From patchwork Tue Jan 18 17:54:10 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 36590 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 99F0C27BBEA; Tue, 18 Jan 2022 17:55:21 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H3,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 6895827BBE9 for ; Tue, 18 Jan 2022 17:55:21 +0000 (GMT) Received: from localhost ([::1]:48238 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1n9shU-0005UK-Gd for patchwork@mira.cbaines.net; Tue, 18 Jan 2022 12:55:20 -0500 Received: from eggs.gnu.org ([209.51.188.92]:35340) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9shC-0005Os-CF for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:02 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:58724) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9shC-0002lG-27 for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:02 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1n9shC-00007W-2g for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:02 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#53349] [PATCH 1/9] gnu: r-org-dr-eg-db: Update to 3.14.0. 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"org.Hs.eg.db"))) (build-system r-build-system) From patchwork Tue Jan 18 17:54:11 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 36594 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 EE96227BBEA; Tue, 18 Jan 2022 18:06:16 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H3,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 BA6EC27BBE9 for ; Tue, 18 Jan 2022 18:06:16 +0000 (GMT) Received: from localhost ([::1]:33318 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1n9ss3-0006uo-QL for patchwork@mira.cbaines.net; Tue, 18 Jan 2022 13:06:15 -0500 Received: from eggs.gnu.org ([209.51.188.92]:35366) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9shD-0005SP-Pd for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:03 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:58727) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9shD-0002nk-EJ for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:03 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1n9shD-00007t-Cg for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:03 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#53349] [PATCH 2/9] gnu: Add r-jetset. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 18 Jan 2022 17:55:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 53349 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 53349@debbugs.gnu.org Cc: zimoun Received: via spool by 53349-submit@debbugs.gnu.org id=B53349.1642528479388 (code B ref 53349); Tue, 18 Jan 2022 17:55:03 +0000 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:39 +0000 Received: from localhost ([127.0.0.1]:51617 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgo-000066-Lw for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:38 -0500 Received: from mail-wm1-f51.google.com ([209.85.128.51]:55172) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgi-0008WF-Oe for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:34 -0500 Received: by mail-wm1-f51.google.com with SMTP id p18so29475831wmg.4 for <53349@debbugs.gnu.org>; Tue, 18 Jan 2022 09:54:32 -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=JW+3umfWGt1wr/7ac/ngEJnlI8+3QT3NA2vSDbtnnFg=; b=bbWLUixHymSQkJpfv1lci/jYPoeW8BYNUzKqpQy82M4JvcjOaytDCJ9+13Sqx1D2tX yZ+HUVyaNJbphz4r0UwiREZm60E/OJ8FzlS1VYBnJO1qR+WCKlZFeZDmO57yloVsMFSW Sc/4cW1L9Q7dFMLtoiH8a4d2Bn2S4bYitPm2iCpFE//dnHxGkAgoZVb1BSjjzTU7R9XD RXh6/nH1TCfzBBxq6Zl0tAoKZDvRe5U/7lWmZGnx3kEKw2QOn+exNF2ra6qGEasVvyK6 gpj6X139TfP/WYMJnJ+E+r4qNvCrvE0wHJnLfZ8XcZChpiK+qXKjCXURnXIDy5I6FAch WsUQ== 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=JW+3umfWGt1wr/7ac/ngEJnlI8+3QT3NA2vSDbtnnFg=; b=fnYh4ILQSN7umGDlz+EPHaKWR4UECuRBUF1nRhdBKSJEBJ0DbJHiXWJ6J1vaOK3A8t m/sAomL+s6dTIzk595PeOtggcUrtJ6+l1I69ff/6QvOWrbe4xPhIXvhrNqYuk+GSSukK SCGbjMISNhQOZ/nZFumzaR97hy23738zPS4EfLJTw81ExGQJAOyMbyH8YPKs9PvtklSU 2PIU0mYzbfFinTIsQfrDjM+BLOOOKsyrlqxlUj2nD5xdlO1EPMjymcrUQl/ODJHEU0Ev +omorMt2AseyAhgFSy7OC/ENGqW0V/9uJP78tjgFR08iD2AZ/mLrzhwi2ivByM6bKHBf HlYQ== X-Gm-Message-State: AOAM531BUfwLiLthqVWEMAQKabaNBCAYQXT/PpyVHRl43Nu3mXHNg1lc 6p8p7FUUbD06hOCZzyXV+5qxkTSgmKY= X-Google-Smtp-Source: ABdhPJyikvXOiiRLJWlkDP4ujwN4PawW3EO5FfJe0KYo7jnmiRTiJAeWYPvBcJJBTAFk92MIYRnOKg== X-Received: by 2002:a5d:598a:: with SMTP id n10mr18367243wri.582.1642528466973; Tue, 18 Jan 2022 09:54:26 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id v5sm2989529wmh.19.2022.01.18.09.54.26 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:26 -0800 (PST) From: zimoun Date: Tue, 18 Jan 2022 18:54:11 +0100 Message-Id: <20220118175418.1559782-2-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com> References: <20220118175418.1559782-1-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-jetset): New variable. --- gnu/packages/bioconductor.scm | 27 +++++++++++++++++++++++++++ 1 file changed, 27 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 7194e8b0e7..935c958cd0 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1965,6 +1965,33 @@ (define-public r-deconstructsigs closely reconstructs the mutational profile.") (license license:gpl2+))) +;; This is a CRAN package, but it depends on Bioconductor packages. +(define-public r-jetset + (package + (name "r-jetset") + (version "3.4.