From patchwork Tue Mar 8 19:06:12 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 37684 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id C39B427BBEA; Tue, 8 Mar 2022 19:07:12 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-3.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H5,RCVD_IN_MSPIKE_WL,SPF_HELO_PASS autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 7906B27BBE9 for ; Tue, 8 Mar 2022 19:07:12 +0000 (GMT) Received: from localhost ([::1]:51096 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nRfAt-000429-KT for patchwork@mira.cbaines.net; Tue, 08 Mar 2022 14:07:11 -0500 Received: from eggs.gnu.org ([209.51.188.92]:49218) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nRfAk-00041K-7H for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:02 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:35808) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nRfAj-0002bf-Uy for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:01 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nRfAj-0003yW-QR for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:01 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#54303] [PATCH 1/6] gnu: Add r-scannotatr. References: <20220308190250.1010303-1-zimon.toutoune@gmail.com> In-Reply-To: <20220308190250.1010303-1-zimon.toutoune@gmail.com> Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 08 Mar 2022 19:07:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 54303 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 54303@debbugs.gnu.org Cc: zimoun Received: via spool by 54303-submit@debbugs.gnu.org id=B54303.164676639615187 (code B ref 54303); Tue, 08 Mar 2022 19:07:01 +0000 Received: (at 54303) by debbugs.gnu.org; 8 Mar 2022 19:06:36 +0000 Received: from localhost ([127.0.0.1]:57925 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAK-0003wq-5m for submit@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:36 -0500 Received: from mail-wr1-f48.google.com ([209.85.221.48]:38616) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAI-0003wR-SW for 54303@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:35 -0500 Received: by mail-wr1-f48.google.com with SMTP id t11so30074580wrm.5 for <54303@debbugs.gnu.org>; Tue, 08 Mar 2022 11:06:34 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=from:to:cc:subject:date:message-id:mime-version :content-transfer-encoding; bh=xb4H5RWUvZL2fvDfaioMDFwzKXpnShkCo5jqbHDM7nM=; b=F2B2UMeoT7hH5jIPJLAPPbfeMldc/X0Swo6n3oFZ0XgINWVKxWvQHutfYNIQ0EeRI5 seilafLgN8eGdS4UVogOd4KC6FYiK1p9Sv4G9MvzKZS7lHxqf8zT6PTi5sWzGYvrqMbX 4mTYpAxq0ntKSBHyhGcDZzEUmpbto7Hyk2uzf1SCnUi3LCgF2vTziGv71mD3E+B+D1AD VarY/BzchXHB9i1bkH6u1RoGl+YQ5KKS7FzbzTDs9R0fVXpTPgJIwHfCOkhBBCx5ZIjn PWvne3zml8nI8p1emat1g9NVzuh9vf1nQxKiOqDpxzjLwttelHZHVGSj4ISzgXiVxYP3 PFnw== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=x-gm-message-state:from:to:cc:subject:date:message-id:mime-version :content-transfer-encoding; bh=xb4H5RWUvZL2fvDfaioMDFwzKXpnShkCo5jqbHDM7nM=; b=prThAIrhczKzpFILrCJtV1f4plCAd5rx3YyVw7JYvhJOqElePsjgZ5Usm4tW38INKi Kq9vPygUjOEty0A9GQlLoLe7Gn8w9p3n/xM0gasEwzAx5VhHwuIxmosY/w6CdWPLRsWP EnHpkhXcYWcd3hwJ2f0IeH7REQ5kJR6DD7jpwofME7eCoj1L/LNEIMuUSj5IrZuujF6O 11tuIQO53hUY3s4aTuPyYyG2z2P7GEIg/y391aZW8fwAiDxrgDF3guBufckG6MYVUQgh 37bq12b0gRC/+pGkG11kNrUd65COTT9EBTfMkn5fhEAW4Ko7p3foTTOvXHQKoRDWY+Pl xTdg== X-Gm-Message-State: AOAM532sD+OK+MDREwzKZHcndCrGoOupDbmIh5VKXcDzehnIXFvEM+ry ctnFeY4QOIHTn501dFhbGzd8YEGhZFY= X-Google-Smtp-Source: ABdhPJw2zF1UKOj6429MCpUO7onG8pQxzJIWgotMJrz0gIferWzQh/qTdiymP+JFYW5hnV5Gkt9p1w== X-Received: by 2002:a5d:678f:0:b0:1f0:2471:5a93 with SMTP id v15-20020a5d678f000000b001f024715a93mr13291108wru.164.1646766388942; Tue, 08 Mar 2022 11:06:28 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id m34-20020a05600c3b2200b00380e3225af9sm3335969wms.0.2022.03.08.11.06.28 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 08 Mar 2022 11:06:28 -0800 (PST) From: zimoun Date: Tue, 8 Mar 2022 20:06:12 +0100 Message-Id: <20220308190617.1011563-1-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 MIME-Version: 1.0 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+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioconductor.scm (r-scannotatr): New variable. --- gnu/packages/bioconductor.scm | 37 +++++++++++++++++++++++++++++++++++ 1 file changed, 37 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 534204a16a..8fcd43f27f 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -4349,6 +4349,43 @@ (define-public r-samr ;; Any version of the LGPL (license license:lgpl3+))) +(define-public r-scannotatr + (package + (name "r-scannotatr") + (version "1.0.