From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from mp0 ([2001:41d0:2:4a6f::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by ms11 with LMTPS id cJ4EBmCH41+zGwAA0tVLHw (envelope-from ) for ; Wed, 23 Dec 2020 18:07:28 +0000 Received: from aspmx1.migadu.com ([2001:41d0:2:4a6f::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by mp0 with LMTPS id eDToAWCH418aZQAA1q6Kng (envelope-from ) for ; Wed, 23 Dec 2020 18:07:28 +0000 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by aspmx1.migadu.com (Postfix) with ESMTPS id A6C0D940222 for ; Wed, 23 Dec 2020 18:07:27 +0000 (UTC) Received: from localhost ([::1]:41352 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1ks8Xm-0002oV-LK for larch@yhetil.org; Wed, 23 Dec 2020 13:07:26 -0500 Received: from eggs.gnu.org ([2001:470:142:3::10]:56898) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1ks8XR-0002Qn-JM for guix-patches@gnu.org; Wed, 23 Dec 2020 13:07:05 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:42563) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1ks8XR-0001Qp-Bl for guix-patches@gnu.org; Wed, 23 Dec 2020 13:07:05 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1ks8XR-0003IY-5U for guix-patches@gnu.org; Wed, 23 Dec 2020 13:07:05 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#45399] [PATCH 05/10] gnu: r-ldblock: Move to (gnu packages bioconductor). Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Wed, 23 Dec 2020 18:07:05 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 45399 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 45399@debbugs.gnu.org Received: via spool by 45399-submit@debbugs.gnu.org id=B45399.160874681512585 (code B ref 45399); Wed, 23 Dec 2020 18:07:05 +0000 Received: (at 45399) by debbugs.gnu.org; 23 Dec 2020 18:06:55 +0000 Received: from localhost ([127.0.0.1]:54094 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ks8XG-0003Gp-Ge for submit@debbugs.gnu.org; Wed, 23 Dec 2020 13:06:54 -0500 Received: from mail-wr1-f46.google.com ([209.85.221.46]:39412) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ks8X8-0003F4-P3 for 45399@debbugs.gnu.org; Wed, 23 Dec 2020 13:06:47 -0500 Received: by mail-wr1-f46.google.com with SMTP id c5so56923wrp.6 for <45399@debbugs.gnu.org>; Wed, 23 Dec 2020 10:06:46 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20161025; h=from:to:cc:subject:date:message-id:in-reply-to:references :mime-version:content-transfer-encoding; bh=NQVz4PGBrq30qwSd+pzGw+tOaP28UlU65BqF4lByx74=; b=TSgVoLqX0P6zBE6pHULlq7C93iWCx+4s5JIRa9KWuRzjBK7BxG6/D18en8K3Mqg5Ce LL54JsiMOos/Cy46c5/4SxXR5gKvOHBBjk7ABgLw7f38jSNudiF0lXEaN2DCRmevTzfQ ekRxxxy2R3uOnkc6rZP4JeUtOQ+CqHBNq0l7q92hdw1ENqTpjrvr+QvSWFPkHdk06s16 NLar6bKArZgqXCIn1Wa5+SswLpvOyNKwKJ6zGz4EP4n/n7Mr+RFfZ3ijIokv2ljKm7P+ 37zqe83JCDayu2RSuXD2zhEwWvSpJ3ZeC2e+eHwWosqOfLQxzRBm/OmtDQoD23wzkkvy tzTQ== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20161025; h=x-gm-message-state:from:to:cc:subject:date:message-id:in-reply-to :references:mime-version:content-transfer-encoding; bh=NQVz4PGBrq30qwSd+pzGw+tOaP28UlU65BqF4lByx74=; b=nfUdmcNt4Lj59eCYcx6SyfmSVnQtACmnctpIpr3o3JVa+jWy2sCF0TSdQQ2hGh3QTl fZUO9IGU6EEzD2t8z57zZzURmbW5/yiKwPvLs41VLdNyKsV8OwTqfrwIzg4DXiHNlDa4 YDwGi78wtisWmrsxaSevJ56U86+7vsS1Rc9q5adPZIr6eVSvSavxEJBCQsoR3hJL6PVq 5niAjuttqWeT4uyCeqgFfymtRX1Qz/ecQnOBkpPvyO7Wvcg6PyjZpwIWljAj4EqWaP1N P/sn3g/2pjBHzMqvNsGO/R4p2Hv5QWGP3ILR+gY+B3L1aDOUo+X9+XLvHJ5FlWjx9jMz tSKg== X-Gm-Message-State: AOAM532rqzKJURlZkfyI0LHsBzE2c9q6O5t3c1IVc7eG7nZ7mmuMJIFj a/vBSp8KDuKwgEUvX3T1VT+D6xd8mqw= X-Google-Smtp-Source: ABdhPJwGH/+nz4L+6GTTtIteu1HJALi49vT8BxBG5iC8IJzhfB3dU2rNzbwPBTf3WBCD+6r0oItNFA== X-Received: by 2002:a5d:50c3:: with SMTP id f3mr30364364wrt.287.1608746801240; Wed, 23 Dec 2020 10:06:41 -0800 (PST) Received: from localhost.localdomain ([193.48.40.110]) by smtp.gmail.com with ESMTPSA id a25sm583894wmb.25.2020.12.23.10.06.40 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Wed, 23 Dec 2020 10:06:40 -0800 (PST) From: zimoun Date: Wed, 23 Dec 2020 19:06:30 +0100 Message-Id: <20201223180635.58647-6-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.29.2 In-Reply-To: <20201223180635.58647-1-zimon.toutoune@gmail.com> References: <20201223180635.58647-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+larch=yhetil.org@gnu.org Sender: "Guix-patches" X-Migadu-Flow: FLOW_IN X-Migadu-Spam-Score: 2.77 Authentication-Results: aspmx1.migadu.com; dkim=fail (headers rsa verify failed) header.d=gmail.com header.s=20161025 header.b=TSgVoLqX; dmarc=fail reason="SPF not aligned (relaxed)" header.from=gmail.com (policy=none); spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Migadu-Queue-Id: A6C0D940222 X-Spam-Score: 2.77 X-Migadu-Scanner: scn0.migadu.com X-TUID: rA+7By8CMWAg * gnu/packages/bioinformatics.scm (r-ldblock): Move from here... * gnu/packages/bioconductor.scm (r-ldblock): ...to here. --- gnu/packages/bioconductor.scm | 34 +++++++++++++++++++++++++++++++++ gnu/packages/bioinformatics.scm | 34 --------------------------------- 2 files changed, 34 insertions(+), 34 deletions(-) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 1bf9a49272..40a02dbe7f 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -9405,6 +9405,40 @@ maintaining all essential pathway attributes. The package offers functionalities including parsing, graph operation, visualization and etc.") (license license:gpl2+))) +(define-public r-ldblock + (package + (name "r-ldblock") + (version "1.20.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "ldblock" version)) + (sha256 + (base32 + "09i3ikv0axks9g842z1pjsc8x0fba51zyyc218h0bylbi1n9cdkm")))) + (build-system r-build-system) + (propagated-inputs + `(("r-biocgenerics" ,r-biocgenerics) + ("r-ensdb-hsapiens-v75" ,r-ensdb-hsapiens-v75) + ("r-ensembldb" ,r-ensembldb) + ("r-genomeinfodb" ,r-genomeinfodb) + ("r-genomicfiles" ,r-genomicfiles) + ("r-httr" ,r-httr) + ("r-matrix" ,r-matrix) + ("r-rsamtools" ,r-rsamtools) + ("r-snpstats" ,r-snpstats) + ("r-variantannotation" ,r-variantannotation))) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "https://bioconductor.org/packages/ldblock") + (synopsis "Data structures for linkage disequilibrium measures in populations") + (description + "This package defines data structures for @dfn{linkage +disequilibrium} (LD) measures in populations. Its purpose is to simplify +handling of existing population-level data for the purpose of flexibly +defining LD blocks.") + (license license:artistic2.0))) + (define-public r-pathview (package (name "r-pathview") diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 67b4c4cb73..25021f1ee8 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -10695,40 +10695,6 @@ metadata and outputs of the ChromImpute procedure applied to ENCODE cell lines by Ernst and Kellis.") (license license:artistic2.0))) -(define-public r-ldblock - (package - (name "r-ldblock") - (version "1.20.0") - (source - (origin - (method url-fetch) - (uri (bioconductor-uri "ldblock" version)) - (sha256 - (base32 - "09i3ikv0axks9g842z1pjsc8x0fba51zyyc218h0bylbi1n9cdkm")))) - (build-system r-build-system) - (propagated-inputs - `(("r-biocgenerics" ,r-biocgenerics) - ("r-ensdb-hsapiens-v75" ,r-ensdb-hsapiens-v75) - ("r-ensembldb" ,r-ensembldb) - ("r-genomeinfodb" ,r-genomeinfodb) - ("r-genomicfiles" ,r-genomicfiles) - ("r-httr" ,r-httr) - ("r-matrix" ,r-matrix) - ("r-rsamtools" ,r-rsamtools) - ("r-snpstats" ,r-snpstats) - ("r-variantannotation" ,r-variantannotation))) - (native-inputs - `(("r-knitr" ,r-knitr))) - (home-page "https://bioconductor.org/packages/ldblock") - (synopsis "Data structures for linkage disequilibrium measures in populations") - (description - "This package defines data structures for @dfn{linkage -disequilibrium} (LD) measures in populations. Its purpose is to simplify -handling of existing population-level data for the purpose of flexibly -defining LD blocks.") - (license license:artistic2.0))) - (define-public r-dropbead (let ((commit "d746c6f3b32110428ea56d6a0001ce52a251c247") (revision "2")) -- 2.29.2