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "jetset" version)) + (sha256 + (base32 "0c99h5npsv2gf5d59s4qhkaqmjhbwa3prcykk24wzhnpfq6y6xhp")))) + (properties `((upstream-name . "jetset"))) + (build-system r-build-system) + (propagated-inputs (list r-annotationdbi r-org-hs-eg-db)) + (home-page "http://www.cbs.dtu.dk/biotools/jetset/") + (synopsis "One-to-one gene-probeset mapping for Affymetrix human microarrays") + (description + "This package provides a one-to-one mapping from gene to \"best\" probe +set for four Affymetrix human gene expression microarrays: hgu95av2, hgu133a, +hgu133plus2, and u133x3p. On Affymetrix gene expression microarrays, a single +gene may be measured by multiple probe sets. This can present a mild +conundrum when attempting to evaluate a gene \"signature\" that is defined by +gene names rather than by specific probe sets. This package also includes the +pre-calculated probe set quality scores that were used to define the +mapping.") + (license license:artistic2.0))) + ;; This is a CRAN package, but it depends on Bioconductor packages. (define-public r-nmf (package From patchwork Tue Jan 18 17:54:12 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 36589 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 6E76127BBEA; Tue, 18 Jan 2022 17:55:19 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H3,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 33A8D27BBE9 for ; Tue, 18 Jan 2022 17:55:19 +0000 (GMT) Received: from localhost ([::1]:48210 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1n9shS-0005St-Ca for patchwork@mira.cbaines.net; Tue, 18 Jan 2022 12:55:18 -0500 Received: from eggs.gnu.org ([209.51.188.92]:35346) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9shC-0005QK-VB for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:02 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:58725) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9shC-0002lV-Gt for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:02 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1n9shC-00007d-Gg for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:02 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#53349] [PATCH 3/9] gnu: Add r-hgu133plus2-db. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 18 Jan 2022 17:55:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 53349 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 53349@debbugs.gnu.org Cc: zimoun Received: via spool by 53349-submit@debbugs.gnu.org id=B53349.1642528478373 (code B ref 53349); Tue, 18 Jan 2022 17:55:02 +0000 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:38 +0000 Received: from localhost ([127.0.0.1]:51613 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgo-00005v-1A for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:38 -0500 Received: from mail-wm1-f46.google.com ([209.85.128.46]:40762) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgj-0008WG-5U for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:34 -0500 Received: by mail-wm1-f46.google.com with SMTP id 25-20020a05600c231900b003497473a9c4so7751175wmo.5 for <53349@debbugs.gnu.org>; Tue, 18 Jan 2022 09:54:33 -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=l9wvE/dOVJx5zGtqmZtitG/r4lNzCBdYptTht/o9pb0=; b=h7fiVoIAshVpEVElFW2cUMdig3LTcP+gJFIe7zxc1Xj/qEwi1EOMN6j2vaX4vqU/qV +SGZwfEBE7t+rAqhr6LRJlYZbyRW8lV2LB570QFKD4i5U5v1SYAcVnedas7nvVTY+fxG 4hcz+V1O12R1AmGZmXvgb2vAZHTV/32OuglLVTso7ohdUaiPFx3Q3WDzD15r/2D9c1p/ lrLKPvsImAj6qTe18QwgjrbU4nTlte+oANBU0Q7REkvYJCgcUEX8PSQ2Jbz93dWKGBSy jFYos5hdguWAnknNZ8q8fyEI1YOekV0J4+W6CqprSeeKnl2uK3OAZ3fhDnWeA5/aCBq9 lYBg== 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=l9wvE/dOVJx5zGtqmZtitG/r4lNzCBdYptTht/o9pb0=; b=4jYy2iGE859xCo1+kHuu0tmpQk/HJtD8r0kGCItoUPYr+IOm4C0plVAXbQ+2/cwK2l ddlGbRaX1AM9f+yKQFfM/e6AsesAuYt07MJguMfRUCBqfabr0dbTYEMxvVs5Q16Ggpup HxPxAp52vqj+QW6TnKsfyB/wGqaIsqCwsfG0zQ/eVffGA+MHsBdIVnr2eVy0FqQJktLY f+VBc6f16x3jBvQH3KRuGpjgvDV6yRqnkl3JnezKE78RSueoKZupwpw5AskjoUZ8k2MO H784QX+jdJWUnojPkRaddm3bz6YtCym9f6aNHDulUVo7C2JjfE5Ty8vYapz6SVTsE0Pi H9Fg== X-Gm-Message-State: AOAM532ICxjN7U2M6vEloYOkvHBJkOcqm0MztTAL5i2GgLKAJB2txyM1 NGJYhXWWlUWD7a8i+g3+TLCwA2+ujAk= X-Google-Smtp-Source: ABdhPJxgMCn2akmbRcqTG8q5QIvJKC/BKlVuLfziul114iSgL92kBE1Wti44w88ckXgwYsZUhNSxRg== X-Received: by 2002:adf:fb84:: with SMTP id a4mr25624469wrr.315.1642528467504; Tue, 18 Jan 2022 09:54:27 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id v5sm2989529wmh.19.2022.01.18.09.54.27 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:27 -0800 (PST) From: zimoun Date: Tue, 18 Jan 2022 18:54:12 +0100 Message-Id: <20220118175418.1559782-3-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com> References: <20220118175418.1559782-1-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-hgu133plus2-db): New variable. --- gnu/packages/bioconductor.scm | 20 ++++++++++++++++++++ 1 file changed, 20 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 935c958cd0..aece88ab5b 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -956,6 +956,26 @@ (define-public r-do-db Disease Ontology.") (license license:artistic2.0))) +(define-public r-hgu133plus2-db + (package + (name "r-hgu133plus2-db") + (version "3.13.