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "scAnnotatR" version)) + (sha256 + (base32 "08jq04ckjw8a5y753almc5bl8vnn4j6qp2zb7bb9w3ql3ddy7b21")))) + (properties `((upstream-name . "scAnnotatR"))) + (build-system r-build-system) + (propagated-inputs + (list r-annotationhub + r-ape + r-caret + r-data-tree + r-dplyr + r-e1071 + r-ggplot2 + r-kernlab + r-proc + r-rocr + r-seurat + r-singlecellexperiment + r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/grisslab/scAnnotatR") + (synopsis "Pretrained models for prediction on single cell RNA-sequencing data") + (description + "This package comprises a set of pretrained machine learning models to +predict basic immune cell types. This enables to quickly get a first +annotation of the cell types present in the dataset without requiring prior +knowledge. The package also allows to train using own models to predict new +cell types based on specific research needs.") + (license license:expat))) + (define-public r-scdblfinder (package (name "r-scdblfinder") From patchwork Tue Mar 8 19:06:13 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 37688 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id E50C127BBEA; Tue, 8 Mar 2022 19:07:27 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-3.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H5,RCVD_IN_MSPIKE_WL,SPF_HELO_PASS,URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id B35D327BBE9 for ; Tue, 8 Mar 2022 19:07:27 +0000 (GMT) Received: from localhost ([::1]:51784 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nRfB8-0004VG-TH for patchwork@mira.cbaines.net; Tue, 08 Mar 2022 14:07:26 -0500 Received: from eggs.gnu.org ([209.51.188.92]:49220) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nRfAk-00041S-L4 for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:02 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:35809) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nRfAk-0002bl-CQ for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:02 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nRfAk-0003yd-79 for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:02 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#54303] [PATCH 2/6] gnu: Add r-polychrome. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 08 Mar 2022 19:07:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 54303 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 54303@debbugs.gnu.org Cc: zimoun Received: via spool by 54303-submit@debbugs.gnu.org id=B54303.164676639715206 (code B ref 54303); Tue, 08 Mar 2022 19:07:02 +0000 Received: (at 54303) by debbugs.gnu.org; 8 Mar 2022 19:06:37 +0000 Received: from localhost ([127.0.0.1]:57929 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAL-0003x6-Et for submit@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:37 -0500 Received: from mail-wr1-f53.google.com ([209.85.221.53]:36742) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAJ-0003wS-BA for 54303@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:35 -0500 Received: by mail-wr1-f53.google.com with SMTP id r10so30097904wrp.3 for <54303@debbugs.gnu.org>; Tue, 08 Mar 2022 11:06:35 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=from:to:cc:subject:date:message-id:in-reply-to:references :mime-version:content-transfer-encoding; bh=+y+TUBecHrXBzEbxTwXgjOp/uWWfSTpX3A460A1aUqM=; b=V2TCgw50N1zwwXqupIUWA8e4FpawcgZGCM7lpgdpa1/4QCvPWMw5vgGGgFMwrT6kbU 4f9+xrvm9Wo/a3hz0rAB+wUUYmriH7iEHFpWChksFRLMTxjNiqVSyDIaYm1SmNRZieRw RKwGihSfrfiYSphesKx2UCcdn37Ezs0zzGQIZluMCIDLSNuzHQAiDpKCc/Vwv+kCKyiU JEbBLu/CagY9Fmzy2p+Ofv94WbMPTW4BMWrtIPHZjvuGFy7aOJC2EY/MFPSTJOmFeaft L07IpbuXatcg5llSUhsjQhWSZY3xgj/Pwj/y5bIoOAs4ZkPrgOsCOXsHGVggKnXu0060 