From unknown Sun Jun 22 17:12:50 2025 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable MIME-Version: 1.0 X-Mailer: MIME-tools 5.509 (Entity 5.509) Content-Type: text/plain; charset=utf-8 From: bug#53349 <53349@debbugs.gnu.org> To: bug#53349 <53349@debbugs.gnu.org> Subject: Status: [PATCH 0/9] Add 2 bioinformatics R packages Reply-To: bug#53349 <53349@debbugs.gnu.org> Date: Mon, 23 Jun 2025 00:12:50 +0000 retitle 53349 [PATCH 0/9] Add 2 bioinformatics R packages reassign 53349 guix-patches submitter 53349 zimoun severity 53349 normal tag 53349 patch thanks From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:52:10 2022 Received: (at submit) by debbugs.gnu.org; 18 Jan 2022 17:52:10 +0000 Received: from localhost ([127.0.0.1]:51586 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9seQ-0008RK-Ei for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:52:10 -0500 Received: from lists.gnu.org ([209.51.188.17]:45502) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9seN-0008RB-EG for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:52:09 -0500 Received: from eggs.gnu.org ([209.51.188.92]:34208) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1n9seN-0002MB-2W for guix-patches@gnu.org; Tue, 18 Jan 2022 12:52:07 -0500 Received: from [2a00:1450:4864:20::333] (port=37644 helo=mail-wm1-x333.google.com) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1n9seL-0002O2-O1 for guix-patches@gnu.org; Tue, 18 Jan 2022 12:52:06 -0500 Received: by mail-wm1-x333.google.com with SMTP id l12-20020a7bc34c000000b003467c58cbdfso7779386wmj.2 for ; Tue, 18 Jan 2022 09:52:05 -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=pcv35SOIJ3jS4d3fyWV0R4Pv/JQk6bXWmdoHv4WVBbw=; b=DODp1KmEo2+f80lJr+qLz7WbneTgrFCFG9qRvtQWxjRTaAxpjHx/td2rJgG45fUcyl 1gsh1mEbXf7wWIz5EW7gujbfX7hLTDS7s/YQ9UxFkeWYYg9Sqa8ZZ8vTsqy+wl3iP/zF j9i+Sb10MAbnc0oZcEYwcN6Wg0/c7SFNpRCxhQCFRCXeAAdG8zA78yP6rjhKAVh54UzP fFVeh0DfnYE+7oOPlaJNotD04jo3paOXM7gApobs8m8rLICXW/CmtjhgAUNyogRQPxvv DkxzTmurl60JWcz3Xd2B9i994nK/3Ak1Ia7ql2ZHjLszIM7eWGX59a8fZ0cI5R++tL29 DerA== 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=pcv35SOIJ3jS4d3fyWV0R4Pv/JQk6bXWmdoHv4WVBbw=; b=bcet7C9VJzWfPCQG23XFxLlrH/FfCOXG8FcHU0kzJatI1ZqVO/mevJXJbEY13Icvth 9OtgNANktUmeGUe3yifj5J3JaO//lU4gFI6WVpO2h+NuR2BWEk6jO0QMBtArCzyQWngq ozKl128LRacKR0RLSpZjZhQpBRGYujZgf/VAxiye6JbEH7oRy5vxWeDJEZnVggQfsiIO PRSsh+Cx+vjfZGds37iPyATSlbETo/Ld2Qs/pBOR/LH6LIOV1iU3wPlSBmO0rV3SF+/U 9bEdewKu1Oi2xZM10YNnRfLtNdPlRzANqGIbZkP0hAqxMJuGa00aBPMreb5hSwY8i5zG w+tg== X-Gm-Message-State: AOAM532I0fOmAC9GqWKQc2gF0wF5h3dtPDUM7vgFNzvu8TqUQE7D9AFG 7ID2Sz+jTIMegkZgEDRIO2rKiQ6F9dY= X-Google-Smtp-Source: ABdhPJxQlxlmwOOAOaALz5k7u7OGcln77EMR2jzdWBHvhoB+ncsVjyLg5GNFIcIvrgNweXWNqHgXIQ== X-Received: by 2002:a1c:f414:: with SMTP id z20mr26117411wma.17.1642528323912; Tue, 18 Jan 2022 09:52:03 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id n15sm16474429wrf.79.2022.01.18.09.52.03 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:52:03 -0800 (PST) From: zimoun To: guix-patches@gnu.org Subject: [PATCH 0/9] Add 2 bioinformatics R packages Date: Tue, 18 Jan 2022 18:51:50 +0100 Message-Id: <20220118175150.1558932-1-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 MIME-Version: 1.0 X-Debbugs-CC: rekado@elephly.net Content-Transfer-Encoding: 8bit X-Host-Lookup-Failed: Reverse DNS lookup failed for 2a00:1450:4864:20::333 (failed) Received-SPF: pass client-ip=2a00:1450:4864:20::333; envelope-from=zimon.toutoune@gmail.com; helo=mail-wm1-x333.google.com X-Spam_score_int: -12 X-Spam_score: -1.3 X-Spam_bar: - X-Spam_report: (-1.3 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, FREEMAIL_FROM=0.001, PDS_HP_HELO_NORDNS=0.001, RCVD_IN_DNSWL_NONE=-0.0001, RDNS_NONE=0.793, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=no autolearn_force=no X-Spam_action: no action X-Spam-Score: 1.4 (+) X-Spam-Report: Spam detection software, running on the system "debbugs.gnu.org", has NOT identified this incoming email as spam. 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Content preview: Hi, This series adds two bioinformatics R packages and the missing dependencies. zimoun (9): gnu: r-org-dr-eg-db: Update to 3.14.0. gnu: Add r-jetset. gnu: Add r-hgu133plus2-db. gnu: Add r-chorddiag. gnu: Add r-scico. gnu: Add r-add2ggplot. gnu: Add r-rlist. gnu: Add r-icellnet. g [...] Content analysis details: (1.4 points, 10.0 required) pts rule name description ---- ---------------------- -------------------------------------------------- -0.0 SPF_HELO_PASS SPF: HELO matches SPF record 1.0 SPF_SOFTFAIL SPF: sender does not match SPF record (softfail) 0.0 FREEMAIL_FROM Sender email is commonly abused enduser mail provider (zimon.toutoune[at]gmail.com) 0.0 RCVD_IN_MSPIKE_H3 RBL: Good reputation (+3) [209.51.188.17 listed in wl.mailspike.net] -2.3 RCVD_IN_DNSWL_MED RBL: Sender listed at https://www.dnswl.org/, medium trust [209.51.188.17 listed in list.dnswl.org] 0.0 RCVD_IN_MSPIKE_WL Mailspike good senders 1.3 SPOOFED_FREEMAIL No description available. 1.5 SPOOF_GMAIL_MID From Gmail but it doesn't seem to be... X-Debbugs-Envelope-To: submit Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.3 (--) Hi, This series adds two bioinformatics R packages and the missing dependencies. zimoun (9): gnu: r-org-dr-eg-db: Update to 3.14.0. gnu: Add r-jetset. gnu: Add r-hgu133plus2-db. gnu: Add r-chorddiag. gnu: Add r-scico. gnu: Add r-add2ggplot. gnu: Add r-rlist. gnu: Add r-icellnet. gnu: Add r-scseqcomm. gnu/packages/bioconductor.scm | 53 ++++++++++++++++-- gnu/packages/bioinformatics.scm | 96 ++++++++++++++++++++++++++++++++- gnu/packages/cran.scm | 69 +++++++++++++++++++++++- gnu/packages/statistics.scm | 30 +++++++++++ 4 files changed, 243 insertions(+), 5 deletions(-) base-commit: 5ed33b0d05902de921e972d41168910107c93515 -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:54:35 2022 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:35 +0000 Received: from localhost ([127.0.0.1]:51606 