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id 820B9E4073 for ; Sun, 27 Jan 2013 08:29:46 +0000 (UTC) From: "Denis Dupeyron" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "Denis Dupeyron" Message-ID: <1359275366.39d21926cf61ed4d303ac86e2e7e1d11dbbedf92.calchan@gentoo> Subject: [gentoo-commits] proj/R_overlay:master commit in: config/simple-deprules.d/ X-VCS-Repository: proj/R_overlay X-VCS-Files: config/simple-deprules.d/dot_remap config/simple-deprules.d/ignored_text config/simple-deprules.d/missing config/simple-deprules.d/sci-libs config/simple-deprules.d/sys X-VCS-Directories: config/simple-deprules.d/ X-VCS-Committer: calchan X-VCS-Committer-Name: Denis Dupeyron X-VCS-Revision: 39d21926cf61ed4d303ac86e2e7e1d11dbbedf92 X-VCS-Branch: master Date: Sun, 27 Jan 2013 08:29:46 +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: 075374a9-d816-424e-9841-7c7a4711a765 X-Archives-Hash: 04d1ba61b119f8bce97c5977c2036a60 commit: 39d21926cf61ed4d303ac86e2e7e1d11dbbedf92 Author: Denis Dupeyron gentoo org> AuthorDate: Sun Jan 27 08:29:26 2013 +0000 Commit: Denis Dupeyron gentoo org> CommitDate: Sun Jan 27 08:29:26 2013 +0000 URL: http://git.overlays.gentoo.org/gitweb/?p=proj/R_overlay.git;a=commit;h=39d21926 Add a bunch of deprules --- config/simple-deprules.d/dot_remap | 56 +++++++++++++++++++++++++++++++++ config/simple-deprules.d/ignored_text | 3 ++ config/simple-deprules.d/missing | 20 ------------ config/simple-deprules.d/sci-libs | 3 ++ config/simple-deprules.d/sys | 4 ++ 5 files changed, 66 insertions(+), 20 deletions(-) diff --git a/config/simple-deprules.d/dot_remap b/config/simple-deprules.d/dot_remap index 57d65b1..9b53f32 100644 --- a/config/simple-deprules.d/dot_remap +++ b/config/simple-deprules.d/dot_remap @@ -49,6 +49,27 @@ ~sci-R/oro_dicom :: oro.dicom ~sci-R/oro_nifti :: oro.nifti +~sci-R/org_Ag_eg_db :: org.Ag.eg.db +~sci-R/org_At_tair_db :: org.At.tair.db +~sci-R/org_Bt_eg_db :: org.Bt.eg.db +~sci-R/org_Ce_eg_db :: org.Ce.eg.db +~sci-R/org_Cf_eg_db :: org.Cf.eg.db +~sci-R/org_Dm_eg_db :: org.Dm.eg.db +~sci-R/org_Dr_eg_db :: org.Dr.eg.db +~sci-R/org_EcK12_eg_db :: org.EcK12.eg.db +~sci-R/org_EcSakai_eg_db :: org.EcSakai.eg.db +~sci-R/org_Gg_eg_db :: org.Gg.eg.db +~sci-R/org_Hs_eg_db :: org.Hs.eg.db +~sci-R/org_Mm_eg_db :: org.Mm.eg.db +~sci-R/org_Mmu_eg_db :: org.Mmu.eg.db +~sci-R/org_Pf_plasmo_db :: org.Pf.plasmo.db +~sci-R/org_Pt_eg_db :: org.Pt.eg.db +~sci-R/org_Rn_eg_db :: org.Rn.eg.db +~sci-R/org_Sc_sgd_db :: org.Sc.sgd.db +~sci-R/org_Sco_eg_db :: org.Sco.eg.db +~sci-R/org_Ss_eg_db :: org.Ss.eg.db +~sci-R/org_Xl_eg_db :: org.Xl.eg.db + ~sci-R/R_cache :: R.cache ~sci-R/RcmdrPlugin_IPSUR :: RcmdrPlugin.IPSUR ~sci-R/R_devices :: R.devices @@ -70,3 +91,38 @@ ~sci-R/survJamda_data :: survJamda.data ~sci-R/tawny_types :: tawny.types + +~sci-R/DO_db :: DO.db +~sci-R/IlluminaHumanMethylation27k_db :: IlluminaHumanMethylation27k.db +~sci-R/IlluminaHumanMethylation450k_db :: IlluminaHumanMethylation450k.db +~sci-R/KEGG_db :: KEGG.db +~sci-R/SNPlocs_Hsapiens_dbSNP_20090506 :: SNPlocs.Hsapiens.dbSNP.20090506 +~sci-R/SNPlocs_Hsapiens_dbSNP_20100427 :: SNPlocs.Hsapiens.dbSNP.20100427 +~sci-R/SNPlocs_Hsapiens_dbSNP_20101109 :: SNPlocs.Hsapiens.dbSNP.20101109 +~sci-R/gahgu133plus2_db :: gahgu133plus2.db +~sci-R/hgfocus_db :: hgfocus.db +~sci-R/hgu133a_db :: hgu133a.db +~sci-R/hgu133plus2_db :: hgu133plus2.db +~sci-R/hgu95a_db :: hgu95a.db +~sci-R/hgu95av2_db :: hgu95av2.db +~sci-R/hgug4112a_db :: hgug4112a.db +~sci-R/hu6800_db :: hu6800.db +~sci-R/illuminaHumanv1_db :: illuminaHumanv1.db +~sci-R/nutshell_bbdb :: nutshell.bbdb +~sci-R/reactome_db :: reactome.db + +~sci-R/RmiR_Hs_miRNA :: RmiR.Hs.miRNA +~sci-R/TxDb_Hsapiens_UCSC_hg18_knownGene :: TxDb.Hsapiens.UCSC.hg18.knownGene +~sci-R/TxDb_Hsapiens_UCSC_hg19_knownGene :: TxDb.Hsapiens.UCSC.hg19.knownGene +~sci-R/bigmemory_sri :: bigmemory.sri +~sci-R/gamlss_add :: gamlss.add +~sci-R/gemtc_jar :: gemtc.jar +~sci-R/haplo_stats :: haplo.stats +~sci-R/nutshell_audioscrobbler :: nutshell.audioscrobbler +~sci-R/pd_charm_hg18_example :: pd.charm.hg18.example +~sci-R/pd_mapping250k_nsp :: pd.mapping250k.nsp +~sci-R/pd_mapping250k_sty :: pd.mapping250k.sty +~sci-R/pd_mapping50k_hind240 :: pd.mapping50k.hind240 +~sci-R/pd_mapping50k_xba240 :: pd.mapping50k.xba240 +~sci-R/simdat_base :: simdat.base + diff --git a/config/simple-deprules.d/ignored_text b/config/simple-deprules.d/ignored_text index 31871e3..34f11eb 100644 --- a/config/simple-deprules.d/ignored_text +++ b/config/simple-deprules.d/ignored_text @@ -57,3 +57,6 @@ windows: Tiff(libtiff3.dll) zlib1.dll and jpeg62.dll } + +# typo, and glibc is always built with pthreads nowadays +! :: lippthread diff --git a/config/simple-deprules.d/missing b/config/simple-deprules.d/missing index 0cf60b4..9674bba 100644 --- a/config/simple-deprules.d/missing +++ b/config/simple-deprules.d/missing @@ -243,26 +243,6 @@ moe430a.db, mogene10sttranscriptcluster.db, mouse.db0 -- BIOC "mSQL-2.0.8 (http://www.Hughes.com.au), mSQL-2.0.8 (http://www.Hughes.com.au) or higher" -- -org.Ag.eg.db, -org.At.tair.db, -org.Bt.eg.db, -org.Ce.eg.db, -org.Cf.eg.db, -org.Dm.eg.db, -org.Dr.eg.db, -org.EcK12.eg.db, -org.EcSakai.eg.db, -org.Gg.eg.db, -org.Hs.eg.db, -org.Hs.ipi.db, -org.Mm.eg.db, -org.Mmu.eg.db, -org.Pf.plasmo.db, -org.Pt.eg.db, -org.Rn.eg.db, -org.Sco.eg.db, -org.Sc.sgd.db, -org.Ss.eg.db, org.Xl.eg.db -- BIOC pcaGoPromoter.Hs.hg19, pcaGoPromoter.Mm.mm9, diff --git a/config/simple-deprules.d/sci-libs b/config/simple-deprules.d/sci-libs index 8e20c5b..cb48d04 100644 --- a/config/simple-deprules.d/sci-libs +++ b/config/simple-deprules.d/sci-libs @@ -74,3 +74,6 @@ sci-libs/udunits :: udunits (>= 1.11.7) or udunits2(>= 2.1.22) } virtual/blas :: blas + +# In the science overlay +~sci-libs/coinor-clp :: COIN-OR Clp diff --git a/config/simple-deprules.d/sys b/config/simple-deprules.d/sys index 3b793d0..df2ad0c 100644 --- a/config/simple-deprules.d/sys +++ b/config/simple-deprules.d/sys @@ -14,3 +14,7 @@ sys-libs/zlib :: zlib (optional) LamMPI(>= 6.5.9) or MPICH2(>= 1.0.2) or OpenMPI () LamMpi(>= 6.5.9) or Mpich2(>= 1.0.2) } + +! { + rgl packages for rendering +}