YYig== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=x-gm-message-state:from:to:cc:subject:date:message-id:in-reply-to :references:mime-version:content-transfer-encoding; bh=+y+TUBecHrXBzEbxTwXgjOp/uWWfSTpX3A460A1aUqM=; b=HgUkdJVYsju8P2CIB4lk/5uQjL3eyFEm7BS341LduOad4DBxtpSiasfU1Ku5tahxyk 1hHEMkgCc3bGK3yKdcGqNkvD56SO+OqLW7HTJ1OjgTuhIwd7q1pfrgUJm6tCnoU/PXQ4 gd9e5kcJbua6VMOyU75U9f3czgr6A9l2pcvgOLmDZFy2NbFBEHjVo1UgkbQh9Kfy55rS snsz17Mw/i59y251avpEeT5WH3AE12/MAoVuLjIBP65l/e6It4dp1rf/yqBlENsaZ+lS mi5qrg3g4V9+/PeXv4CIHpPVU5TAivtQZDQUfVqALQoRjOH1AzjfE9MRWkbcmG8rJcEz gDgw== X-Gm-Message-State: AOAM531kBkSqVm3izmUX8QsOP1ajBjJF46VtiXbT0ovIfWWTjEtn3tyQ spiUvWBLcR/oZDLcL4ZnZVCNQaSWUSA= X-Google-Smtp-Source: ABdhPJyXNlDdcCulqwXdxEuUOQH4ucJKTWgQAL+utSUvIIXDBZ9CzrNZGThTGMQGymG1g9yzcdWVhQ== X-Received: by 2002:a5d:598a:0:b0:1f1:fa29:1ba6 with SMTP id n10-20020a5d598a000000b001f1fa291ba6mr7431716wri.90.1646766389568; Tue, 08 Mar 2022 11:06:29 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id m34-20020a05600c3b2200b00380e3225af9sm3335969wms.0.2022.03.08.11.06.29 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 08 Mar 2022 11:06:29 -0800 (PST) From: zimoun Date: Tue, 8 Mar 2022 20:06:13 +0100 Message-Id: <20220308190617.1011563-2-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220308190617.1011563-1-zimon.toutoune@gmail.com> References: <20220308190617.1011563-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 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+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/cran.scm (r-polychrome): New variable. --- gnu/packages/cran.scm | 25 +++++++++++++++++++++++++ 1 file changed, 25 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 4178971251..488a5c5bd4 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -1097,6 +1097,31 @@ (define-public r-plotfunctions with default R plot functions.") (license license:gpl2+))) +(define-public r-polychrome + (package + (name "r-polychrome") + (version "1.3.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "Polychrome" version)) + (sha256 + (base32 "044vbylgbqf0ccv4r15nmbw1vz0j95g67i6blw73hvbvbm6w5x4d")))) + (properties `((upstream-name . "Polychrome"))) + (build-system r-build-system) + (propagated-inputs + (list r-colorspace r-scatterplot3d)) + (native-inputs + (list r-knitr)) + (home-page "http://oompa.r-forge.r-project.org/") + (synopsis "Qualitative palettes with many colors") + (description + "This package provides tools for creating, viewing, and assessing +qualitative palettes with many (20-30 or more) colors. See Coombes and +colleagues (2019) @url{https://doi:10.18637/jss.v090.c01}.") + (license license:asl2.0))) + + (define-public r-ecp (package (name "r-ecp") From patchwork Tue Mar 8 19:06:14 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 37686 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 9BE4927BBEA; Tue, 8 Mar 2022 19:07:14 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-3.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H5,RCVD_IN_MSPIKE_WL,SPF_HELO_PASS autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 68B4027BBE9 for ; Tue, 8 Mar 2022 19:07:14 +0000 (GMT) Received: from localhost ([::1]:51120 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nRfAv-00043H-D4 for patchwork@mira.cbaines.net; Tue, 08 Mar 2022 14:07:13 -0500 Received: from eggs.gnu.org ([209.51.188.92]:49222) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nRfAl-00041a-4R for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:03 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:35810) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nRfAk-0002br-Rd for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:02 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nRfAk-0003yk-Lo for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:02 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#54303] [PATCH 3/6] gnu: Add r-babelwhale. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 08 Mar 2022 19:07:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 54303 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 54303@debbugs.gnu.org Cc: zimoun Received: via spool by 54303-submit@debbugs.gnu.org id=B54303.164676639815219 (code B ref 54303); Tue, 08 Mar 2022 19:07:02 +0000 Received: (at 54303) by debbugs.gnu.org; 8 Mar 2022 19:06:38 +0000 Received: from localhost ([127.0.0.1]:57932 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAL-0003xD-OF for submit@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:38 -0500 Received: from mail-wr1-f46.google.com ([209.85.221.46]:38618) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAJ-0003wU-Ot for 54303@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:36 -0500 Received: by mail-wr1-f46.google.com with SMTP id t11so30074661wrm.5 for <54303@debbugs.gnu.org>; Tue, 08 Mar 2022 11:06:35 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=from:to:cc:subject:date:message-id:in-reply-to:references :mime-version:content-transfer-encoding; bh=p1spB9BRaY5FcJCLgmjWhDkYVj/Ryy7oyx8GP5pWdiQ=; b=XwDXwy52MST6abQGYaG8TlXodxdrTk3diyXQUmUY+1H1/YbzLZTns80bUIynMEsBAc rWUiorTuK4k1f6Mdc1M3mIEZpiRHFy/y6HrgPk56RATnNphMIuSgeEVRnxqwC4KjE02p qGXZh/1L6Ur37QsvxgFHfAwxKPFiN3YKqamWbFrUc17NYDFbSmD886uiQ8eqlfxkYt+U /SrCajLemQLXkiJcdr6iZn0idOXujCbqa7vOTnNQ+JiwueUb6fM/JL7JX2weNiGrAYdF UeABRoCh90Nf4EDZslm3h1SozUFQBJXcIedYA+YYFhshl/xT57tQxH86y9GAWnZ7ODPy Zd4A== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=x-gm-message-state:from:to:cc:subject:date:message-id:in-reply-to :references:mime-version:content-transfer-encoding; bh=p1spB9BRaY5FcJCLgmjWhDkYVj/Ryy7oyx8GP5pWdiQ=; b=fTvbVYpkAJ/VIu1r0RECpXj6bNYDdUo8z28kVBIZUZvFIeGTXxfWA2kf7+Muis8VgK p5oogD+aL/UJlX51vvCmEFdkMh+nR7AwCyxtq9ebZhTy1+JHkH5HWsAOchEmX0zK5BLL MBkgMyiXR91UTcKt5VxYW7m1BLjpH2FkFcxV90TlwShS5mFEBacC0cDL/AqBWEPdYvbU iZy2QWyD8Z//DAShFJNgF7h+n+uc4s8sI4ii3k8pfizv3jK8kZLY0Df1+Gu62qqy9ME9 fdC8RHbdIuhmptIYfywd4hezAeZIbMdmhBqx1uHjRuzEHXunXtu3coEgTV9OFFWWIIiP QcMQ== X-Gm-Message-State: AOAM532uKn90/UDyuUxOFIB6L8vLhszn+YZoTKwX1qJAV8M8cIYDbBn/ cUomSSekXiV9FJbCTUpm3uqTuwRtBnY= X-Google-Smtp-Source: ABdhPJyDCbMwSfSTfo2Mb9CjcW7IbEW/ldo6r3WqE22fcXEaR5rzET5j0ltg6MU7igswTRRz3CWqcw== X-Received: by 2002:adf:ef05:0:b0:1f1:e4e3:92b7 with SMTP id e5-20020adfef05000000b001f1e4e392b7mr12065920wro.370.1646766390190; Tue, 08 Mar 2022 11:06:30 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id m34-20020a05600c3b2200b00380e3225af9sm3335969wms.0.2022.03.08.11.06.29 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 08 Mar 2022 11:06:29 -0800 (PST) From: zimoun Date: Tue, 8 Mar 2022 20:06:14 +0100 Message-Id: <20220308190617.1011563-3-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220308190617.1011563-1-zimon.toutoune@gmail.com> References: <20220308190617.1011563-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 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+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/cran.scm (r-babelwhale): New variable. --- gnu/packages/cran.scm | 22 ++++++++++++++++++++++ 1 file changed, 22 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 488a5c5bd4..46f0fb380f 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -436,6 +436,28 @@ (define-public r-rticles for authoring journal articles and conference submissions.") (license license:gpl3))) +(define-public r-babelwhale + (package + (name "r-babelwhale") + (version "1.0.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "babelwhale" version)) + (sha256 + (base32 "0ph825dwvr48fhamy1l5564linz7cj7b9sj511as77f1yqycv4a2")))) + (properties `((upstream-name . "babelwhale"))) + (build-system r-build-system) + (propagated-inputs + (list r-crayon r-dplyr r-dynutils r-processx r-purrr)) + (home-page "https://github.com/dynverse/babelwhale") + (synopsis "Talking to Docker and Singularity containers") + (description + "This package provides a unified interface to interact with Docker and +Singularity containers. You can execute a command inside a container, mount a +volume or copy a file.") + (license license:expat))) + (define-public r-benchmarkmedata (package (name "r-benchmarkmedata") From patchwork Tue Mar 8 19:06:15 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 37687 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 1F6AD27BBEA; Tue, 8 Mar 2022 19:07:27 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-3.