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgk-00004v-8U for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:35 -0500 Received: from mail-wm1-f43.google.com ([209.85.128.43]:37531) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgi-0008WC-EV for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:33 -0500 Received: by mail-wm1-f43.google.com with SMTP id l12-20020a7bc34c000000b003467c58cbdfso7796205wmj.2 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:mime-version :content-transfer-encoding; bh=IvDojldTbfZ/IF0SMv4VR9wW5rlfllmwFGdZgqaYRUY=; b=FWvCN/jarMOuBU/V0ZPezXxST1J/vLEmJdMp/pDzLV5C+2r+TGZTCg+cGpmDvqN2+I 09EVWta/TNYUDUmWkPOHbobzhO4xN+B8HVFg75bEY2aKVcb2/GkmVMPrVYVFNRk8QLXf ZnEb3sabtO2GRasU3I9yJFHHwIW3GoUv+CK1/JmdARYvSLcNJsWvvmekXaVuhYuNsczm G0kB12T4Kbxad3GlSNdOthMK8i7w5mP21FBhnZ4a1fTU2dmhnsbVx2pMrzSFn58vypKC ZG8MELXq3YdUsF23gpYyoasI7/0Ovnysw6lhuy6GNqjPWERTjha5VevsPsGqFv92bhl3 L0NQ== 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=IvDojldTbfZ/IF0SMv4VR9wW5rlfllmwFGdZgqaYRUY=; b=sF7lCz77Z4nY70/sADzfeMW1z1PS06xtQdzhldhJOjS8s62XMrilUxKcv+yFEoom21 78LZGnmGnY1AfEw6hhGya7KUL8OZXz7sgXWGC5ZVG+tgALsaY3XZn0wnTnBVks6Y9oEg u9siezclJRgpQ91zSwzCEEMWMEH8XRR5rXxMP0EgmHyReHQDOtCxx9KBpTWm+NfPkMOp q1B1jdYmKMD3ksEqQm0OdpKaAz8Oulny3IGgVBICTjfo4atpdTjWxFOlrltgz1YHO8dq DmFOpO8qQZVri2PDp3IWQuKVuEth587Rvwoc9B6h9ht5qQBl9H5xgiC5g61eaSE9h5OU pNYA== X-Gm-Message-State: AOAM530htXNxYWOfL+eEshbrgQNtWtPrT5d+OwLUgl2mTIZkQ/vdF2Rb n/9YLhIumGqu8BGzLZyGkcbbXz21A6c= X-Google-Smtp-Source: ABdhPJx7Q4R3IX2TpG4W8X5qUfw9lfwaCFUhL34KKrja5pDlBY0hmLfSxkidCKJQZ9Nt/lKo2F1NMA== X-Received: by 2002:a5d:64e3:: with SMTP id g3mr12874111wri.450.1642528466456; 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.19.2022.01.18.09.54.25 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:26 -0800 (PST) From: zimoun To: 53349@debbugs.gnu.org Subject: [PATCH 1/9] gnu: r-org-dr-eg-db: Update to 3.14.0. Date: Tue, 18 Jan 2022 18:54:10 +0100 Message-Id: <20220118175418.1559782-1-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.34.0 MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * gnu/packages/bioconductor.scm (r-org-dr-eg-db): Update to 3.14.0. --- gnu/packages/bioconductor.scm | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 0fbe0965c2..7194e8b0e7 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -5,7 +5,7 @@ ;;; Copyright © 2016 Ben Woodcroft ;;; Copyright © 2017 Efraim Flashner ;;; Copyright © 2017, 2018, 2019, 2020, 2021 Tobias Geerinckx-Rice -;;; Copyright © 2019, 2020, 2021 Simon Tournier +;;; Copyright © 2019, 2020, 2021, 2022 Simon Tournier ;;; Copyright © 2020 Peter Lo ;;; Copyright © 2020, 2021 Mădălin Ionel Patrașcu ;;; Copyright © 2020 Jakub Kądziołka @@ -626,13 +626,13 @@ (define-public r-org-dr-eg-db (define-public r-org-hs-eg-db (package (name "r-org-hs-eg-db") - (version "3.7.0") + (version "3.14.0") (source (origin (method url-fetch) (uri (bioconductor-uri "org.Hs.eg.db" version 'annotation)) (sha256 (base32 - "1qxz9l80yg3qdqszs6dsscp7lrpfi1bgd0pxh9j7q34vprzwhdim")))) + "0mnddv42ll0sc0zxf7hkgilslykbvfn7xgxg1g8qi57q2dmpwb6j")))) (properties `((upstream-name . "org.Hs.eg.db"))) (build-system r-build-system) -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:54:38 2022 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 To: 53349@debbugs.gnu.org Subject: [PATCH 3/9] gnu: Add r-hgu133plus2-db. 