2018-07-14T05:20:01Z

1 files changed, 337 insertions, 11 deletions

diff --git a/R_Overlay.txt b/R_Overlay.txt
index 77bee5eb4273..da7a167d482a 100644
--- a/R_Overlay.txt
+++ b/R_Overlay.txt
@@ -11,26 +11,352 @@
 $ pmaint sync R_Overlay
 WARNING:pkgcore:'genthree' repo at '/var/lib/repo-mirror-ci/sync/genthree' has unsupported profile format: profile-bashrcs
 WARNING:pkgcore:'xelnor' repo at '/var/lib/repo-mirror-ci/sync/xelnor' has unsupported profile format: build-id
+WARNING:pkgcore:repo lacks a defined name: '/var/lib/repo-mirror-ci/sync/TAJJADA'
+WARNING:pkgcore:repo at '/var/lib/repo-mirror-ci/sync/TAJJADA', named 'TAJJADA', doesn't specify masters in metadata/layout.conf. Please explicitly set masters (use "masters =" if the repo is standalone).
 WARNING:pkgcore:'xelnor' repo at '/var/lib/repo-mirror-ci/sync/xelnor' has unsupported profile format: build-id
 *** syncing R_Overlay
 receiving incremental file list
+eclass/R-packages.eclass
+metadata/layout.conf
+metadata/md5-cache/
+metadata/md5-cache/sci-BIOC/
+metadata/md5-cache/sci-BIOC/COSMIC_67-1.6.0
+metadata/md5-cache/sci-BIOC/MafDb_ALL_wgs_phase1_release_v3_20101123-3.2.0
+metadata/md5-cache/sci-BIOC/MafDb_ALL_wgs_phase3_release_v5a_20130502-3.2.0
+metadata/md5-cache/sci-BIOC/MafDb_ALL_wgs_phase3_release_v5b_20130502-3.2.0
+metadata/md5-cache/sci-BIOC/SNPlocs_Hsapiens_dbSNP_20090506-0.99.9
+metadata/md5-cache/sci-BIOC/SNPlocs_Hsapiens_dbSNP_20100427-0.99.7
+metadata/md5-cache/sci-BIOC/SNPlocs_Hsapiens_dbSNP_20101109-0.99.7
+metadata/md5-cache/sci-BIOC/SNPlocs_Hsapiens_dbSNP_20110815-0.99.7
+metadata/md5-cache/sci-BIOC/SNPlocs_Hsapiens_dbSNP_20120608-0.99.10
+metadata/md5-cache/sci-BIOC/pd_ath1_121501-3.12.0
+metadata/md5-cache/sci-BIOC/pd_canine_2-3.12.0
+metadata/md5-cache/sci-BIOC/pd_drosophila_2-3.12.0
+metadata/md5-cache/sci-BIOC/pd_e_coli_2-3.12.0
+metadata/md5-cache/sci-BIOC/pd_genomewidesnp_5-3.14.1
+metadata/md5-cache/sci-BIOC/pd_genomewidesnp_6-3.14.1
+metadata/md5-cache/sci-BIOC/pd_hg_u133_plus_2-3.12.0
+metadata/md5-cache/sci-BIOC/pd_hg_u133a_2-3.12.0
+metadata/md5-cache/sci-BIOC/pd_hta_2_0-3.12.1
+metadata/md5-cache/sci-BIOC/pd_mirna_1_0-3.12.0
+metadata/md5-cache/sci-BIOC/pd_mirna_2_0-3.12.0
+metadata/md5-cache/sci-BIOC/pd_mirna_3_0-3.12.0
+metadata/md5-cache/sci-BIOC/pd_mirna_3_1-3.8.1
+metadata/md5-cache/sci-BIOC/pd_mirna_4_0-3.12.0
+metadata/md5-cache/sci-BIOC/pd_mouse430_2-3.12.0
+metadata/md5-cache/sci-BIOC/pd_mouse430a_2-3.12.0
+metadata/md5-cache/sci-BIOC/pd_mta_1_0-3.12.0
+metadata/md5-cache/sci-BIOC/pd_rat230_2-3.12.0
+metadata/md5-cache/sci-BIOC/pd_rta_1_0-3.12.0
+metadata/md5-cache/sci-BIOC/pd_x_laevis_2-3.12.0
+metadata/md5-cache/sci-BIOC/pd_yeast_2-3.12.0
+metadata/md5-cache/sci-CRAN/
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+metadata/md5-cache/sci-CRAN/DLMtool-5.2.1
+metadata/md5-cache/sci-CRAN/DTWUMI-1.0