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H5,RCVD_IN_MSPIKE_WL,SPF_HELO_PASS autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id E322027BBE9 for ; Tue, 8 Mar 2022 19:07:26 +0000 (GMT) Received: from localhost ([::1]:51710 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nRfB8-0004S9-3K for patchwork@mira.cbaines.net; Tue, 08 Mar 2022 14:07:26 -0500 Received: from eggs.gnu.org ([209.51.188.92]:49224) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nRfAl-00041c-FZ for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:03 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:35811) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nRfAl-0002by-7O for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:03 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nRfAl-0003ys-1s for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:03 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#54303] [PATCH 4/6] gnu: Add r-carrier. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 08 Mar 2022 19:07:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 54303 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 54303@debbugs.gnu.org Cc: zimoun Received: via spool by 54303-submit@debbugs.gnu.org id=B54303.164676639815226 (code B ref 54303); Tue, 08 Mar 2022 19:07:03 +0000 Received: (at 54303) by debbugs.gnu.org; 8 Mar 2022 19:06:38 +0000 Received: from localhost ([127.0.0.1]:57934 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAM-0003xM-4T for submit@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:38 -0500 Received: from mail-wr1-f53.google.com ([209.85.221.53]:38627) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAK-0003wV-Bj for 54303@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:36 -0500 Received: by mail-wr1-f53.google.com with SMTP id t11so30074704wrm.5 for <54303@debbugs.gnu.org>; Tue, 08 Mar 2022 11:06:36 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=from:to:cc:subject:date:message-id:in-reply-to:references :mime-version:content-transfer-encoding; bh=AG9NxhxuI4I1sgYCsd32RYlaS5PBLjAq/1R+PSgEEYU=; b=F5vDI5MPYpojWXxYQt/NzvWb+mzZ9vlsVHXfFawaVPYCS4TyCCE1e4eSt1AsGaP/IK AzXIPiPyYJwEYqhNEst1fcMBllnCY/R2xyh2gxDuPLthWHrFHQMfI01ChYPhm2IDwvxa zcnh8PCkK78csb02KXk+KjJb33M0CYoT3udpNdPVIqZdKRC7HrcZ/P05D7/Bh8GrWQ6+ Aweuob/K4qwDJxdoek9Rby5J6jvPEB6NXBIexX+DtTT+9BjtN1zJIStTaslCSPlBohJy JJtaKMcFEGjWLiYQWhPsesVAAJoUag2iI7NDks26KsoPtVx9WOHZ4bUsTyjkmkA4XPkQ Leew== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=x-gm-message-state:from:to:cc:subject:date:message-id:in-reply-to :references:mime-version:content-transfer-encoding; bh=AG9NxhxuI4I1sgYCsd32RYlaS5PBLjAq/1R+PSgEEYU=; b=65KQhOfs0NZI3Yw25qr0f10VXzpc9K+k+vfNtYFez3Fr5xyhrQAa8elnP2U64qlQ+L /L9mmnym74BdTGOHz2sZvxnk3bcT3tE6rxVmNOD6ztXFcrILdKC1i/Tktx+ANjivj9D6 hS4Qs7BV0Bsno6e6eJN4qFGeKGlOQCqFbadQkvuHuJC9OkVN/lfbI54YYy9l59GjRoR6 JmYEZhM8EIajdE01nxNS7T+FUfgQKDa1jtG+Kw5XZGu56gwQ8v3CcCrkDw2SHGmNmSJe lmOoeunUR9s96KDkGRwAqi1/j3BpJ1rnoe5HwUhjSSzvkUxJ9UwfpxlvaJkW08lv+CEB dncw== X-Gm-Message-State: AOAM532ku/gSSemvIdUs3tfZbC62zxuKLwIfk3SSaN4tdvy5GelCSk8c SYT9duMGHfauH+jnWbRCgVOQ3np4Cho= X-Google-Smtp-Source: ABdhPJwQ7yEmcskZqCMWVmxY6qnEd2EnKqW+uZ2ZerEQTYeVxuof5IYX4zx6wgsUXCXkvYjqgT9Z7w== X-Received: by 2002:adf:e983:0:b0:1f1:f52b:8328 with SMTP id h3-20020adfe983000000b001f1f52b8328mr9501928wrm.513.1646766390894; Tue, 08 Mar 2022 11:06:30 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id m34-20020a05600c3b2200b00380e3225af9sm3335969wms.0.2022.03.08.11.06.30 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 08 Mar 2022 11:06:30 -0800 (PST) From: zimoun Date: Tue, 8 Mar 2022 20:06:15 +0100 Message-Id: <20220308190617.1011563-4-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220308190617.1011563-1-zimon.toutoune@gmail.com> References: <20220308190617.1011563-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 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+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/cran.scm (r-carrier): New variable. --- gnu/packages/cran.scm | 24 ++++++++++++++++++++++++ 1 file changed, 24 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 46f0fb380f..cd19de60b3 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -614,6 +614,30 @@ (define-public r-dot programming packages such as @code{knitr} and @code{rmarkdown}.") (license license:expat))) +(define-public r-carrier + (package + (name "r-carrier") + (version "0.1.