From patchwork Tue Mar 14 15:01:29 2023 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: nafkhamdc X-Patchwork-Id: 47970 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 46EC416985; Tue, 14 Mar 2023 15:13:09 +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=-1.8 required=5.0 tests=DKIM_INVALID,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham 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 D1D351693E for ; Tue, 14 Mar 2023 15:13:06 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1pc6B7-00005o-Fa; Tue, 14 Mar 2023 11:03:05 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pc6B5-00005F-Jb for guix-patches@gnu.org; Tue, 14 Mar 2023 11:03:03 -0400 Received: from debbugs.gnu.org ([209.51.188.43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1pc6B5-0001ct-B9 for guix-patches@gnu.org; Tue, 14 Mar 2023 11:03:03 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1pc6B5-000701-5t for guix-patches@gnu.org; Tue, 14 Mar 2023 11:03:03 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#62187] [PATCH 1/2] gnu: Add r-premessa. Resent-From: Navid Afkhami Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 14 Mar 2023 15:03:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 62187 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 62187@debbugs.gnu.org Cc: Navid Afkhami X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.167880613626796 (code B ref -1); Tue, 14 Mar 2023 15:03:03 +0000 Received: (at submit) by debbugs.gnu.org; 14 Mar 2023 15:02:16 +0000 Received: from localhost ([127.0.0.1]:38232 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pc6AJ-0006y2-QJ for submit@debbugs.gnu.org; Tue, 14 Mar 2023 11:02:16 -0400 Received: from lists.gnu.org ([209.51.188.17]:46932) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pc6AE-0006xa-Gt for submit@debbugs.gnu.org; Tue, 14 Mar 2023 11:02:11 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pc6AB-0007rM-Mp for guix-patches@gnu.org; Tue, 14 Mar 2023 11:02:10 -0400 Received: from b2062.mx.srv.dfn.de ([194.95.234.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pc6A9-0001Xq-55 for guix-patches@gnu.org; Tue, 14 Mar 2023 11:02:07 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1678806119; x=1680620520; bh=bzQEaBYsoxuGEsq BPa7qwSJ7n3Vslkanis0Hy+L7uRI=; b=JCf2Y1Nhuat0aa4Lag3ZDqesd/1zwKR YDs+cOZW+D2oXVZG6HDKjsCvtwBPUTrr8josM6mujWwD8dXGmuUHMLRqZS6gydON L4uvmNMBH/9XCy405j0oZIQzuhqUga3H9uSVTmVbYMZb6w0HVezgEBe+UKWlC0YL IhE4EIzOas3U= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by b2062.mx.srv.dfn.de (Postfix) with ESMTPS id 7E2EA1601A3 for ; Tue, 14 Mar 2023 16:01:59 +0100 (CET) Received: from localhost (141.80.218.27) by SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.21; Tue, 14 Mar 2023 16:01:40 +0100 From: Navid Afkhami Date: Tue, 14 Mar 2023 15:01:29 +0000 Message-ID: <20230314150130.39995-1-navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 X-Originating-IP: [141.80.218.27] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27504.000 X-TM-AS-Result: No-10--2.734400-5.000000 X-TMASE-MatchedRID: I6rpFm0lrcN6fjezFKxXHArcxrzwsv5uwTlc9CcHMZerwqxtE531VICu qghmtWfXXt3JNptef3p4Zvg4N7yewiq+GZ9ZHxIhuW77/y896sj4qCLIu0mtIOJGB65J3jNQJEb gebEoSmW8Ez+a0HsfRn35vZQBjewGCxH+nTDZ1NPdCok3ibXlQeuLFZZYlisfHxPMjOKY7A8Lbi gRnpKlKTpcQTtiHDgWBA21J9DcKdyasStu4j0Gfj4LP56W3uEJvpOtRYfbKXsMKIoJG/RLVx+FI Z73ojb9Tjr4egRX/p1w9nS1TseqUHOJCNv2tfV4t0oQIuj+SVeFEVfQxs3N6ZDgmt8QekvB5maC eNv/LIzVGQdqwsDiEg== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--2.734400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27504.000 X-TM-SNTS-SMTP: 6C0B0BF0AA33EE358D2FBBD59C26F9E67C7E61B0B89538BD265DE17A3E73CF992002:F Received-SPF: pass client-ip=194.95.234.