From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from lists.gentoo.org (pigeon.gentoo.org [208.92.234.80]) by finch.gentoo.org (Postfix) with ESMTP id E84FF1381F3 for ; Tue, 27 Aug 2013 15:40:18 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id 4FDD1E0B8B; Tue, 27 Aug 2013 15:40:05 +0000 (UTC) Received: from smtp.gentoo.org (smtp.gentoo.org [140.211.166.183]) (using TLSv1 with cipher AECDH-AES256-SHA (256/256 bits)) (No client certificate requested) by pigeon.gentoo.org (Postfix) with ESMTPS id B4A0BE0B8B for ; Tue, 27 Aug 2013 15:40:04 +0000 (UTC) Received: from hornbill.gentoo.org (hornbill.gentoo.org [94.100.119.163]) (using TLSv1 with cipher AECDH-AES256-SHA (256/256 bits)) (No client certificate requested) by smtp.gentoo.org (Postfix) with ESMTPS id 94B2A33ECB6 for ; Tue, 27 Aug 2013 15:39:57 +0000 (UTC) Received: from localhost.localdomain (localhost [127.0.0.1]) by hornbill.gentoo.org (Postfix) with ESMTP id A2CA7E546D for ; Tue, 27 Aug 2013 15:39:55 +0000 (UTC) From: "André Erdmann" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "André Erdmann" Message-ID: <1377617899.3ed6ae45fdc67fedd3886c00b0117709c9c90ebe.dywi@gentoo> Subject: [gentoo-commits] proj/R_overlay:master commit in: config/simple-deprules.d/, config/simple-deprules.d/selfdeps.d/ X-VCS-Repository: proj/R_overlay X-VCS-Files: config/simple-deprules.d/selfdeps config/simple-deprules.d/selfdeps.d/README config/simple-deprules.d/selfdeps.d/sci-BIOC config/simple-deprules.d/selfdeps.d/sci-CRAN X-VCS-Directories: config/simple-deprules.d/ config/simple-deprules.d/selfdeps.d/ X-VCS-Committer: dywi X-VCS-Committer-Name: André Erdmann X-VCS-Revision: 3ed6ae45fdc67fedd3886c00b0117709c9c90ebe X-VCS-Branch: master Date: Tue, 27 Aug 2013 15:39:55 +0000 (UTC) Precedence: bulk List-Post: List-Help: List-Unsubscribe: List-Subscribe: List-Id: Gentoo Linux mail X-BeenThere: gentoo-commits@lists.gentoo.org X-Archives-Salt: 633af370-d310-4e5d-ac34-deaeb9cb936e X-Archives-Hash: 0dc0fc171fcdcef2d5fb7d4e1b5dc2bf commit: 3ed6ae45fdc67fedd3886c00b0117709c9c90ebe Author: André Erdmann mailerd de> AuthorDate: Tue Aug 27 15:38:19 2013 +0000 Commit: André Erdmann mailerd de> CommitDate: Tue Aug 27 15:38:19 2013 +0000 URL: http://git.overlays.gentoo.org/gitweb/?p=proj/R_overlay.git;a=commit;h=3ed6ae45 per-repo selfdep rule files --- config/simple-deprules.d/selfdeps | 49 ++++------------------------ config/simple-deprules.d/selfdeps.d/README | 11 +++++++ config/simple-deprules.d/selfdeps.d/sci-BIOC | 13 ++++++++ config/simple-deprules.d/selfdeps.d/sci-CRAN | 40 +++++++++++++++++++++++ 4 files changed, 71 insertions(+), 42 deletions(-) diff --git a/config/simple-deprules.d/selfdeps b/config/simple-deprules.d/selfdeps index 2037de2..63e49bc 100644 --- a/config/simple-deprules.d/selfdeps +++ b/config/simple-deprules.d/selfdeps @@ -1,16 +1,11 @@ -#deptype pkg,selfdep +#! NOPARSE +#! ERROR +# Replaced by the selfdeps.d directory, which contains per-repo selfdep files. +# +# This file lists old rules, which are not yet included there. +# -# FIXME: this may be incorrect -~sci-R/BSgenome { - BSgenome.Celegans.UCSC.ce2 - BSgenome.Dmelanogaster.UCSC.dm3 - BSgenome.Ecoli.NCBI.20080805 - BSgenome.Hsapiens.UCSC.hg18 - BSgenome.Hsapiens.UCSC.hg19 - BSgenome.Mmusculus.UCSC.mm9 - BSgenome.Rnorvegicus.UCSC.rn4 - BSgenome.Scerevisiae.UCSC.sacCer2 -} +#deptype pkg,selfdep sci-R/chron :: get.hist.quote needs packagechron. @@ -20,38 +15,8 @@ sci-R/chron :: get.hist.quote needs packagechron. CoCoObjects CoCoRaw } - -sci-R/csound { - A valid copy of the Csound library must be present.Csound can be downloaded from http://www.csounds.com. Thelibrary is included in the default Windows and Mac OS Xdistributions - playitbyr creates sound using the csound package - which requires the free and open source software synthesizerCsound -} - -~sci-R/mimR :: mim - -sci-R/MVA { - white.test needs packagemva - white.test needs package mva -} - -sci-R/quadprog :: portfolio.optim needs package quadprog - -sci-R/rgl :: rgl packages for rendering - -~sci-R/sgeostat { - sgeostat. - geostat. -} - sci-R/survival4 :: survival4 if survival models are to be used. ~sci-R/survival5 :: survival5 for some examples sci-R/survival5 :: survival5 if survival models are to be used. ~sci-R/VhayuR :: Vhayu - -sci-R/xgobi { - xgobi must be installed additionally - xgobi & xgvis programs: http://www.research.att.com/areas/stat/xgobi/ -} - -~sci-R/BayesFactor :: BayesFactorPCL diff --git a/config/simple-deprules.d/selfdeps.d/README b/config/simple-deprules.d/selfdeps.d/README new file mode 100644 index 0000000..30b0051 --- /dev/null +++ b/config/simple-deprules.d/selfdeps.d/README @@ -0,0 +1,11 @@ +#! NOPARSE +# +# Use one file per repo "group" (=same category), so that category moves +# can be edited easily (e.g. with sed). +# +# Don't forget one of +# #deptype sys,selfdep +# #deptype pkg,selfdep +# at the top of each rule file. +# +#! ERROR diff --git a/config/simple-deprules.d/selfdeps.d/sci-BIOC b/config/simple-deprules.d/selfdeps.d/sci-BIOC new file mode 100644 index 0000000..4ade538 --- /dev/null +++ b/config/simple-deprules.d/selfdeps.d/sci-BIOC @@ -0,0 +1,13 @@ +#deptype pkg,selfdep + +# FIXME: this may be incorrect +~sci-R/BSgenome { + BSgenome.Celegans.UCSC.ce2 + BSgenome.Dmelanogaster.UCSC.dm3 + BSgenome.Ecoli.NCBI.20080805 + BSgenome.Hsapiens.UCSC.hg18 + BSgenome.Hsapiens.UCSC.hg19 + BSgenome.Mmusculus.UCSC.mm9 + BSgenome.Rnorvegicus.UCSC.rn4 + BSgenome.Scerevisiae.UCSC.sacCer2 +} diff --git a/config/simple-deprules.d/selfdeps.d/sci-CRAN b/config/simple-deprules.d/selfdeps.d/sci-CRAN new file mode 100644 index 0000000..5935939 --- /dev/null +++ b/config/simple-deprules.d/selfdeps.d/sci-CRAN @@ -0,0 +1,40 @@ +#deptype pkg,selfdep + +sci-CRAN/csound { + A valid copy of the Csound library must be present.Csound can be downloaded from http://www.csounds.com. Thelibrary is included in the default Windows and Mac OS Xdistributions + playitbyr creates sound using the csound package + which requires the free and open source software synthesizerCsound +} + +~sci-CRAN/mimR :: mim + +sci-CRAN/quadprog :: portfolio.optim needs package quadprog + +sci-CRAN/rgl :: rgl packages for rendering + +sci-CRAN/MVA { + white.test needs packagemva + white.test needs package mva +} + +~sci-CRAN/sgeostat { + sgeostat. + geostat. +} + +# the following rule is _not_ correct +# (the dependency strings listed here want the "xgobi" program from +# http://www.research.att.com/areas/stat/xgobi/, not the R package) +# +## sci-CRAN/xgobi { +## xgobi must be installed additionally +## xgobi & xgvis programs: http://www.research.att.com/areas/stat/xgobi/ +## } + +~sci-CRAN/BayesFactor :: BayesFactorPCL + +>=sci-CRAN/adimpro-0.4.2 :: adimpro (>= 0.4.2)The R-package 'adimpro' (for reading + +sci-CRAN/adimpro { + The R-package 'adimpro' (for reading +}