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "carrier" version)) + (sha256 + (base32 "0bqnwnnjqjk9q0lxq6kkz9s75ss10lfyyywyyi24m8wppxpw1vqc")))) + (properties `((upstream-name . "carrier"))) + (build-system r-build-system) + (propagated-inputs + (list r-pryr r-rlang)) + (home-page "https://github.com/r-lib/carrier") + (synopsis "Isolate functions for remote execution") + (description + "Sending functions to remote processes can be wasteful of resources +because they carry their environments with them. With this package, it is +easy to create functions that are isolated from their environment. These +isolated functions, also called crates, print at the console with their total +size and can be easily tested locally before being sent to a remote.") + (license license:gpl3))) + (define-public r-clipr (package (name "r-clipr") From patchwork Tue Mar 8 19:06:16 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 37689 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id C72EE27BBEA; Tue, 8 Mar 2022 19:07:33 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-3.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H5,RCVD_IN_MSPIKE_WL,SPF_HELO_PASS,URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 8F62527BBE9 for ; Tue, 8 Mar 2022 19:07:33 +0000 (GMT) Received: from localhost ([::1]:52204 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nRfBE-0004mV-NC for patchwork@mira.cbaines.net; Tue, 08 Mar 2022 14:07:32 -0500 Received: from eggs.gnu.org ([209.51.188.92]:49226) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nRfAl-00041e-RE for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:03 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:35812) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nRfAl-0002c3-Iv for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:03 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nRfAl-0003yz-EA for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:03 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#54303] [PATCH 5/6] gnu: Add r-ga. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 08 Mar 2022 19:07:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 54303 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 54303@debbugs.gnu.org Cc: zimoun Received: via spool by 54303-submit@debbugs.gnu.org id=B54303.164676640315240 (code B ref 54303); Tue, 08 Mar 2022 19:07:03 +0000 Received: (at 54303) by debbugs.gnu.org; 8 Mar 2022 19:06:43 +0000 Received: from localhost ([127.0.0.1]:57936 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAQ-0003xi-Kp for submit@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:42 -0500 Received: from mail-wr1-f48.google.com ([209.85.221.48]:42881) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAL-0003wX-1a for 54303@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:37 -0500 Received: by mail-wr1-f48.google.com with SMTP id u10so28438436wra.9 for <54303@debbugs.gnu.org>; Tue, 08 Mar 2022 11:06:37 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=from:to:cc:subject:date:message-id:in-reply-to:references :mime-version:content-transfer-encoding; bh=bmVVo4QHZeDz1/1Cxsh7GHOGFMW561EEABu0sCxH9KE=; b=hEsSSstgrHh6c0GDeZk5epDZlsV+lh1ccPwfbqjHztjzJiMH3yoCrowYJ0VCVFxHyd YXkLh6y9JXh5QkA8mvjxJ3ktiYzXri+VleRnb0G/naMQHLJi10SC4iIXwLrU/bp9wpCa ZV4KF+phciEHQdMfWx3zLcHKRcmpfZMcTwaFEP7mXsHVkfkjSvaATh4glD5/lhS9StQs gOzIot2xxg4j/vM/fRDACiMKYWKGSiOMs/8a3+7chWN9Zdt5S0XPEF4uCy874SUsa9Xh 6ZENkuTFQL6gBizaDu0DkuSyyRHrGe7YYwg5jGnbx+jsTZnk+FpbhgLcSHEzEI6N6TpB 3WXA== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=x-gm-message-state:from:to:cc:subject:date:message-id:in-reply-to :references:mime-version:content-transfer-encoding; bh=bmVVo4QHZeDz1/1Cxsh7GHOGFMW561EEABu0sCxH9KE=; b=d0G1JetP12ayNrEgBf+EjXvjDlj7rPSQ3CUTyFtt0G9xpE6CO+wn7AiUlAB6YlKTFH qW5zfpnR0IZSRYWTpgV4Mz7bilKZ2sKJupGQ+4dBiFaCB3ec4icNT69dDepHshWxSzDw ox33qPyFBLnAXIIk0dxrxoZcSbXjT2TuwfJhHGwcSvBQQzpZJ8ljqbUQF3lzqRquKuIn r2UKsmsHjukB46367kFVKTodImtkzaHywUZSDQTrRrbxhxLO+FZeV83xh4JqQuEM4EGN