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=b2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action 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-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioinformatics.scm (r-premessa): New variable. --- gnu/packages/bioinformatics.scm | 37 +++++++++++++++++++++++++++++++++ 1 file changed, 37 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 06f9eb8ee3..7025ccd93d 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -8803,6 +8803,43 @@ (define-public r-pando regions for each transcription factor.") (license license:expat))) +(define-public r-premessa + (let ((commit "68b42bb984637d0f3ad6a0ecc83e9278994afc85") + (revision "1")) + (package + (name "r-premessa") + (version (git-version "0.3.4" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/ParkerICI/premessa") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "1l0q431zk0lvg22130nx84gdqi7cpl05yah4am63lbx6m4c769pb")))) + (properties `((upstream-name . "premessa"))) + (build-system r-build-system) + (propagated-inputs (list r-data-table + r-flowcore + r-ggplot2 + r-gridextra + r-hexbin + r-jsonlite + r-reshape + r-rhandsontable + r-shiny + r-shinyjqui)) + (native-inputs (list esbuild)) + (home-page "https://github.com/ParkerICI/premessa") + (synopsis + "This package is for pre-processing of flow and mass cytometry data") + (description + "This is an R package for pre-processing of flow and mass cytometry data. +This package includes panel editing or renaming for FCS files, bead-based +normalization and debarcoding.") + (license license:gpl3)))) + (define-public r-presto (let ((commit "052085db9c88aa70a28d11cc58ebc807999bf0ad") (revision "0")) From patchwork Tue Mar 14 15:01:30 2023 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: nafkhamdc X-Patchwork-Id: 47972 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 D30C21697F; Tue, 14 Mar 2023 15:24:36 +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=-1.8 required=5.0 tests=DKIM_INVALID,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,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 AC17C1693E for ; Tue, 14 Mar 2023 15:24:35 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1pc6B6-00005k-QA; Tue, 14 Mar 2023 11:03:04 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pc6B4-000056-Tb for guix-patches@gnu.org; Tue, 14 Mar 2023 11:03:02 -0400 Received: from debbugs.gnu.org ([209.51.188.43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1pc6B4-0001cl-Lb for guix-patches@gnu.org; Tue, 14 Mar 2023 11:03:02 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1pc6B4-0006zl-H7 for guix-patches@gnu.org; Tue, 14 Mar 2023 11:03:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#62186] [PATCH 2/2] gnu: Add r-rhandsontable. Resent-From: Navid Afkhami Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 14 Mar 2023 15:03:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 62186 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 62186@debbugs.gnu.org Cc: Navid Afkhami X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.167880613526789 (code B ref -1); Tue, 14 Mar 2023 15:03:02 +0000 Received: (at submit) by debbugs.gnu.org; 14 Mar 2023 15:02:15 +0000 Received: from localhost ([127.0.0.1]:38230 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pc6AG-0006xr-Bm for submit@debbugs.gnu.org; Tue, 14 Mar 2023 11:02:15 -0400 Received: from lists.gnu.org ([209.51.188.17]:46928) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pc6AE-0006xZ-D9 for submit@debbugs.gnu.org; Tue, 14 Mar 2023 11:02:11 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pc6AB-0007rL-Ml for guix-patches@gnu.org; Tue, 14 Mar 2023 11:02:10 -0400 Received: from b2062.mx.srv.dfn.de ([194.95.234.