+metadata/md5-cache/sci-CRAN/FKF-0.1.4
+metadata/md5-cache/sci-CRAN/FRK-0.2.2
+metadata/md5-cache/sci-CRAN/OjaNP-0.9.10
+metadata/md5-cache/sci-CRAN/RSuite-0.30.241
+metadata/md5-cache/sci-CRAN/Rlda-0.2.5
+metadata/md5-cache/sci-CRAN/Rlinsolve-0.3.0
+metadata/md5-cache/sci-CRAN/bacistool-0.9.2
+metadata/md5-cache/sci-CRAN/dynRB-0.13
+metadata/md5-cache/sci-CRAN/eha-2.6.0
+metadata/md5-cache/sci-CRAN/fakemake-1.3.0
+metadata/md5-cache/sci-CRAN/geodist-0.0.1
+metadata/md5-cache/sci-CRAN/geostatsp-1.7.2
+metadata/md5-cache/sci-CRAN/gginnards-0.0.1
+metadata/md5-cache/sci-CRAN/googlenlp-0.2.0
+metadata/md5-cache/sci-CRAN/htree-2.0.0
+metadata/md5-cache/sci-CRAN/incadata-0.6.4
+metadata/md5-cache/sci-CRAN/iterators-1.0.10
+metadata/md5-cache/sci-CRAN/joint_Cox-2.16
+metadata/md5-cache/sci-CRAN/jstor-0.3.1
+metadata/md5-cache/sci-CRAN/modelgrid-1.1.0.0
+metadata/md5-cache/sci-CRAN/motmot_2_0-1.1.2
+metadata/md5-cache/sci-CRAN/nlaR-0.3
+metadata/md5-cache/sci-CRAN/ofGEM-1.0
+metadata/md5-cache/sci-CRAN/pgdraw-1.0
+metadata/md5-cache/sci-CRAN/pompom-0.2.0
+metadata/md5-cache/sci-CRAN/psycho-0.3.4
+metadata/md5-cache/sci-CRAN/sgmodel-0.1.0
+metadata/md5-cache/sci-CRAN/skpr-0.53.4
+metadata/md5-cache/sci-CRAN/spCP-1.0
+metadata/md5-cache/sci-CRAN/spacesXYZ-1.0.1
+metadata/md5-cache/sci-CRAN/survival-2.42.6
+metadata/md5-cache/sci-CRAN/varImp-0.1
+profiles/categories
+profiles/repo_name
+profiles/use.desc
+profiles/desc/
+profiles/desc/r_suggests.desc
+profiles/desc/r_suggests.desc.bak
+sci-BIOC/BSgenome_Athaliana_TAIR_04232008/BSgenome_Athaliana_TAIR_04232008-1.3.1000.ebuild
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+sci-BIOC/BSgenome_Athaliana_TAIR_04232008/metadata.xml
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+sci-BIOC/BSgenome_Mfascicularis_NCBI_5_0/metadata.xml
+sci-BIOC/BSgenome_Tgondii_ToxoDB_7_0/BSgenome_Tgondii_ToxoDB_7_0-0.99.0.ebuild
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+sci-BIOC/MafDb_ALL_wgs_phase3_release_v5b_20130502/metadata.xml
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20090506/Manifest
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+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20090506/metadata.xml
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20100427/Manifest
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20100427/SNPlocs_Hsapiens_dbSNP_20100427-0.99.7.ebuild
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20100427/metadata.xml
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20101109/Manifest
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20101109/SNPlocs_Hsapiens_dbSNP_20101109-0.99.7.ebuild
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20101109/metadata.xml
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20110815/Manifest
