From debbugs-submit-bounces@debbugs.gnu.org Mon Sep 10 10:06:30 2018 Received: (at submit) by debbugs.gnu.org; 10 Sep 2018 14:06:30 +0000 Received: from localhost ([127.0.0.1]:52476 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1fzMpi-0001tG-9Q for submit@debbugs.gnu.org; Mon, 10 Sep 2018 10:06:30 -0400 Received: from eggs.gnu.org ([208.118.235.92]:41325) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1fzMpf-0001t3-Qe for submit@debbugs.gnu.org; Mon, 10 Sep 2018 10:06:29 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1fzMpV-00087x-E0 for submit@debbugs.gnu.org; Mon, 10 Sep 2018 10:06:22 -0400 X-Spam-Checker-Version: SpamAssassin 3.3.2 (2011-06-06) on eggs.gnu.org X-Spam-Level: X-Spam-Status: No, score=0.0 required=5.0 tests=BAYES_20,T_DKIM_INVALID autolearn=disabled version=3.3.2 Received: from lists.gnu.org ([2001:4830:134:3::11]:35241) by eggs.gnu.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32) (Exim 4.71) (envelope-from ) id 1fzMpT-00085r-Qs for submit@debbugs.gnu.org; Mon, 10 Sep 2018 10:06:17 -0400 Received: from eggs.gnu.org ([2001:4830:134:3::10]:33957) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1fzMpO-0000gs-L1 for guix-patches@gnu.org; Mon, 10 Sep 2018 10:06:15 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1fzMpF-0007nr-Ur for guix-patches@gnu.org; Mon, 10 Sep 2018 10:06:07 -0400 Received: from venus.bbbm.mdc-berlin.de ([141.80.25.30]:52318) by eggs.gnu.org with esmtps (TLS1.0:DHE_RSA_AES_256_CBC_SHA1:32) (Exim 4.71) (envelope-from ) id 1fzMpF-0007lV-8L for guix-patches@gnu.org; Mon, 10 Sep 2018 10:06:01 -0400 Received: from localhost (localhost [127.0.0.1]) by venus.bbbm.mdc-berlin.de (Postfix) with ESMTP id 450B838031C for ; Mon, 10 Sep 2018 16:05:59 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:mime-version:x-mailer:message-id:date :date:subject:subject:from:from:received:received:received; s= mdc; t=1536588358; x=1538402759; bh=lrxaJA+71M/Lrdy2FWLiX3BZukyM s8G4GlooK/gFM0I=; b=BYtIShgb/e3YNd9SGkaUWwI3Lcyl4bAPofSZA9SDxT4w k/h8VQxI8R/Z5If/oZGuSSPT13KqfLdrixkUJkgFK92Ul2h7ZT4uWGZ0nbW6cs6z 4BkoP95H3/351Ol8NGKLpQLvBu/52+jfDfBocvsU5SAlrypYJh7HzEKv3IHXE3M= X-Virus-Scanned: amavisd-new at mdc-berlin.de Received: from venus.bbbm.mdc-berlin.de ([127.0.0.1]) by localhost (venus.bbbm.mdc-berlin.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id P79j9VNDSZLC for ; Mon, 10 Sep 2018 16:05:58 +0200 (CEST) Received: from SW-IT-P-CAS3.mdc-berlin.net (puck.citx.mdc-berlin.de [141.80.36.101]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-SHA384 (256/256 bits)) (No client certificate requested) by venus.bbbm.mdc-berlin.de (Postfix) with ESMTPS for ; Mon, 10 Sep 2018 16:05:58 +0200 (CEST) Received: from biadmin-KVM.nat (141.80.113.106) by SW-IT-P-CAS3.mdc-berlin.net (141.80.113.58) with Microsoft SMTP Server (TLS) id 14.3.408.0; Mon, 10 Sep 2018 16:05:57 +0200 From: pimi To: Subject: [PATCH] gnu: Add r-absfiltergsea. Date: Mon, 10 Sep 2018 16:05:41 +0200 Message-ID: <20180910140541.705-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.17.1 MIME-Version: 1.0 Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-TM-AS-Product-Ver: SMEX-12.5.0.1300-8.5.1010-24086.000 X-TM-AS-Result: No-1.505900-8.000000-10 X-TMASE-MatchedRID: zoFxOq+IDXN7qToVEfwBPAPZZctd3P4BglaqJmjfi+CNBfx9QShy4Acs lYpo5iST0EdJ1p8GY2DsZX3M9mdWSo+eiI05y0fpe8FaKRfM2oP/lBG+uXYJkNzOQo7mTgA+Pcg btU2Rq0Hi8zVgXoAltsIJ+4gwXrEtwrbXMGDYqV9FwNIqCPogbbtIxwKaXz7QfdWhOSn4EP+qm0 2Ikn8UuFxk+wPCRuQsp9QCNI/pfdERgcfZWgQKSTDAVdnCIcjsfSE6PuGwLiNRqVLrSn6CBHMlK