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pc6A9-0001Xt-54 for guix-patches@gnu.org; Tue, 14 Mar 2023 11:02:07 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :references:in-reply-to:x-mailer:message-id:date:date:subject :subject:from:from:received; s=mdc; t=1678806121; x=1680620522; bh=lkwBoQtyjHBisfGm7bxjXFSXnjU1OhJNsgK4O7ID54c=; b=dMzjRmhIYRCt ICmxg9mo5DfooNmSnhf4P032xKKnWfPLYhjbXuGVSza8gs1Cqz0sUeEW4PLw8Fio EZaG5pSidj0w45dcFEYGdxfi7zDPpjKfK+PSIFZLzGUt+DfVpeEVdPbp6tfBE/4O 7o5uz6wamKRrv8Hlo1dKWA6qfN3u1Nk= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by b2062.mx.srv.dfn.de (Postfix) with ESMTPS id 66A44160177 for ; Tue, 14 Mar 2023 16:02:01 +0100 (CET) Received: from localhost (141.80.218.27) by SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.21; Tue, 14 Mar 2023 16:01:47 +0100 From: Navid Afkhami Date: Tue, 14 Mar 2023 15:01:30 +0000 Message-ID: <20230314150130.39995-2-navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 In-Reply-To: <20230314150130.39995-1-navid.afkhami@mdc-berlin.de> References: <20230314150130.39995-1-navid.afkhami@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [141.80.218.27] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27504.000 X-TM-AS-Result: No-10-0.069200-5.000000 X-TMASE-MatchedRID: 4RK2gbhxGJN6fjezFKxXHArcxrzwsv5uwTlc9CcHMZerwqxtE531VIPc XuILVCbaRRa406V/YwyBUGewL2YXt8Z8zsjIitoJ71Wx2uUbPLdy4VFP6muDhu7WrSUXpNoUSsa AZzuu+FG5BtzRZvMati57quJVib+Hoc50oBUFVx+rm7DrUlmNkIAy6p60ZV62v2ThXg3lx4DdB/ CxWTRRuyISicMwjYJ/RcDSKgj6IG1tykThlV3QivCj6nAIxq7pvnvlXTVOecO+i0z+VEZds0Zk7 5Lu7dreV/1RHrGdTmd9+kgR/2zgGr9OOVOCppzRGHD7ETQugojGxtGzEkWA1hYZ6CluH+zH9XPE SSHktUBZipn6czRzDQ== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10-0.069200-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27504.000 X-TM-SNTS-SMTP: C7B134E51292B153159B87C5756BCB0A54A4748BBA890B928B4C6BABB2B8438D2002:F Received-SPF: pass client-ip=194.95.234.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=b2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action 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-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioinformatics.scm (r-rhandsontable): New variable. --- gnu/packages/bioinformatics.scm | 24 ++++++++++++++++++++++++ 1 file changed, 24 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 7025ccd93d..bc5da864bf 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -827,6 +827,30 @@ (define-public r-rhtslib12 developers of other R packages who wish to make use of HTSlib.") (license license:lgpl2.0+)))) +(define-public r-rhandsontable + (package + (name "r-rhandsontable") + (version "0.3.8") + (source (origin + (method url-fetch) + (uri (cran-uri "rhandsontable" version)) + (sha256 + (base32 + "07fj6npq65pq836vdwblkhprdaq4i4f13cwdmm9gmxrnk72xj7lh")))) + (properties `((upstream-name . "rhandsontable"))) + (build-system r-build-system) + (propagated-inputs (list r-htmlwidgets r-jsonlite r-magrittr)) + (native-inputs (list esbuild r-knitr)) + (home-page "http://jrowen.github.io/rhandsontable/") + (synopsis + "This package is a htmlwidget based on the handsontable.js library") + (description + "Handsontable is a data grid component with an Excel like appearance. +Built in JavaScript, it integrates with any data source with peak efficiency. +It comes with powerful features like data validation, sorting, grouping, +data binding, formula support or column ordering.") + (license license:expat))) + (define-public r-stringendo (let ((commit "83b8f2d82a09b33b9e895438bb523a021138be01") (revision "1"))