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20110815/SNPlocs_Hsapiens_dbSNP_20110815-0.99.7.ebuild
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20110815/metadata.xml
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20111119/Manifest
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20111119/SNPlocs_Hsapiens_dbSNP_20111119-0.99.7.ebuild
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20111119/metadata.xml
+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20120608/Manifest
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+sci-BIOC/SNPlocs_Hsapiens_dbSNP_20120608/metadata.xml
+sci-BIOC/pd_ath1_121501/Manifest
+sci-BIOC/pd_ath1_121501/metadata.xml
+sci-BIOC/pd_ath1_121501/pd_ath1_121501-3.12.0.ebuild
+sci-BIOC/pd_canine_2/Manifest
+sci-BIOC/pd_canine_2/metadata.xml
+sci-BIOC/pd_canine_2/pd_canine_2-3.12.0.ebuild
+sci-BIOC/pd_drosophila_2/Manifest
+sci-BIOC/pd_drosophila_2/metadata.xml
+sci-BIOC/pd_drosophila_2/pd_drosophila_2-3.12.0.ebuild
+sci-BIOC/pd_e_coli_2/Manifest
+sci-BIOC/pd_e_coli_2/metadata.xml
+sci-BIOC/pd_e_coli_2/pd_e_coli_2-3.12.0.ebuild
+sci-BIOC/pd_genomewidesnp_5/Manifest
+sci-BIOC/pd_genomewidesnp_5/metadata.xml
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+sci-BIOC/pd_genomewidesnp_6/Manifest
+sci-BIOC/pd_genomewidesnp_6/metadata.xml
+sci-BIOC/pd_genomewidesnp_6/pd_genomewidesnp_6-3.14.1.ebuild
+sci-BIOC/pd_hg_u133_plus_2/Manifest
+sci-BIOC/pd_hg_u133_plus_2/metadata.xml
+sci-BIOC/pd_hg_u133_plus_2/pd_hg_u133_plus_2-3.12.0.ebuild
+sci-BIOC/pd_hg_u133a_2/Manifest
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+sci-BIOC/pd_mirna_3_0/pd_mirna_3_0-3.12.0.ebuild
+sci-BIOC/pd_mirna_3_1/Manifest
+sci-BIOC/pd_mirna_3_1/metadata.xml
+sci-BIOC/pd_mirna_3_1/pd_mirna_3_1-3.8.1.ebuild
+sci-BIOC/pd_mirna_4_0/Manifest
+sci-BIOC/pd_mirna_4_0/metadata.xml
+sci-BIOC/pd_mirna_4_0/pd_mirna_4_0-3.12.0.ebuild
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+sci-BIOC/pd_mouse430_2/metadata.xml
+sci-BIOC/pd_mouse430_2/pd_mouse430_2-3.12.0.ebuild
+sci-BIOC/pd_mouse430a_2/Manifest
+sci-BIOC/pd_mouse430a_2/metadata.xml
+sci-BIOC/pd_mouse430a_2/pd_mouse430a_2-3.12.0.ebuild
+sci-BIOC/pd_mta_1_0/Manifest
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+sci-BIOC/pd_mta_1_0/pd_mta_1_0-3.12.0.ebuild
+sci-BIOC/pd_rat230_2/Manifest
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+sci-BIOC/pd_rat230_2/pd_rat230_2-3.12.0.ebuild
+sci-BIOC/pd_rta_1_0/Manifest
+sci-BIOC/pd_rta_1_0/metadata.xml
+sci-BIOC/pd_rta_1_0/pd_rta_1_0-3.12.0.ebuild
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+sci-BIOC/pd_x_laevis_2/pd_x_laevis_2-3.12.0.ebuild
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+sci-BIOC/pd_yeast_2/pd_yeast_2-3.12.0.ebuild
+sci-CRAN/
+sci-CRAN/CANSIM2R/
+sci-CRAN/CANSIM2R/CANSIM2R-1.12.1.ebuild
+sci-CRAN/CANSIM2R/Manifest
+sci-CRAN/CANSIM2R/metadata.xml
+sci-CRAN/DLMtool/