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 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * 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") -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:54:38 2022 Received: (at 53349) by debbugs.gnu.org; 18 Jan 2022 17:54:38 +0000 Received: from localhost ([127.0.0.1]:51615 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgo-00005y-9n for submit@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:38 -0500 Received: from mail-wm1-f52.google.com ([209.85.128.52]:37545) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1n9sgj-0008WI-PR for 53349@debbugs.gnu.org; Tue, 18 Jan 2022 12:54:34 -0500 Received: by mail-wm1-f52.google.com with SMTP id l12-20020a7bc34c000000b003467c58cbdfso7796443wmj.2 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=9FL+9NLWARLHiUZoaQnDKfjTTa/UyOfzFfRDiSZ5eJw=; b=p0UCoVN6BfRWtnLZS48aY+K8YEYnEv/cX6m9jtrpiCYOg1CKEzIul15t4pO9CsEcOb XNxa6Zz1/Zt43VEa2QOBpuWFH7MSuBp+VUTboVXCW4tRbsWqCWFUcJCcrj8WW59T79NM Z64iviZabL48iKhPivyavJ165LYKHop/AODqtH60P+LFEKPad1EgTWsrRPUY092N2+Zq FFnh+3ThS00SV/mDmSpbXgQWhomsYcFXKQ5BU1pOALio0tVaxNnB89lEDyv2iIk5+HPB XD7KvKppXeBPvLltAgiZNIWs+/ZlhQdugJi7IIeBi0+tehtQfi918HiX15ck7ThVW6u+ ZFWA== 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=9FL+9NLWARLHiUZoaQnDKfjTTa/UyOfzFfRDiSZ5eJw=; b=UGKv6XTF1ZJrnNMhj7irLMQyeFGYY+el7XO+g3FoTd2E2d/KkeaUFxSDZHQSj1vIC8 8tMEou9CPeXxWSgxerFVMKFaMTPrpeVWpQIhDsxiNAKxgUP4X+mLV09GFPZjCX7DhMXI 0mhBawgambdE+uI6kjBeDnNHyYkv8EKZ/mLGNZB7kE/QKICIULrWeeECCFD2Ux5QoL2U ll01OLExiZA51B4gd+npT7WVI/rlMj/IVpHDkfem31G+wK7fcebbPRYauDAF4WzPvRsb PjFDnGJ+jUdWln4jp7Ahr255E7zGclVIs9ujQwmMGafvPSf8xRh4vIa3WvIQd75BsabO PJOg== X-Gm-Message-State: AOAM530YOPi+emzl+Figule0cgHXaGWcUBKwVayCrite2aSQJUFlSzTL s94n+B9++Zkx9AYfhU+sMbxg/o129h8= X-Google-Smtp-Source: ABdhPJz6vochGG2LA0HS+6+9B55ptOWcWbRW1ja+GnubdbQ6kGlmlmjT3UpAL1svF9Yp2CD1sLqwPQ== X-Received: by 2002:a05:600c:1c99:: with SMTP id k25mr24730863wms.159.1642528468112; 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.19.2022.01.18.09.54.27 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 18 Jan 2022 09:54:27 -0800 (PST) From: zimoun To: 53349@debbugs.gnu.org Subject: [PATCH 4/9] gnu: Add r-chorddiag. Date: Tue, 18 Jan 2022 18:54:13 +0100 Message-Id: <20220118175418.1559782-4-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 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * gnu/packages/statistics.scm (r-chorddiag): New variable. --- gnu/packages/statistics.scm | 30 ++++++++++++++++++++++++++++++ 1 file changed, 30 insertions(+) diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index