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "hgu133plus2.db" version 'annotation)) + (sha256 + (base32 "0i6cfk7ahql4fcgrq0dai9gkjbsahyzd9iv4lqv1ad58fzkmipnx")))) + (properties `((upstream-name . "hgu133plus2.db"))) + (build-system r-build-system) + (propagated-inputs (list r-annotationdbi r-org-hs-eg-db)) + (home-page "https://bioconductor.org/packages/hgu133plus2.db") + (synopsis "Affymetrix Affymetrix HG-U133_Plus_2 Array annotation data") + (description + "This package provides Affymetrix HG-U133_Plus_2 array annotation +data (chip hgu133plus2) assembled using data from public repositories.") + (license license:artistic2.0))) + (define-public r-pfam-db (package (name "r-pfam-db") From patchwork Tue Jan 18 17:54:13 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 36591 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 42CAC27BBEA; Tue, 18 Jan 2022 17:56:04 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H3,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 EF66C27BBE9 for ; Tue, 18 Jan 2022 17:56:03 +0000 (GMT) Received: from localhost ([::1]:49104 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1n9siB-00067h-09 for patchwork@mira.cbaines.net; Tue, 18 Jan 2022 12:56:03 -0500 Received: from eggs.gnu.org ([209.51.188.92]:35352) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9shD-0005RA-8w for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:03 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:58726) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9shC-0002lf-Uc for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:02 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1n9shC-00007m-UE for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:02 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#53349] [PATCH 4/9] gnu: Add r-chorddiag. 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(license license:gpl2))) +(define-public r-chorddiag + (package + (name "r-chorddiag") + (version "0.1.3") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/mattflor/chorddiag") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "1bpy9q861l1hyyiqbx2f7qzp7j7im8bkcfdwgxzk5fm0250p359a")))) + (build-system r-build-system) + (propagated-inputs + (list r-htmlwidgets r-rcolorbrewer)) + (native-inputs + (list r-knitr)) + (home-page "https://github.com/mattflor/chorddiag") + (synopsis "Create D3 chord diagram") + (description + "This package provides tools to create interactive chords diagrams via +the D3 Javascript library. Chord diagrams show directed relationships among a +group of entities. This package is based on +@url{http://bl.ocks.org/mbostock/4062006} with some modifications (fading) and +additions (tooltips, bipartite diagram type).") + (license license:gpl3+))) + (define-public r-dichromat (package (name "r-dichromat") From patchwork Tue Jan 18 17:54:14 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 36593 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 B2E0727BBEA; Tue, 18 Jan 2022 17:56:23 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H3,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 7F7DD27BBE9 for ; Tue, 18 Jan 2022 17:56:23 +0000 (GMT) Received: from localhost ([::1]:50388 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1n9siU-00074p-MF for patchwork@mira.cbaines.net; Tue, 18 Jan 2022 12:56:22 -0500 Received: from eggs.gnu.org ([209.51.188.92]:35384) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9shE-0005VJ-Jv for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:04 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:58729) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9shE-0002un-8x for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:04 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1n9shE-000088-8i for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:04 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#53349] [PATCH 5/9] gnu: Add r-scico. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 18 Jan 2022 17:55:04 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 53349 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 53349@debbugs.gnu.org Cc: zimoun Received: via spool by 53349-submit@debbugs.gnu.org id=B53349.1642528479403 (code B ref 53349); Tue, 18 Jan 2022 17:55:04 +0000 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:39 +0000 Received: from localhost ([127.0.0.1]:51621 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgp-00006K-8w for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:39 -0500 Received: from mail-wm1-f52.google.com ([209.85.128.52]:36606) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgk-0008WJ-8f for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:35 -0500 Received: by mail-wm1-f52.google.com with SMTP id i187-20020a1c3bc4000000b0034d2ed1be2aso6330848wma.1 for <53349@debbugs.gnu.org>; Tue, 18 Jan 2022 09:54:34 -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:in-reply-to:references :mime-version:content-transfer-encoding; bh=PZgTewIzqHTpOR3rldsbODC+Wjv4m6rnNnABe1RnYfw=; b=Mc3a6Du9TAbDWAltigEFCt/QPGseuVBEiLksBxbELFJoYxuJCtE1JbT/E3nTzQ50WS lWqNfpmQpfX0T74RNxVN0Z7ExGOQViZ12WPZBr3Ovp+F3dWpQNgolq4+LXPrpuYMYeJC qNv85oUsgvxCWyf/V64mMjHkCJ542qh9WzLJgQVu7o5Ikz4NyV+cXMaxCAQ63SOKaFAF lJvePmiNgr5qgNyXHLIsF0a/rFSbRwtbO24dURXS26T8awf7/mOwO8e7/qg511e9PUJG cYbmyPwU4+3vTOuOIocxKonxYVn+tC5Vowmprf4YilBcTvYJApcw31VbXTAvw2ZOqd59 XTEw== 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=PZgTewIzqHTpOR3rldsbODC+Wjv4m6rnNnABe1RnYfw=; b=YEof10vgmh2TJqzPjokHkhMTQLBtri9seFHNOLd7ziGT8TElOXzEpyYefohZGLoJ4d ZyXrkT2JEbh8O+TyLQIzUaCJm7VbC6EBDysSdHGUpuh0pTsj9hxoPVxax1RNtbjse0CD eok5pf6QMSkb4fVi4Owi/EQYC7BkAyyUlcY4RnwhzeA+/9opwgymjCJ9nX1ErmsgJVZ+ RNJ8zzc3bIrHR8Fj8tcazdLU3oreqRCDc0B+J5BG6K47ur77KYtmNTiAnTO1SLVqeMl+ F4BrO+4dZeF5ucEq6mBrhN/jf2/H2htpFGg4amDv7dqipc8VUFVDOgmqVh/7XSdUpJFQ QEeg== X-Gm-Message-State: AOAM532g6lx9QI1sj5CUE7sBX96GhJRhVgXFjETUsvg3ZvQlVbaoJJ4A Q/mmGpuXqnAdRYbv/UqCuzaVgrdy6wI= X-Google-Smtp-Source: ABdhPJxJWUHwDRP/Y+5VEdCTLTEJXsZadSUuWm7DOPC7My+I5CENBj4zav1KrDjWY+RANctY0e4zdw== X-Received: by 2002:a7b:c8c7:: with SMTP id f7mr32625419wml.16.1642528468671; Tue, 18 Jan 2022 09:54:28 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id v5sm2989529wmh.19.2022.01.18.09.54.28 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:28 -0800 (PST) From: zimoun Date: Tue, 18 Jan 2022 18:54:14 +0100 Message-Id: <20220118175418.1559782-5-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com> References: <20220118175418.1559782-1-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-scico): New variable. --- gnu/packages/cran.scm | 26 +++++++++++++++++++++++++- 1 file changed, 25 insertions(+), 1 deletion(-) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index ce7655e6a6..2caa12031b 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -31,7 +31,7 @@ ;;; Copyright © 2020 Antoine Côté ;;; Copyright © 2020 Arun Isaac ;;; Copyright © 2020 Magali Lemes -;;; Copyright © 2020, 2021 Simon Tournier +;;; Copyright © 2020, 2021, 2022 Simon Tournier ;;; Copyright © 2020 Aniket Patil ;;; Copyright © 2021 Marcel Schilling ;;; Copyright © 2021 Guillaume Le Vaillant @@ -27108,6 +27108,30 @@ (define-public r-warp observations.") (license license:expat))) +(define-public r-scico + (package + (name "r-scico") + (version "1.3.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "scico" version)) + (sha256 + (base32 "08grfbjd5s0vdw76ni37yjl2242rr8i2jy72sgpwgra282hpnji3")))) + (properties `((upstream-name . "scico"))) + (build-system r-build-system) + (propagated-inputs (list r-scales)) + (home-page "https://github.com/thomasp85/scico") + (synopsis "Colour Palettes Based on the Scientific Colour-Maps") + (description + "This package provides colour choice in information visualisation. It +important in order to avoid being mislead by inherent bias in the used colour +palette. This package provides access to the perceptually uniform and +colour-blindness friendly palettes developed by Fabio Crameri and released +under the \"Scientific Colour-Maps\" moniker. The package contains 24 +different palettes and includes both diverging and sequential types.") + (license license:expat))) + (define-public r-slider (package (name "r-slider") From patchwork Tue Jan 18 17:54:15 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 36595 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 27A3E27BBEA; Tue, 18 Jan 2022 18:06:25 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H3,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 EEF0627BBE9 for ; Tue, 18 Jan 2022 18:06:24 +0000 (GMT) Received: from localhost ([::1]:33806 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1n9ssB-0007He-Vx for patchwork@mira.cbaines.net; Tue, 18 Jan 2022 13:06:24 -0500 Received: from eggs.gnu.org ([209.51.188.92]:35378) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9shE-0005TN-4f for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:04 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:58728) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9shD-0002rP-QN for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:03 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1n9shD-000080-Q0 for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:03 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#53349] [PATCH 6/9] gnu: Add r-add2ggplot. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 18 Jan 2022 17:55:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 53349 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 53349@debbugs.gnu.org Cc: zimoun Received: via spool by 53349-submit@debbugs.gnu.org id=B53349.1642528479395 (code B ref 53349); Tue, 18 Jan 2022 17:55:03 +0000 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:39 +0000 Received: from localhost ([127.0.0.1]:51619 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgp-00006D-01 for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:39 -0500 Received: from mail-wm1-f52.google.com ([209.85.128.52]:53186) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgk-0008WL-Sw for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:35 -0500 Received: by mail-wm1-f52.google.com with SMTP id v123so29495335wme.2 for <53349@debbugs.gnu.org>; Tue, 18 Jan 2022 09:54:34 -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:in-reply-to:references :mime-version:content-transfer-encoding; bh=fmeKKMwiCVGRpZ8nX+jw/so5gF0dTLbZIC1KXCMbT8c=; b=A+RjtrCzG0XjJROTguCJ/tk4skyxnrnEAMks6aPQ2uEYY7JgG34snG6g8+k3G8MZ9l x6WUzkAG5UDq0G2O15FerPFY22+//6z/fYtyt3NlJdRbEdoZhICz5gjKGzxWVZ6sdAG4 vFdsKneBAmcunQhwDaEaxwfeoR7V2aI3orUDnuQ8SglfPiuh+w6rHA0oxuPsIdBWDVO9 NjmlMxAeNEEI31l4gq/E5qwxzqVzv4tx7P3tC+ZH8sjHOPAL0JyqUUS2RCxVK6M34fd1 jF356/usRuhdNuy90KbMC+WGQl95+DFALnlERh/HKYOlHu6kSFr+m9i1zdHdNARGIuZ6 sThQ== 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=fmeKKMwiCVGRpZ8nX+jw/so5gF0dTLbZIC1KXCMbT8c=; b=EtXCV0CBXkSqDebMdRGIPw+uDCZj4s0L2x06suCWDEJ+lsMG58Y09xI6kU+KDjKmTb 0uucO6oKmskfJ0GMGY6hVJsXQXiUqf1RjxmNmvOdl5aSuqAyxv74bp/X80Rr5+BMjmIX LXUSMPd5bx6L4MlFAYpI0H1oqjFvrSwz2af1FyyMjbq2tTXzgBMwkp4wt9jjG2QQedHF rbPwIC2WlPM8je0C9EqAOZ3584fvuo2EiOQaklWyO3/LNwElkWKInBSQcCWcH5z3xj4a T6Kb0nDCz7HHWCbNvt9L07JTwLpse7BimowMxXa1R8Sio4ZQCE0cCEirKv2NBiqo30QV 22oA== X-Gm-Message-State: AOAM533m/wMV4kgKSt6cGTv4qfurv0UNiYRlLWCJlfkHCg+hg9pkSlhr 6eBzgPZ8virvrYqu6MB/4jHtWTbnZD0= X-Google-Smtp-Source: ABdhPJzY/NLo7TQNi3GSl8/yP8rkYSh93NNfnGldBOg0O0mWVrds2UaUczEIC40Fk4VBu94E5euIvA== X-Received: by 2002:adf:f6cb:: with SMTP id y11mr20270238wrp.419.1642528469236; Tue, 18 Jan 2022 09:54:29 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id v5sm2989529wmh.19.2022.01.18.09.54.28 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:28 -0800 (PST) From: zimoun Date: Tue, 18 Jan 2022 18:54:15 +0100 Message-Id: <20220118175418.1559782-6-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com> References: <20220118175418.1559782-1-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-add2ggplot): New variable. --- gnu/packages/cran.scm | 21 +++++++++++++++++++++ 1 file changed, 21 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 2caa12031b..350ece7d35 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -26910,6 +26910,27 @@ (define-public r-adaptivesparsity geometric models.") (license license:lgpl3+))) +(define-public r-add2ggplot + (package + (name "r-add2ggplot") + (version "0.3.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "add2ggplot" version)) + (sha256 + (base32 "0c94i1cfp2pvplvxmfvvz2fyj026r1jnax05mrzrc7ppnqzy25y0")))) + (properties `((upstream-name . "add2ggplot"))) + (build-system r-build-system) + (propagated-inputs + (list r-ggplot2 r-magick r-magrittr r-rcolorbrewer r-zeallot)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/JiaxiangBU/add2ggplot") + (synopsis "Extension for ggplot2") + (description "This packages provides tools to create themes and color +palettes for the package ggplot2.") + (license license:expat))) + (define-public r-diffusionmap (package (name "r-diffusionmap") From patchwork Tue Jan 18 17:54:16 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 36592 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 5381727BBEA; Tue, 18 Jan 2022 17:56:12 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H3,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 0C02727BBE9 for ; Tue, 18 Jan 2022 17:56:12 +0000 (GMT) Received: from localhost ([::1]:49734 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1n9siJ-0006e4-0I for patchwork@mira.cbaines.net; Tue, 18 Jan 2022 12:56:11 -0500 Received: from eggs.gnu.org ([209.51.188.92]:35388) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9shF-0005Vu-1M for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:05 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:58730) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9shE-0002x4-N3 for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:04 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1n9shE-00008F-NM for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:04 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#53349] [PATCH 7/9] gnu: Add r-rlist. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 18 Jan 2022 17:55:04 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 53349 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 53349@debbugs.gnu.org Cc: zimoun Received: via spool by 53349-submit@debbugs.gnu.org id=B53349.1642528480410 (code B ref 53349); Tue, 18 Jan 2022 17:55:04 +0000 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:40 +0000 Received: from localhost ([127.0.0.1]:51623 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgp-00006T-MS for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:39 -0500 Received: from mail-wm1-f53.google.com ([209.85.128.53]:55183) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgl-0008WM-Ej for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:35 -0500 Received: by mail-wm1-f53.google.com with SMTP id p18so29476036wmg.4 for <53349@debbugs.gnu.org>; Tue, 18 Jan 2022 09:54:35 -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=ppsB+3uX6b5dvsjx2ifjW7KLjPahioASoJD8N1Iidts=; b=Z79rJN/6m5lwasyQzEOjih8vsfGlTwYNK7hibh8HX7h8w6QpBgQmISJSh/lLThxHV1 mWpYJYDL5A+ldvw1PzMrUmmSxo2VdM646bCz5ayzTtjC5jFW8qa6GbEsogBJbgjxT1rB mJmeoKrxk6YXa4iX4DeR943BtY87vsremAGFhLbWrERaWm+sIC1MGs8qM+lmQV9zTJzn Cl+eswea+a5NaFDlDntAvV1It6/pmvsPioM4zikTo7SWTGtAsqSfeGTiBNmx1XaL1Se9 aEckor0wJj4x/dm4cG32PaCDx4+WL4BQsNP+eQsq8xMkNVe6e8rnMAKL9nh7nutgCSl2 2zvA== 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=ppsB+3uX6b5dvsjx2ifjW7KLjPahioASoJD8N1Iidts=; b=WmGZ40YN20Iq4R+FcI7fGBEbF3roajADe8WVd3jbwNHOs0DZztk4PLDYatK9rwPBPe RSosROqdw5Dhdm50vV8BuoK+uB4l91nzkDKPHtsAIcZWYlF9f6ifscQoC2D3QXBAwmRv /L0ckvRoxCHDT1DjQaNmFy1g3LR8Y5um+/WIPqHCkKLslb6ngSiYkdGo9itr0G5DhxdC w7Q/giugG4H1M9IgAy99a8Lj4KccciSF+DDkGkgBzRunzSYCHBD6jx4Wjf62x5zQmrv1 G22ycJ9xKmne+SAD4iaXb50JaYb5vGrk2LVb+3Q5+xVNONgeJEa7ydixdql2dt+0uZD+ Ao7g== X-Gm-Message-State: AOAM531syLfJVaNmF69hJByHt3WLZ1fbL3tHq/6otj5Db2+qqzTXgOPY MNKinehUtPt9yh0tQ6oYTbPcl0qDk2Y= X-Google-Smtp-Source: ABdhPJxI5ZrBvF9PoHZfPU8/3vKXeapsdVF4GvlJPDlG4ICTXM09sM80IYTR8aZet8y0YfSc1SYiEg== X-Received: by 2002:a05:600c:298:: with SMTP id 24mr17662310wmk.87.1642528469853; Tue, 18 Jan 2022 09:54:29 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id v5sm2989529wmh.19.2022.01.18.09.54.29 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:29 -0800 (PST) From: zimoun Date: Tue, 18 Jan 2022 18:54:16 +0100 Message-Id: <20220118175418.1559782-7-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com> References: <20220118175418.1559782-1-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-rlist): 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 350ece7d35..cb64c93f3e 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -27178,6 +27178,28 @@ (define-public r-slider sliding windows are to be created.") (license license:expat))) +(define-public r-rlist + (package + (name "r-rlist") + (version "0.4.6.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "rlist" version)) + (sha256 + (base32 "15q99rhbbjq8zd976yjmfnny45dd5fg2p2dv1sljg2kwi66nbppb")))) + (properties `((upstream-name . "rlist"))) + (build-system r-build-system) + (propagated-inputs (list r-data-table r-jsonlite r-xml r-yaml)) + (home-page "https://renkun-ken.github.io/rlist/") + (synopsis "A Toolbox for Non-Tabular Data Manipulation") + (description + "This package provides a set of functions for data manipulation with +list objects, including mapping, filtering, grouping, sorting, updating, +searching, and other useful functions. Most functions are designed to be +pipeline friendly so that data processing with lists can be chained.") + (license license:expat))) + (define-public r-rsample (package (name "r-rsample") From patchwork Tue Jan 18 17:54:17 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 36597 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 C5CAC27BBEA; Tue, 18 Jan 2022 18:06:42 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H3,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 1E84127BBE9 for ; Tue, 18 Jan 2022 18:06:40 +0000 (GMT) Received: from localhost ([::1]:34664 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1n9ssR-0007tg-9O for patchwork@mira.cbaines.net; Tue, 18 Jan 2022 13:06:39 -0500 Received: from eggs.gnu.org ([209.51.188.92]:35392) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9shF-0005YP-S6 for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:05 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:58732) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9shF-0002xX-H3 for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:05 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1n9shF-00008W-HC for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:05 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#53349] [PATCH 8/9] gnu: Add r-icellnet. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 18 Jan 2022 17:55:05 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 53349 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 53349@debbugs.gnu.org Cc: zimoun Received: via spool by 53349-submit@debbugs.gnu.org id=B53349.1642528491442 (code B ref 53349); Tue, 18 Jan 2022 17:55:05 +0000 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:51 +0000 Received: from localhost ([127.0.0.1]:51627 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sh1-000073-DT for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:51 -0500 Received: from mail-wm1-f53.google.com ([209.85.128.53]:55186) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgm-0008WQ-BD for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:37 -0500 Received: by mail-wm1-f53.google.com with SMTP id p18so29476131wmg.4 for <53349@debbugs.gnu.org>; Tue, 18 Jan 2022 09:54:36 -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=4i7syCiE81s1lg1xy/w43c4iR25z0okMEQlkn7QPGWU=; b=Q3A4yO420NfFZECwdQq5jfX8XYSwYLFgIEksCU2T5mHby/kxRazzle9bjDFNDqSsJe 67xjRirhglTrpVmYtpjHkWfmIKzT3F+exB6RlXa2ksvndlarqJ3SAjw4LHodxttcTeac kYOsUeKp+xpt0yHkOC8xFvMj2tf+GHDh5NNEFBYqPbdCfBSb93gVBGZ38qFX/6I6fTDZ 1eX//OZogL2/kxxp+OyRCgP1VxW3BbLdQo7uaun8hfT+yF1GZliNthLAITCzKjrBLq8A xMNdmSCyMovDyUQWSD5x2EvgQBF57YFjOL/KKF7jp48TXeKHgw9MxTQupQiCjajz6/+V t6Ng== 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=4i7syCiE81s1lg1xy/w43c4iR25z0okMEQlkn7QPGWU=; b=wSz23QulxjxTPc4liBFckr9sh2K4DrxGb4ceKKWJuueTf4h1wOUdsTZEFMcxddKEDs og0649FBom+Raye9L7MSfNkYD63Xyf9fHHspWqDJFtgpkHCXksUb6KUknziqNkLkNUzc XrIaeRdLB3cbSdWj0PVEySXIYFeBPRkfKXw77bLIrGyO/b+nqwAPKY/qEXP7UdZWjgmR UAND7iBn08YbPb0CF+2IjsFnjxmjWtOI0yAFsTHVclid2nMXlmjarFwNIK7/MIy7324H jtWzX2aTzwAbf2DoN+G6xtLjtRyNH+NGI9+73U/zDvmFNDcxn5sbu5Oyj4IWTMlPlMZv +wFg== X-Gm-Message-State: AOAM531Zav6zIHMy2joyNSpkL6cnZYez333gBuazfyFeUN1QaC7lGrGC UJuCmHdSmD64Gie8zIMEa7D71AJpB0I= X-Google-Smtp-Source: ABdhPJw6MPxC3tyA1F6mvoCm0J16pjvbry48cEroa6VEXXe6Tr89zH096Bo/X+RkhBwdSNTVRNZyjA== X-Received: by 2002:a1c:a90c:: with SMTP id s12mr21702829wme.27.1642528470522; Tue, 18 Jan 2022 09:54:30 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id v5sm2989529wmh.19.2022.01.18.09.54.29 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:30 -0800 (PST) From: zimoun Date: Tue, 18 Jan 2022 18:54:17 +0100 Message-Id: <20220118175418.1559782-8-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com> References: <20220118175418.1559782-1-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/bioinformatics.scm (r-icellnet): New variable. --- gnu/packages/bioinformatics.scm | 46 ++++++++++++++++++++++++++++++++- 1 file changed, 45 insertions(+), 1 deletion(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 6caeec80f7..b2bd7fbbc0 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -21,7 +21,7 @@ ;;; Copyright © 2020 Bonface Munyoki Kilyungi ;;; Copyright © 2021 Tim Howes ;;; Copyright © 2021 Hong Li -;;; Copyright © 2021 Simon Tournier +;;; Copyright © 2021, 2022 Simon Tournier ;;; Copyright © 2021 Felix Gruber ;;; ;;; This file is part of GNU Guix. @@ -7771,6 +7771,50 @@ (define-public r-archr "This package is designed to streamline scATAC analyses in R.") (license license:gpl2+)))) +(define-public r-icellnet + ;; v1.0 tagged in 2020, last commit contains many fixes. + ;; DESCRIPTION says Version: 0.0.0.9000. + (let ((commit "b9c05488fb8b5ea69bd560018966eaf4e25f82a") + (revision "0")) + (package + (name "r-icellnet") + (version (git-version "1.0" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/soumelis-lab/ICELLNET") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "0cld7d6xqnvd0zpcpg3sx73an6vdc9divzywgnn6zxnqcd987cnw")))) + (build-system r-build-system) + (arguments + `(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'enter-dir + (lambda _ (chdir "icellnet")))))) + (propagated-inputs + (list r-annotationdbi + r-data-table + r-dplyr + r-ggplot2 + r-hgu133plus2-db + r-jetset + r-psych + r-reshape2 + r-rlist)) + (home-page "https://github.com/soumelis-lab/ICELLNET") + (synopsis "Transcriptomic-based framework to dissect cell communication") + (description "This packages provides a a transcriptomic-based framework +to dissect cell communication in a global manner. It integrates an original +expert-curated database of ligand-receptor interactions taking into account +multiple subunits expression. Based on transcriptomic profiles (gene +expression), this package allows to compute communication scores between cells +and provides several visualization modes that can be helpful to dig into +cell-cell interaction mechanism and extend biological knowledge.") + (license license:gpl3)))) + (define-public r-scde (package (name "r-scde") From patchwork Tue Jan 18 17:54:18 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 36596 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 36A8627BBEA; Tue, 18 Jan 2022 18:06:33 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H3,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 F17B227BBE9 for ; Tue, 18 Jan 2022 18:06:32 +0000 (GMT) Received: from localhost ([::1]:34250 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1n9ssK-0007at-4T for patchwork@mira.cbaines.net; Tue, 18 Jan 2022 13:06:32 -0500 Received: from eggs.gnu.org ([209.51.188.92]:35390) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9shF-0005X6-II for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:05 -0500 Received: from debbugs.gnu.org ([209.51.188.43]:58731) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9shF-0002xJ-46 for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:05 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1n9shF-00008P-4O for guix-patches@gnu.org; Tue, 18 Jan 2022 12:55:05 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#53349] [PATCH 9/9] gnu: Add r-scseqcomm. Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 18 Jan 2022 17:55:05 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 53349 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 53349@debbugs.gnu.org Cc: zimoun Received: via spool by 53349-submit@debbugs.gnu.org id=B53349.1642528480416 (code B ref 53349); Tue, 18 Jan 2022 17:55:05 +0000 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:40 +0000 Received: from localhost ([127.0.0.1]:51625 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgq-00006Z-1F for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:40 -0500 Received: from mail-wm1-f44.google.com ([209.85.128.44]:36611) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgm-0008WR-OH for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:37 -0500 Received: by mail-wm1-f44.google.com with SMTP id i187-20020a1c3bc4000000b0034d2ed1be2aso6331168wma.1 for <53349@debbugs.gnu.org>; Tue, 18 Jan 2022 09:54:36 -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=FCiSitr3ygd0IqP3O+zTKq1GSVM4vTBN+d0tSF3I4aA=; b=ZxY8FiF0kJVuhfzYQoB4aQ6xBOrI/9vLhY4Zg3Z4cYXpF+O93GM/sxyXH1y+Cxncyv oXI+vrFor6Q/Dn/f/HMtUUpQN6A+4j27z9tcSOLQ7pPEYu22txpL82pn2GMFiVuDFA7L H1pHEMJIeB5FRI18ewtBml6/jKVpl4F61+P6l8/NR9Fqi8x4S35J0GtgKUtT15ndE2Ss O2niCK/gwVAGW1ali8Ns9Q79Vungxx2M2g6zF8iWmnRyIgaH9tcMxBG847P59CY6EhGh 5nRMOiAKKLhXtDsi8s5c2cIIz59GyFLm5LIsbcx8RfDYwjBSn7W+KPlt4O4hwP0meDwN /e3Q== 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=FCiSitr3ygd0IqP3O+zTKq1GSVM4vTBN+d0tSF3I4aA=; b=MpeXyhYsN80ctbkPzchxggZMI6Jp3uhdNRKqB1v3WIM6RIl1xTW86xce+/XiemfhCH ouy7YezANP8ANgGYKnKMRBOEayQO4ulof+Jt+vC+MA1AZB0bTlTmWvM7nEgIFOmf02Je 1Z9dDuubw4uNdezgtXJbO+kldQr2z7FCotgC1V0bN/oimx8wct7Qxfjg6rp4p1/3xKAf Dsue7uopbFg48EjRe86Vk4yVnmiwt0yaDtQhYh3ehHxID2y5bXbffcL9nLQp3xYA/GmV RzWQj52EAbP3DyD/wCL9/lWzEmIqs8sohE2adnHWGjkK5xu3jUdztmqirhY09C4bhMgs mqZg== X-Gm-Message-State: AOAM532ro1ys7OzhH4i47d2PWaaxsHqewmjmE5jRehp22782dXcPgtZt PFqbL9U/La2VMLhd2QNXPx4mVZRIyKk= X-Google-Smtp-Source: ABdhPJxWBwYiJPoF/fAobxxpBQ6oNlnHPuhSGqQ6rMG6QY22sGqbHrnhUsIUOKBC5GbOrrBxTaO36A== X-Received: by 2002:a5d:6a45:: with SMTP id t5mr3807174wrw.643.1642528471098; Tue, 18 Jan 2022 09:54:31 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id v5sm2989529wmh.19.2022.01.18.09.54.30 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:30 -0800 (PST) From: zimoun Date: Tue, 18 Jan 2022 18:54:18 +0100 Message-Id: <20220118175418.1559782-9-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com> References: <20220118175418.1559782-1-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/bioinformatics.scm (r-scseqcomm): New variable. --- gnu/packages/bioinformatics.scm | 50 +++++++++++++++++++++++++++++++++ 1 file changed, 50 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index b2bd7fbbc0..6e7974e2d7 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -7893,6 +7893,56 @@ (define-public r-misha analyze genomic data resulting from various experiments.") (license license:gpl2))) +(define-public r-scseqcomm + (let ((commit "01076e703999f1a5aa76419d821b50aebe2b777a") + (revision "0")) + (package + (name "r-scseqcomm") + (version (git-version "0" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://gitlab.com/sysbiobig/scseqcomm") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "1fw5si47d6agnz5fibmp2b1sv08pbpwv1j71w57xbav9044i032q")) + ;; Delete bundled dependency. + (modules '((guix build utils))) + (snippet + '(delete-file-recursively "other_deps")))) + (build-system r-build-system) + (inputs + (list r-add2ggplot + r-chorddiag + r-doparallel + r-dplyr + r-foreach + ;;r-grid ;; listed in DESCRIPTION + r-gridextra + r-ggplot2 + r-gtable + r-htmlwidgets + r-igraph + r-matrix + ;;r-methods ;; listed in DESCRIPTION + r-org-hs-eg-db + r-psych + r-rcolorbrewer + r-rlang + r-scico + r-tidygraph + r-topgo)) + (native-inputs + (list r-knitr)) + (home-page "https://gitlab.com/sysbiobig/scseqcomm") + (synopsis "Inter- and intra- cellular signaling from single cell RNA-seq") + (description "This package is tools for analysing intercellular and +intracellular signaling from single cell RNA-seq (scRNA-seq) data.") + (license license:gpl3)))) + (define-public r-shaman (let ((commit "d6944e8ac7bd1dbd5c6cec646eafc1d19d0ca96f") (release "2.0")