dVOw2wxJukfrFQIEA6got8jAXjwd1Wlsv8uVLCrZU2hPwHbsiZ5YGQZlUIwmmpRlyzOd gLqw== X-Gm-Message-State: AOAM531iEBCb9CLrBr8wzGlOn+zDCHCq8/znzB5DPdcRZGiuXnbMHnIO vPsOlWcESfGx13EWW5YxOp8OoujPqh8= X-Google-Smtp-Source: ABdhPJy4YEVCl+idY+XGlzg1XRfqC6bmd85pGXJeqLGWSeB6ljKxn72KesLe/XVrIFKKcWmPYHY5MQ== X-Received: by 2002:adf:b1da:0:b0:1f0:1205:89c1 with SMTP id r26-20020adfb1da000000b001f0120589c1mr13170272wra.27.1646766391458; Tue, 08 Mar 2022 11:06:31 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id m34-20020a05600c3b2200b00380e3225af9sm3335969wms.0.2022.03.08.11.06.30 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 08 Mar 2022 11:06:31 -0800 (PST) From: zimoun Date: Tue, 8 Mar 2022 20:06:16 +0100 Message-Id: <20220308190617.1011563-5-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220308190617.1011563-1-zimon.toutoune@gmail.com> References: <20220308190617.1011563-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 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+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/cran.scm (r-ga): New variable. --- gnu/packages/cran.scm | 36 ++++++++++++++++++++++++++++++++++++ 1 file changed, 36 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index cd19de60b3..1fd57fb22c 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -1216,6 +1216,42 @@ (define-public r-ellipsis are not used.") (license license:gpl3))) +(define-public r-ga + (package + (name "r-ga") + (version "3.2.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "GA" version)) + (sha256 + (base32 "135z03lnbj44jihnk6dii5a684jmc666ncpdwyyi910vl4sccib2")))) + (properties `((upstream-name . "GA"))) + (build-system r-build-system) + (propagated-inputs + (list r-cli + r-crayon + r-foreach + r-iterators + r-rcpp + r-rcpparmadillo)) + (native-inputs + (list r-knitr)) + (home-page "https://luca-scr.github.io/GA/") + (synopsis "Genetic algorithms for stochastic optimisation") + (description + "Flexible general-purpose toolbox implementing genetic algorithms (GAs) +for stochastic optimisation. Binary, real-valued, and permutation +representations are available to optimize a fitness function, i.e., a function +provided by users depending on their objective function. Several genetic +operators are available and can be combined to explore the best settings for +the current task. Furthermore, users can define new genetic operators and +easily evaluate their performances. Local search using general-purpose +optimisation algorithms can be applied stochastically to exploit interesting +regions. GAs can be run sequentially or in parallel, using an explicit +master-slave parallelisation or a coarse-grain islands approach.") + (license license:gpl2+))) + (define-public r-grr (package (name "r-grr") From patchwork Tue Mar 8 19:06:17 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 37685 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id F14DC27BBEA; Tue, 8 Mar 2022 19:07:13 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-3.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H5,RCVD_IN_MSPIKE_WL,SPF_HELO_PASS autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 87C2027BBE9 for ; Tue, 8 Mar 2022 19:07:13 +0000 (GMT) Received: from localhost ([::1]:51116 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nRfAu-000437-Mh for patchwork@mira.cbaines.net; Tue, 08 Mar 2022 14:07:12 -0500 Received: from eggs.gnu.org ([209.51.188.92]:49228) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nRfAm-000421-8Y for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:04 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:35813) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nRfAl-0002cA-W7 for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:04 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nRfAl-0003z6-Qx for guix-patches@gnu.org; Tue, 08 Mar 2022 14:07:03 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#54303] [PATCH 6/6] gnu: Add r-diffcyt. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 08 Mar 2022 19:07:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 54303 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 54303@debbugs.gnu.org Cc: zimoun Received: via spool by 54303-submit@debbugs.gnu.org id=B54303.164676640315248 (code B ref 54303); Tue, 08 Mar 2022 19:07:03 +0000 Received: (at 54303) by debbugs.gnu.org; 8 Mar 2022 19:06:43 +0000 Received: from localhost ([127.0.0.1]:57938 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAQ-0003xl-Ud for submit@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:43 -0500 Received: from mail-wr1-f51.google.com ([209.85.221.51]:33601) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nRfAL-0003wY-KW for 54303@debbugs.gnu.org; Tue, 08 Mar 2022 14:06:38 -0500 Received: by mail-wr1-f51.google.com with SMTP id j17so30151283wrc.0 for <54303@debbugs.gnu.org>; Tue, 08 Mar 2022 11:06:37 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=from:to:cc:subject:date:message-id:in-reply-to:references :mime-version:content-transfer-encoding; bh=wYD17jhXYq95nUtbjgYTrXjB9EsH4AO3i99Rku39Qyo=; b=bPuRGBYdrfEa9MNe87FD01DMitjyjPeAp1szF9FjK3B2LAsbP8iLeWPcowFtKj5OHK vCLuIEIovIwYieI/uZRd+bUpbimqbV0McbRsWsM7Mwrk9Zpk3hz32FnQpBzCrVobk+Fo y0mxZLA57zNKArHRPp4uOVTzikSaAbBdT0Z8m3syE28LrUXjzSBVdTL8ufCe7Rop6Mf+ zVqDhTYTwQXHflflRxUl7orJiPsnahO8abfWu5pAG0BlJcMa5I1bQjp5lkSGTDCiolWb PTrfJHhFt0mU5+ST3l+1wcvJmBefqgQ3jWjazTwLXKwVU2HXRISw6l4LIEa3lywKdF+7 +taQ== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=x-gm-message-state:from:to:cc:subject:date:message-id:in-reply-to :references:mime-version:content-transfer-encoding; bh=wYD17jhXYq95nUtbjgYTrXjB9EsH4AO3i99Rku39Qyo=; b=BGRa1QA0RXcjyAt3vz0VSfECOIc8o5YTG87P+q6Sg7q+qD0KaXDQhcFsEd8DGGora4 k5YxuF6TbVHZzrucmwwiatyoGD4vpD5yMCfvNlkfOpX+j7Vz5K3pWlTavMC0PzORWwpY h9zG3Urm/yVCLN0/ACDTa8msyWW+Nbd163pzNRDpVpDB51CVhxfflPj3Drf29AV1LD2g hdxLNDr/6R8+OmJnM7cGq7KWlhYm8QUvPL3uw5HMzqsXG5EnciDt43T2Mfcwnwt5Jn/M Pc/SSTGTtesmvBpgiL6HLWCq/ooFyaXEYxXZPvm8n4RLJjs5cjVGPBaJr+FdUb1QcceK aW+A== X-Gm-Message-State: AOAM53165RLBoedTZnsu/kNa6Y46U+X+elwv3qzHTKxGiigaScQ0jVxa QdtN4dCQZ8xLgsaRBytrNaHIqhtpCeo= X-Google-Smtp-Source: ABdhPJwhs5oNWcLrEMIwUV0bVhHAYWGRIUkhKDrjiKpeIDrnmJlqe4gjd1XpH7FFjA6dx1ZDCnfDHg== X-Received: by 2002:a05:6000:170d:b0:1f1:fefa:db85 with SMTP id n13-20020a056000170d00b001f1fefadb85mr7193378wrc.148.1646766392036; Tue, 08 Mar 2022 11:06:32 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id m34-20020a05600c3b2200b00380e3225af9sm3335969wms.0.2022.03.08.11.06.31 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 08 Mar 2022 11:06:31 -0800 (PST) From: zimoun Date: Tue, 8 Mar 2022 20:06:17 +0100 Message-Id: <20220308190617.1011563-6-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220308190617.1011563-1-zimon.toutoune@gmail.com> References: <20220308190617.1011563-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 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+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioconductor.scm (r-diffcyt): New variable. --- gnu/packages/bioconductor.scm | 38 +++++++++++++++++++++++++++++++++++ 1 file changed, 38 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 8fcd43f27f..6c5de0542c 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2966,6 +2966,44 @@ (define-public r-dexseq exploration of the results.") (license license:gpl3+))) +(define-public r-diffcyt + (package + (name "r-diffcyt") + (version "1.14.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "diffcyt" version)) + (sha256 + (base32 "1yc9mlc0ifb7h6rzskq97bsdq1kwdp5qq9l9mciwyxf6yjkmv5ni")))) + (properties `((upstream-name . "diffcyt"))) + (build-system r-build-system) + (propagated-inputs + (list r-circlize + r-complexheatmap + r-dplyr + r-edger + r-flowcore + r-flowsom + r-limma + r-lme4 + r-magrittr + r-multcomp + r-reshape2 + r-s4vectors + r-summarizedexperiment + r-tidyr)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/lmweber/diffcyt") + (synopsis "Differential discovery in high-dimensional cytometry") + (description + "Statistical methods for differential discovery analyses in +high-dimensional cytometry data (including flow cytometry, mass cytometry or +CyTOF, and oligonucleotide-tagged cytometry), based on a combination of +high-resolution clustering and empirical Bayes moderated tests adapted from +transcriptomics.") + (license license:expat))) + (define-public r-dirichletmultinomial (package (name "r-dirichletmultinomial")