f777ddf332..7fc1de6cc5 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -16,6 +16,7 @@ ;;; Copyright © 2021 Bonface Munyoki Kilyungi ;;; Copyright © 2021 Lars-Dominik Braun ;;; Copyright © 2021 Frank Pursel +;;; Copyright © 2022 Simon Tournier ;;; ;;; This file is part of GNU Guix. ;;; @@ -847,6 +848,35 @@ (define-public r-bit64 caching.") (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") -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:54:39 2022 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 To: 53349@debbugs.gnu.org Subject: [PATCH 2/9] gnu: Add r-jetset. 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 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * 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 -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:54:39 2022 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 To: 53349@debbugs.gnu.org Subject: [PATCH 6/9] gnu: Add r-add2ggplot. 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 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * 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") -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:54:39 2022 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 To: 53349@debbugs.gnu.org Subject: [PATCH 5/9] gnu: Add r-scico. 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 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * 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") -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:54:40 2022 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 To: 53349@debbugs.gnu.org Subject: [PATCH 7/9] gnu: Add r-rlist. 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 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * 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") -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:54:40 2022 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 To: 53349@debbugs.gnu.org Subject: [PATCH 9/9] gnu: Add r-scseqcomm. 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 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * 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") -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Tue Jan 18 12:54:51 2022 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 To: 53349@debbugs.gnu.org Subject: [PATCH 8/9] gnu: Add r-icellnet. 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 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * 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") -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Fri Jan 21 09:55:46 2022 Received: (at 53349-done) by debbugs.gnu.org; 21 Jan 2022 14:55:47 +0000 Received: from localhost ([127.0.0.1]:34878 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nAvKM-0006Xo-MA for submit@debbugs.gnu.org; Fri, 21 Jan 2022 09:55:46 -0500 Received: from sender4-of-o51.zoho.com ([136.143.188.51]:21159) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nAvKK-0006Xi-IM for 