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset="utf-8" Your bug report #71344: [PATCH] gnu: Add r-rnacrosslinkoo. 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 71344@debbugs.gnu.org. --=20 71344: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D71344 GNU Bug Tracking System Contact help-debbugs@gnu.org with problems ------------=_1719571022-17230-1 Content-Type: message/rfc822 Content-Disposition: inline Content-Transfer-Encoding: 7bit Received: (at 71344-done) by debbugs.gnu.org; 28 Jun 2024 10:36:38 +0000 Received: from localhost ([127.0.0.1]:44761 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1sN8y6-0004TE-DN for submit@debbugs.gnu.org; Fri, 28 Jun 2024 06:36:38 -0400 Received: from sender4-of-o51.zoho.com ([136.143.188.51]:21185) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1sN8y4-0004T3-BB for 71344-done@debbugs.gnu.org; Fri, 28 Jun 2024 06:36:37 -0400 ARC-Seal: i=1; a=rsa-sha256; t=1719570995; cv=none; d=zohomail.com; s=zohoarc; b=I6tgaaxA5y3+aOaGfFL5mJOJusf6ODZpJnyPr3wwGm5opaTJS5HAGqftgKetuG+ckKFc/10ZP0hqE6umYkW1Wm5nJbXGAR77Pb8ZKNAYUbnNNqOu6uCWvtyR+P94EgVa2uSr6Xnl8ntqSEXcgDaVrrTlC5v9ltc9gvlCOO61yMw= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1719570995; h=Content-Type:Date:Date:From:From:MIME-Version:Message-ID:Subject:Subject:To:To:Message-Id:Reply-To:Cc; bh=lPBhQcGp9AoUmRmT23sG4S/UVtfy0G4ynmG+9OjzgoE=; b=WtXmJU5y8h3Caal0onM5TE4fx+zzqNfbH2jobehF5UZr17kfyD9bU7v/gR12/1Uc/wwj7V2k15LXrOcV+XjSZ1c6FhjzReRFquKqb9GHZ1yUOEEuDoDiftbvq30OddkDEFknLkOZmIfp1NCXRdvOE87IdW4VkZLXsiarc0PHJdU= 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=1719570995; 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=lPBhQcGp9AoUmRmT23sG4S/UVtfy0G4ynmG+9OjzgoE=; b=e7RzSPcYIcWIHCDO+OEnSlwCGIFZvm3HDhkAI6QrOLDZgEIVUt29YlGRM3cRbcNL /3WKgMH3xIOSaoGgR3Tth5tmQWnaYJ/nLuv0z8JaUJU20vwVX0fBZVFN0t3m0gKMBn5 b2sgg3xAspoIJaJK1Ezeqpmmd2/KpZAa2SmErBbA= Received: by mx.zohomail.com with SMTPS id 1719570992406209.39642130198706; Fri, 28 Jun 2024 03:36:32 -0700 (PDT) From: Ricardo Wurmus To: 71344-done@debbugs.gnu.org Subject: [PATCH] gnu: Add r-rnacrosslinkoo. Date: Fri, 28 Jun 2024 12:36:28 +0200 Message-ID: <87h6ddwdzn.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain X-ZohoMailClient: External X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 71344-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 (-) Applied, thank you! -- Ricardo ------------=_1719571022-17230-1 Content-Type: message/rfc822 Content-Disposition: inline Content-Transfer-Encoding: 7bit Received: (at submit) by debbugs.gnu.org; 3 Jun 2024 15:55:51 +0000 Received: from localhost ([127.0.0.1]:45193 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1sEA2J-0000dI-9B for submit@debbugs.gnu.org; Mon, 03 Jun 2024 11:55:51 -0400 Received: from lists.gnu.org ([209.51.188.17]:52338) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1sEA2G-0000co-Q6 for submit@debbugs.gnu.org; Mon, 03 Jun 2024 11:55:50 -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 1sE9Tk-0000mM-I0 for guix-patches@gnu.org; Mon, 03 Jun 2024 11:20:08 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1sE9Ti-00066g-6V for guix-patches@gnu.org; Mon, 03 Jun 2024 11:20:08 -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=1717428001; x=1719242402; bh=rI48c80l92l7z65 lNKN9mlegeZs6AzIFaRutZ01QRAE=; b=VHooQ7VWv8CK0Q/7Lg92J8aWv/DPlHE rQ7qILY3xncZ/Y6PAuhLQY3329QRxK7NLwUbbiiygszTnowfoeEd+hDLe4AJOh9V