jd7kJW0P2nrhpzTnX4SFeEaqul3aIOFrOPMaJ4V X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--1.505900-8.000000 X-TMASE-Version: SMEX-12.5.0.1300-8.5.1010-24086.000 X-detected-operating-system: by eggs.gnu.org: GNU/Linux 2.2.x-3.x [generic] X-detected-operating-system: by eggs.gnu.org: GNU/Linux 2.6.x X-Received-From: 2001:4830:134:3::11 X-Spam-Score: -5.0 (-----) X-Debbugs-Envelope-To: submit Cc: pimi 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: -6.0 (------) gnu/packages/bioinformatics.scm (r-absfiltergsea): New variable. --- gnu/packages/bioinformatics.scm | 27 +++++++++++++++++++++++++++ 1 file changed, 27 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 6580cac53..9c01cb86f 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -13504,3 +13504,30 @@ reference transcripts provided in a annotation file (also in GTF/GFF3 format). (list license:expat ;license for gffcompare license:artistic2.0))))) ;license for gclib + +(define-public r-absfiltergsea + (package + (name "r-absfiltergsea") + (version "1.5.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "AbsFilterGSEA" version)) + (sha256 + (base32 "15srxkxsvn38kd5frdrwfdf0ad8gskrd0h01wmdf9hglq8fjrp7w")))) + (properties `((upstream-name . "AbsFilterGSEA"))) + (build-system r-build-system) + (propagated-inputs + `(("r-biobase" ,r-biobase) + ("r-deseq" ,r-deseq) + ("r-limma" ,r-limma) + ("r-rcpp" ,r-rcpp) + ("r-rcpparmadillo" ,r-rcpparmadillo))) + (home-page "https://cran.r-project.org/web/packages/AbsFilterGSEA/") + (synopsis "Improved false positive control of gene-permuting with absolute filtering") + (description + "This package provides a function that performs gene-permuting of a gene-set +enrichment analysis (GSEA) calculation with or without the absolute filtering. + Without filtering, users can perform (original) two-tailed or one-tailed +absolute GSEA.") + (license license:gpl2))) -- 2.17.1 From debbugs-submit-bounces@debbugs.gnu.org Thu Sep 13 13:01:08 2018 Received: (at control) by debbugs.gnu.org; 13 Sep 2018 17:01:09 +0000 Received: from localhost ([127.0.0.1]:39475 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1g0UzM-0002rB-QZ for submit@debbugs.gnu.org; Thu, 13 Sep 2018 13:01:08 -0400 Received: from sender-of-o51.zoho.com ([135.84.80.216]:21019) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1g0UzK-0002r2-Oa for control@debbugs.gnu.org; Thu, 13 Sep 2018 13:01:07 -0400 ARC-Seal: i=1; a=rsa-sha256; t=1536858065; cv=none; d=zoho.com; s=zohoarc; b=UoOpfMfkSnfHX4sKfc4loQckuGRfsqJsFAz93nrrQI0y3gvjX7hXhuJcuc7xmQ64osg2QtS5jFt8TYu/wQRPXee6TiuBsZNhFp1Vub7GdFsgsLjy2janJ/NfooQk+WKjOsDHkL4UQmWob4zxWJs9oyGN9+e8itisUgpo6xR3xBM= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zoho.com; s=zohoarc; t=1536858065; h=Date:From:Message-ID:Subject:To:ARC-Authentication-Results; bh=iAqGRct0QPVKQDwqICEJqaFOtRdlV6aAAiK9MlrlFhk=; b=Zt6YrJ5BwWaZL35qwR7zDF5feacAVtS3WQDIknn3ai3ds45OQDwWZEqZkO6r2qT9c/zZ9Y7MfZw5beA+ZOnnDXc+ovkKvSmDuyFGto3kjUzFcUPcQnC+a3MWrsxPE9JvORuW2Fd7PRX1VY6u2/pzxlDlxY1kd3znI91Mh3iSMZo= ARC-Authentication-Results: i=1; mx.zoho.com; dkim=pass header.i=elephly.net; spf=pass smtp.mailfrom=rekado@elephly.net; dmarc=pass header.from= header.from= DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; t=1536858065; s=zoho; d=elephly.net; i=rekado@elephly.net; h=Date:To:From:Message-ID:Subject; l=15; bh=iAqGRct0QPVKQDwqICEJqaFOtRdlV6aAAiK9MlrlFhk=; b=Ef6oK6VPipmd56bCgGOsRiBnKgL9MrKsA6rVl4MaAhL1GBz2URpKnIcj0ka5EdGv dNfJMmSDiVgLhTjwm0/Y4GWsY0GuGuSdJn6CpAOWV7I6RK7cl2btw3UxVNZTwE5UQMa