+sci-CRAN/DLMtool/DLMtool-5.2.1.ebuild
+sci-CRAN/DLMtool/Manifest
+sci-CRAN/DLMtool/metadata.xml
+sci-CRAN/DTWUMI/
+sci-CRAN/DTWUMI/DTWUMI-1.0.ebuild
+sci-CRAN/DTWUMI/Manifest
+sci-CRAN/DTWUMI/metadata.xml
+sci-CRAN/FKF/
+sci-CRAN/FKF/FKF-0.1.4.ebuild
+sci-CRAN/FKF/Manifest
+sci-CRAN/FKF/metadata.xml
+sci-CRAN/FRK/
+sci-CRAN/FRK/FRK-0.2.2.ebuild
+sci-CRAN/FRK/Manifest
+sci-CRAN/FRK/metadata.xml
+sci-CRAN/FuzzyNumbers_Ext_2/FuzzyNumbers_Ext_2-3.2.ebuild
+sci-CRAN/FuzzyNumbers_Ext_2/Manifest
+sci-CRAN/FuzzyNumbers_Ext_2/metadata.xml
+sci-CRAN/OjaNP/
+sci-CRAN/OjaNP/Manifest
+sci-CRAN/OjaNP/OjaNP-0.9.10.ebuild
+sci-CRAN/OjaNP/metadata.xml
+sci-CRAN/RSuite/
+sci-CRAN/RSuite/Manifest
+sci-CRAN/RSuite/RSuite-0.30.241.ebuild
+sci-CRAN/RSuite/metadata.xml
+sci-CRAN/Rlda/
+sci-CRAN/Rlda/Manifest
+sci-CRAN/Rlda/Rlda-0.2.5.ebuild
+sci-CRAN/Rlda/metadata.xml
+sci-CRAN/Rlinsolve/
+sci-CRAN/Rlinsolve/Manifest
+sci-CRAN/Rlinsolve/Rlinsolve-0.3.0.ebuild
+sci-CRAN/Rlinsolve/metadata.xml
+sci-CRAN/bacistool/
+sci-CRAN/bacistool/Manifest
+sci-CRAN/bacistool/bacistool-0.9.2.ebuild
+sci-CRAN/bacistool/metadata.xml
+sci-CRAN/dynRB/
+sci-CRAN/dynRB/Manifest
+sci-CRAN/dynRB/dynRB-0.13.ebuild
+sci-CRAN/dynRB/metadata.xml
+sci-CRAN/eha/
+sci-CRAN/eha/Manifest
+sci-CRAN/eha/eha-2.6.0.ebuild
+sci-CRAN/eha/metadata.xml
+sci-CRAN/fakemake/
+sci-CRAN/fakemake/Manifest
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+sci-CRAN/fakemake/metadata.xml
+sci-CRAN/geodist/
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+sci-CRAN/geostatsp/
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+sci-CRAN/geostatsp/geostatsp-1.7.2.ebuild
+sci-CRAN/geostatsp/metadata.xml
+sci-CRAN/gginnards/
+sci-CRAN/gginnards/Manifest
+sci-CRAN/gginnards/gginnards-0.0.1.ebuild
+sci-CRAN/gginnards/metadata.xml
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-Number of files: 142,209 (reg: 126,445, dir: 15,764)
-Number of created files: 0
+Number of files: 142,322 (reg: 126,543, dir: 15,779)
+Number of created files: 113 (reg: 98, dir: 15)
 Number of deleted files: 0
-Number of regular files transferred: 0
-Total file size: 124.01M bytes
-Total transferred file size: 0 bytes
-Literal data: 0 bytes
+Number of regular files transferred: 285
+Total file size: 124.11M bytes
+Total transferred file size: 373.36K bytes
+Literal data: 373.36K bytes
 Matched data: 0 bytes
-File list size: 3.67M
+File list size: 3.76M
 File list generation time: 0.001 seconds
 File list transfer time: 0.000 seconds
-Total bytes sent: 16.50K
-Total bytes received: 4.15M
+Total bytes sent: 22.25K
+Total bytes received: 4.37M
 
-sent 16.50K bytes  received 4.15M bytes  1.67M bytes/sec
-total size is 124.01M  speedup is 29.73
+sent 22.25K bytes  received 4.37M bytes  1.26M bytes/sec
+total size is 124.11M  speedup is 28.23
 *** synced R_Overlay
  * Sync succeeded
 $ stat --format=%y .