jtVULYUvwPts/zwC1t7DuBbr/Brplb/udf3DHWD4A1gTca2/rgtegNdl4uejOsy3 icbPT41bqn7Q= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by c2062.mx.srv.dfn.de (Postfix) with ESMTPS id B39E430016F for ; Mon, 3 Jun 2024 17:20:01 +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 15.2.1544.11; Mon, 3 Jun 2024 17:20:01 +0200 From: "Afkhami, Navid" To: Subject: [PATCH] gnu: Add r-rnacrosslinkoo. Date: Mon, 3 Jun 2024 15:18:44 +0000 Message-ID: <949ef0263a1335466bb53572cc4b5d2e98f2c596.1717427924.git.Navid.Afkhami@mdc-berlin.de> 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-EX4.mdc-berlin.net (141.80.113.62) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3152-9.1.2019-28430.000 X-TM-AS-Result: No-10--5.152400-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfNYhP20o6vOMFY9XYa1m8xAJ3y+iqiko29rIVA3IGfCC6DE DQa+uiKUXJ5suMuDH9GX7N8/O92sJRFj276yv/MdYBS4BO08ckNf0iqNWpSwuD4mDuxB3OdogyC DHnWW5JQMkbHh8hhHAEF0fWsfQ90fVXS3CAt+DxgarEv/I2gPylwJ057ljktmGJuJCTvCT4nRSb yPS2HFdyJsZ0L4JGotWJcN1bMRSvflXdnkMuZ1VvB7HeL+0SU1kuel57dFvANkjNFgfJkEOW1Q+ rs6OO9OXT5J6SB8fGI= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--5.152400-5.000000 X-TMASE-Version: SMEX-14.0.0.3152-9.1.2019-28430.000 X-TM-SNTS-SMTP: 7BC6BF1AD9511F1972C4ACD0D0CC93D8D23C549BB2C666D594375C64FCBB59452000:F Received-SPF: pass client-ip=194.95.238.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=c2062.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: "Afkhami, Navid" 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 (r-rnacrosslinkoo): New variable. Change-Id: I1ca6dcef9c093627c3743d1176e587cf40053ba0 --- gnu/packages/bioinformatics.scm | 44 +++++++++++++++++++++++++++++++++ 1 file changed, 44 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index cdda029809..afdf818b07 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -13915,6 +13915,50 @@ (define-public r-raremetals2 trait.") (license license:gpl3))) +(define-public r-rnacrosslinkoo + (let ((commit "a317e0fa6ddf34c309529d57390769e2b2b5bfb7") + (revision "1")) + (package + (name "r-rnacrosslinkoo") + (version (git-version "0.1.3" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/cran/rnaCrosslinkOO") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "0csv9924z0ish960k034qzv3gxh1yabnxni8hsrn5j6xl1r3cdpl")))) + (properties `((upstream-name . "rnaCrosslinkOO"))) + (build-system r-build-system) + (propagated-inputs (list r-classdiscovery + r-doparallel + r-foreach + r-genomicranges + r-ggplot2 + r-ggrepel + r-heatmap3 + r-igraph + r-iranges + r-mass + r-mixtools + r-patchwork + r-r4rna + r-rcolorbrewer + r-reshape2 + r-rrna + r-s4vectors + r-seqinr + r-tidyverse + r-topdom)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/cran/rnaCrosslinkOO") + (synopsis "Analysis of RNA crosslinking data") + (description + "The package is ideal for analyzing RNA structure and chemical probing data.") + (license license:gpl3)))) + (define-public r-rnaseqdtu (let ((commit "5bee1e769d2e1dc6a3f1cecb78078050eeb5b9ac") (revision "1")) base-commit: 1615084a9a4115d48b75b3db048761e7534efc87 prerequisite-patch-id: 191a8394dbe6f865a9dc55bfc1b62e9dffc2180d prerequisite-patch-id: 3ddb7b281335b1bb4ced1e60a1f243a12a5cba2b prerequisite-patch-id: 23c7f331c5a70d80ff65f3b52bd29d19d87c5b8d prerequisite-patch-id: a5f9464498560b3ba9ddb894482fc48a3a472d74 -- 2.34.1 ------------=_1719571022-17230-1--