From patchwork Thu Sep 15 11:38:29 2016 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Roel Janssen X-Patchwork-Id: 15654 Received: (qmail 94260 invoked by uid 89); 15 Sep 2016 11:37:59 -0000 Authentication-Results: sourceware.org; auth=none X-Virus-Checked: by ClamAV 0.99.2 on sourceware.org X-Virus-Found: No X-Spam-SWARE-Status: No, score=-4.0 required=5.0 tests=AWL, BAYES_00, RP_MATCHES_RCVD, SPF_PASS autolearn=ham version=3.3.2 spammy=illustrate, PDF, documents X-Spam-Status: No, score=-4.0 required=5.0 tests=AWL, BAYES_00, RP_MATCHES_RCVD, SPF_PASS autolearn=ham version=3.3.2 X-Spam-Checker-Version: SpamAssassin 3.3.2 (2011-06-06) on sourceware.org X-Spam-Level: X-HELO: lists.gnu.org Received: from lists.gnu.org (HELO lists.gnu.org) (208.118.235.17) by sourceware.org (qpsmtpd/0.93/v0.84-503-g423c35a) with ESMTP; Thu, 15 Sep 2016 11:37:49 +0000 Received: from localhost ([::1]:33690 helo=lists.gnu.org) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1bkUzD-0001yN-5W for patchwork@sourceware.org; Thu, 15 Sep 2016 07:37:47 -0400 Received: from eggs.gnu.org ([2001:4830:134:3::10]:34015) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1bkUz1-0001vn-VU for guix-devel@gnu.org; Thu, 15 Sep 2016 07:37:37 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1bkUyz-0004hr-TY for guix-devel@gnu.org; Thu, 15 Sep 2016 07:37:34 -0400 Received: from fencepost.gnu.org ([2001:4830:134:3::e]:34677) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1bkUyz-0004hh-QE for guix-devel@gnu.org; Thu, 15 Sep 2016 07:37:33 -0400 Received: from ip-80-113-14-101.ip.prioritytelecom.net ([80.113.14.101]:8725 helo=roel-tp) by fencepost.gnu.org with esmtpsa (TLS1.2:RSA_AES_256_CBC_SHA1:256) (Exim 4.82) (envelope-from ) id 1bkUyz-0005rv-2q for guix-devel@gnu.org; Thu, 15 Sep 2016 07:37:33 -0400 User-agent: mu4e 0.9.17; emacs 25.1.1 From: Roel Janssen To: guix-devel@gnu.org Subject: [PATCH 5/7] gnu: Add r-optparse. Date: Thu, 15 Sep 2016 13:38:29 +0200 Message-ID: <87fup1s896.fsf@gnu.org> MIME-Version: 1.0 X-detected-operating-system: by eggs.gnu.org: GNU/Linux 2.2.x-3.x [generic] X-Received-From: 2001:4830:134:3::e X-BeenThere: guix-devel@gnu.org X-Mailman-Version: 2.1.21 Precedence: list List-Id: "Development of GNU Guix and the GNU System distribution." List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-devel-bounces+patchwork=sourceware.org@gnu.org Sender: "Guix-devel" * gnu/packages/bioinformatics.scm (r-optparse): New variable. --- gnu/packages/bioinformatics.scm | 23 +++++++++++++++++++++++ 1 file changed, 23 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 225e470..af32d66 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -5381,6 +5381,29 @@ Bioconductor PDF and HTML documents. Package vignettes illustrate use and functionality.") (license license:artistic2.0))) +(define-public r-optparse + (package + (name "r-optparse") + (version "1.3.2") + (source + (origin + (method url-fetch) + (uri (cran-uri "optparse" version)) + (sha256 + (base32 + "1g8as89r91xxi5j5azsd6vrfrhg84mnfx2683j7pacdp8s33radw")))) + (build-system r-build-system) + (propagated-inputs + `(("r-getopt" ,r-getopt))) + (home-page + "https://github.com/trevorld/optparse") + (synopsis "Command Line Option Parser") + (description + "This package provides a command line parser inspired by Python's +'optparse' library to be used with Rscript to write \"#!\" shebang +scripts that accept short and long flag/options.") + (license license:gpl2+))) + (define-public r-dnacopy (package (name "r-dnacopy")