53349-done@debbugs.gnu.org; Fri, 21 Jan 2022 09:55:45 -0500 ARC-Seal: i=1; a=rsa-sha256; t=1642776942; cv=none; d=zohomail.com; s=zohoarc; b=jarnlLjma6dSzHk7mn3rRFfzZX1ulBD81koxZGo/LrK7jlD6jEKMxuiH3uc58GTKQ0flqByf23TtiLyObyjsOPR2Aq4L/Bqzz9LeS5JjvnjLcbhSVyzfZsKKBfq0c+JKITMZOsRyTzVRwy5FsBnii9MehIu9hJHyF6B84Pnnruc= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1642776942; h=Content-Type:Content-Transfer-Encoding:Cc:Date:From:In-Reply-To:MIME-Version:Message-ID:References:Subject:To; bh=ja4a3db2I9Qy1Y5mrZDly8cb9fm2bD1o6qX4fmyuIsM=; b=kafcgM09YfvBxQJKevRy8SwJs5eXgJY2XEHQVkGfnnogIP7GgUtlqdqZAilo8Dob3wIxkB6RqkihVB6TbKuewRkeSNvs/rkJdO4rlxyqnOY04bI7Dr8N66cE/ImF7/UrYHCFLrunqrsvZ1SOam04qzjjO57cCMZ8PPb6V03jgyY= ARC-Authentication-Results: i=1; mx.zohomail.com; dkim=pass header.i=elephly.net; spf=pass smtp.mailfrom=rekado@elephly.net; dmarc=pass header.from= DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; t=1642776942; s=zoho; d=elephly.net; i=rekado@elephly.net; h=References:From:To:Cc:Subject:Date:In-reply-to:Message-ID:MIME-Version:Content-Type:Content-Transfer-Encoding; bh=ja4a3db2I9Qy1Y5mrZDly8cb9fm2bD1o6qX4fmyuIsM=; b=AqMt1ZI7s7MTGxOASQLMrXQPCK8lPdTbFkPgCG7eCUJyv4ZTouYpUGECVj8zVlZ9 FcSYBII5iyCz0NMBR6/hoeIoN1DHgwEuXnujH8uyoruIamTHYFMsudjAbpeGa4M0zTG +d6fH3jnyQl+eFUeHSy+5Xp2aiitzv8q9vbYfWNc= Received: from localhost (p54ad4dca.dip0.t-ipconnect.de [84.173.77.202]) by mx.zohomail.com with SMTPS id 1642776938382707.0474152423151; Fri, 21 Jan 2022 06:55:38 -0800 (PST) References: <20220118175150.1558932-1-zimon.toutoune@gmail.com> User-agent: mu4e 1.6.10; emacs 27.2 From: Ricardo Wurmus To: zimoun Subject: Re: [bug#53349] [PATCH 0/9] Add 2 bioinformatics R packages Date: Fri, 21 Jan 2022 14:58:35 +0100 In-reply-to: <20220118175150.1558932-1-zimon.toutoune@gmail.com> X-URL: https://elephly.net X-PGP-Key: https://elephly.net/rekado.pubkey X-PGP-Fingerprint: BCA6 89B6 3655 3801 C3C6 2150 197A 5888 235F ACAC Message-ID: <87wnitp28r.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable X-ZohoMailClient: External X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349-done Cc: 53349-done@debbugs.gnu.org X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) Hi, thanks for the patches! > zimoun (9): > gnu: r-org-dr-eg-db: Update to 3.14.0. > gnu: Add r-jetset. > gnu: Add r-hgu133plus2-db. > gnu: Add r-chorddiag. This one contains minified JavaScript. It=E2=80=99s only d3.js, so it wasn=E2=80=99t hard to take the sources and minify it. > gnu: Add r-scico. > gnu: Add r-add2ggplot. > gnu: Add r-rlist. > gnu: Add r-icellnet. > gnu: Add r-scseqcomm. I pushed them all to the master branch (ce291b193cadbd6926ddf31af2ac6ed8bd607f44). --=20 Ricardo From debbugs-submit-bounces@debbugs.gnu.org Mon Jan 24 09:09:05 2022 Received: (at 53349-done) by debbugs.gnu.org; 24 Jan 2022 14:09:05 +0000 Received: from localhost ([127.0.0.1]:42638 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nC01o-0003QC-Uh for submit@debbugs.gnu.org; Mon, 24 Jan 2022 09:09:05 -0500 Received: from mail-io1-f46.google.com ([209.85.166.46]:38811) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nC01m-0003Pe-2H for 53349-done@debbugs.gnu.org; Mon, 24 Jan 2022 09:09:03 -0500 Received: by mail-io1-f46.google.com with SMTP id w7so19631221ioj.5 for <53349-done@debbugs.gnu.org>; Mon, 24 Jan 2022 06:09:02 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=mime-version:references:in-reply-to:from:date:message-id:subject:to :cc:content-transfer-encoding; bh=n/obx3bjwnHQRLC5ILP5DQH/P3VlYHr5m4khwoP8apo=; b=m46ajxX3TYuMpv4g5XTwN1jxPUUz57aUcI0A80PqqfOelmReLuMrIOrHQ/r2k7UO84 GV2D/kT7Spx3x5ioQdDgGiLwyXLuKxlnK9RKVosF23uXmpeeteOYb3ZVSZEaGADdQvxd FfMpephMmn1uKlCukBJYemR4YBxLfvDbzuQ4wo5SUmeCLNTnMSXDU4pkEAumDV9UqQnn TC6WFRKEJ2Klhxx+qiDLMmW4I8CtDvdnoWUbbU+IDAGputUjBFdOOLdpgVx0BLiqvxBg 1Mgh3yMZYzW6GEFpV2TCss+T/k5pJuqpvJWA4w1qto1qTOqMYCLEKKwqVNbmzvjw9QQr kvtw== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=x-gm-message-state:mime-version:references:in-reply-to:from:date :message-id:subject:to:cc:content-transfer-encoding; bh=n/obx3bjwnHQRLC5ILP5DQH/P3VlYHr5m4khwoP8apo=; b=6krkueR9cqoULPXVYRin+hvzwQVzdzRCRewY6PV1twf8DAAtBjw4Y77IgX3D5+3JdL d0id57+eeTA+WLu/glvbZZKJaT+lG6bnF9NduPdVzs6Tz0q8dP92BQT3shXtnqo4t7UN hoC3fbBBZFHFZZuY0+s3n12x3SGDYDHksfYJ+AszKDGQXhpc7cG/RO7UdxJdzk8XRQ12 nyqPXODMVjDMHS/VBcOPHdajJ251Jysdc/CowjvAX/JcrWV0U1jMx3Rl6H+fWK0y+0D/ Lenf1TdsAS2J7Hi36h6SzhrF2b5da+ETYN5Do+BOlFoicf5xUJ0HMtwrLvA6vDs2KV24 4FUw== X-Gm-Message-State: AOAM532gmnmoW3oGyPxAK2mfCcMyxdF8aclKYgsdKl/Q/R5IiRBAJiph 3qIczzQVGBJXbpr2UkSuRD/+RtcJWYUAt//7KP4= X-Google-Smtp-Source: ABdhPJxO+X8yL06eeLNSuDqKgy37Iucay7/8vTfcXVZPehZWZ6qkh9AFX2Y+dtuXKr45Guwk3JRofDHxDAO9yZuNq8c= X-Received: by 2002:a05:6638:3049:: with SMTP id u9mr6776121jak.132.1643033336554; Mon, 24 Jan 2022 06:08:56 -0800 (PST) MIME-Version: 1.0 References: <20220118175150.1558932-1-zimon.toutoune@gmail.com> <87wnitp28r.fsf@elephly.net> In-Reply-To: <87wnitp28r.fsf@elephly.net> From: zimoun Date: Mon, 24 Jan 2022 15:08:45 +0100 Message-ID: Subject: Re: [bug#53349] [PATCH 0/9] Add 2 bioinformatics R packages To: Ricardo Wurmus Content-Type: text/plain; charset="UTF-8" Content-Transfer-Encoding: quoted-printable X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 53349-done Cc: 53349-done@debbugs.gnu.org X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) Hi Ricardo, On Fri, 21 Jan 2022 at 15:55, Ricardo Wurmus wrote: > > gnu: Add r-chorddiag. > > This one contains minified JavaScript. It=E2=80=99s only d3.js, so > it wasn=E2=80=99t hard to take the sources and minify it. Ah sorry. Thanks for catching! > I pushed them all to the master branch > (ce291b193cadbd6926ddf31af2ac6ed8bd607f44). Thanks, simon From unknown Sun Jun 22 17:12:50 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Tue, 22 Feb 2022 12:24:06 +0000 User-Agent: Fakemail v42.6.9 # This is a fake control message. # # The action: # bug archived. thanks # This fakemail brought to you by your local debbugs # administrator