UmjdYhaffiMIBM8KE39TMR7iIKMrWELgZe5Ka3r0= Received: from localhost (port-92-200-33-76.dynamic.qsc.de [92.200.33.76]) by mx.zohomail.com with SMTPS id 1536858064696946.0349703303787; Thu, 13 Sep 2018 10:01:04 -0700 (PDT) Date: Thu, 13 Sep 2018 19:01:01 +0200 To: control@debbugs.gnu.org From: Ricardo Wurmus Message-ID: <165d3e10739.1058569c-417232338.7578034511434327224@zoho.com> Subject: control message for bug #32682 X-ZohoMailClient: External X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: control 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 (-) owner 32682 ! From debbugs-submit-bounces@debbugs.gnu.org Tue Oct 02 16:24:26 2018 Received: (at 32682-done) by debbugs.gnu.org; 2 Oct 2018 20:24:26 +0000 Received: from localhost ([127.0.0.1]:34695 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1g7RDV-0002dn-Qg for submit@debbugs.gnu.org; Tue, 02 Oct 2018 16:24:25 -0400 Received: from wnew1-smtp.messagingengine.com ([64.147.123.26]:42387) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1g7RDU-0002dg-79 for 32682-done@debbugs.gnu.org; Tue, 02 Oct 2018 16:24:24 -0400 Received: from compute4.internal (compute4.nyi.internal [10.202.2.44]) by mailnew.west.internal (Postfix) with ESMTP id 162D6905; Tue, 2 Oct 2018 16:24:23 -0400 (EDT) Received: from mailfrontend1 ([10.202.2.162]) by compute4.internal (MEProxy); Tue, 02 Oct 2018 16:24:23 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=famulari.name; h=cc:content-type:date:from:in-reply-to:message-id:mime-version :references:subject:to:x-me-sender:x-me-sender:x-sasl-enc; s= mesmtp; bh=euBwxpWss9ngg3E+b1+YTUaH6rE+kZjI06Y7sG0OOvc=; b=E+GPJ zRvRgHqYSt6qZm7LoZNfGyD8hQE1/Bj2+t0Gmksm/GRVdSwM5P3rfmjdZyGaPQXS WAkn7BvT7ml39ljujwuwjlTPzLwKMTNPfC6aiZP9BYX80Ymk/fecARo/W2Pd54Bl e2KoxokXy7ehMLmhiWWICWMNPFuDmmx5UFW/+A= DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d= messagingengine.com; h=cc:content-type:date:from:in-reply-to :message-id:mime-version:references:subject:to:x-me-sender :x-me-sender:x-sasl-enc; s=fm3; bh=euBwxpWss9ngg3E+b1+YTUaH6rE+k ZjI06Y7sG0OOvc=; b=B1ZJ6GNDyWWlrNr4uVrMRQtzJQwlpql1sRVJhZfAJ45S/ LS/AyPzzkvkTKnBrOSKG+piIN9VDbIysiUWw8AYcC4IwuMrc4KBqC6rOOCTI2xFg aQTGMtRvuRsCLditfx/ylGCaTJMt90GnbQ1VEIHMUyXFb4qJzcjJ3s479rvATrhk fOinVGWLNhHMV7QA1U24i0B6tzRKXj68riufoJb1N9pzqM8aQ5lBPnsa1OnXxesv K83cQixHJq3uWxJDFZccPQdLfEWB2UjgSP7wJ5uw+rSCGmLHtWw5EKc3pX9ifVYj Qqg8Q/X4MhLup1MKN43Ipnp+PvBt90ioUl6Qq1hlA== X-ME-Sender: X-ME-Proxy: Received: from localhost (unknown [172.58.201.36]) by mail.messagingengine.com (Postfix) with ESMTPA id 53896E49FA; Tue, 2 Oct 2018 16:24:21 -0400 (EDT) Date: Tue, 2 Oct 2018 16:24:16 -0400 From: Leo Famulari To: pimi Subject: Re: [bug#32682] [PATCH] gnu: Add r-absfiltergsea. Message-ID: <20181002202416.GB20264@jasmine.lan> References: <20180910140541.705-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 Content-Type: multipart/signed; micalg=pgp-sha256; protocol="application/pgp-signature"; boundary="EuxKj2iCbKjpUGkD" Content-Disposition: inline In-Reply-To: <20180910140541.705-1-madalinionel.patrascu@mdc-berlin.de> User-Agent: Mutt/1.10.1 (2018-07-13) X-Spam-Score: -0.7 (/) X-Debbugs-Envelope-To: 32682-done Cc: 32682-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: -1.7 (-) --EuxKj2iCbKjpUGkD Content-Type: text/plain; charset=us-ascii Content-Disposition: inline On Mon, Sep 10, 2018 at 04:05:41PM +0200, pimi wrote: > gnu/packages/bioinformatics.scm (r-absfiltergsea): New variable. Thanks! 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