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-rw-r--r--R_Overlay.txt398
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diff --git a/R_Overlay.txt b/R_Overlay.txt
index 3c42272c046d..a0b4e195b40d 100644
--- a/R_Overlay.txt
+++ b/R_Overlay.txt
@@ -14,403 +14,23 @@ WARNING:pkgcore:'xelnor' repo at '/var/lib/repo-mirror-ci/sync/xelnor' has unsup
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_20111119-0.99.7
-metadata/md5-cache/sci-BIOC/SNPlocs_Hsapiens_dbSNP_20120608-0.99.10
-metadata/md5-cache/sci-BIOC/pd_ath1_121501-3.12.0
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-metadata/md5-cache/sci-BIOC/pd_e_coli_2-3.12.0
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-metadata/md5-cache/sci-BIOC/pd_mirna_4_0-3.12.0
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-metadata/md5-cache/sci-BIOC/pd_mta_1_0-3.12.0
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-metadata/md5-cache/sci-CRAN/FSMUMI-1.0
-metadata/md5-cache/sci-CRAN/FlexParamCurve-1.5.5
-metadata/md5-cache/sci-CRAN/GENEAsphere-1.5.0
-metadata/md5-cache/sci-CRAN/GSED-2.0
-metadata/md5-cache/sci-CRAN/MRFcov-1.0.36
-metadata/md5-cache/sci-CRAN/NormalLaplace-0.3.0
-metadata/md5-cache/sci-CRAN/PDShiny-0.1.0
-metadata/md5-cache/sci-CRAN/SAMM-1.1
-metadata/md5-cache/sci-CRAN/SMFilter-1.0.0
-metadata/md5-cache/sci-CRAN/SetMethods-2.4
-metadata/md5-cache/sci-CRAN/TRES-0.1.0
-metadata/md5-cache/sci-CRAN/VarianceGamma-0.4.0
-metadata/md5-cache/sci-CRAN/YPInterimTesting-1.0.0
-metadata/md5-cache/sci-CRAN/Z10-0.1.0
-metadata/md5-cache/sci-CRAN/adamethods-1.1
-metadata/md5-cache/sci-CRAN/bioacoustics-0.1.6
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-metadata/md5-cache/sci-CRAN/capm-0.13.9
-metadata/md5-cache/sci-CRAN/changepoint_mv-1.0.0
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-metadata/md5-cache/sci-CRAN/mixKernel-0.3
-metadata/md5-cache/sci-CRAN/motmot_2_0-1.1.2
-metadata/md5-cache/sci-CRAN/npordtests-1.1
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-profiles/desc/
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-sci-BIOC/BSgenome_Mfascicularis_NCBI_5_0/BSgenome_Mfascicularis_NCBI_5_0-1.4.2.ebuild
-sci-BIOC/BSgenome_Mfascicularis_NCBI_5_0/Manifest
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-sci-BIOC/COSMIC_67/Manifest
-sci-BIOC/COSMIC_67/metadata.xml
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-sci-BIOC/MafDb_ALL_wgs_phase1_release_v3_20101123/Manifest
-sci-BIOC/MafDb_ALL_wgs_phase1_release_v3_20101123/metadata.xml
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-sci-BIOC/MafDb_ALL_wgs_phase3_release_v5a_20130502/Manifest
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-sci-BIOC/MafDb_ALL_wgs_phase3_release_v5b_20130502/metadata.xml
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-sci-BIOC/SNPlocs_Hsapiens_dbSNP_20090506/SNPlocs_Hsapiens_dbSNP_20090506-0.99.9.ebuild
-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
-sci-BIOC/SNPlocs_Hsapiens_dbSNP_20120608/SNPlocs_Hsapiens_dbSNP_20120608-0.99.10.ebuild
-sci-BIOC/SNPlocs_Hsapiens_dbSNP_20120608/metadata.xml
-sci-BIOC/pd_ath1_121501/Manifest
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-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
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-sci-BIOC/pd_genomewidesnp_5/pd_genomewidesnp_5-3.14.1.ebuild
-sci-BIOC/pd_genomewidesnp_6/Manifest
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-sci-BIOC/pd_hg_u133_plus_2/Manifest
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-sci-BIOC/pd_hg_u133a_2/Manifest
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-sci-BIOC/pd_hta_2_0/Manifest
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-sci-BIOC/pd_hta_2_0/pd_hta_2_0-3.12.1.ebuild
-sci-BIOC/pd_mirna_1_0/Manifest
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-sci-BIOC/pd_mirna_1_0/pd_mirna_1_0-3.12.0.ebuild
-sci-BIOC/pd_mirna_2_0/Manifest
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-sci-BIOC/pd_mirna_3_0/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
-sci-BIOC/pd_mouse430_2/Manifest
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-sci-BIOC/pd_mouse430_2/pd_mouse430_2-3.12.0.ebuild
-sci-BIOC/pd_mouse430a_2/Manifest
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-sci-BIOC/pd_mta_1_0/Manifest
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-sci-BIOC/pd_rat230_2/Manifest
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-sci-BIOC/pd_rta_1_0/Manifest
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-sci-BIOC/pd_rta_1_0/pd_rta_1_0-3.12.0.ebuild
-sci-BIOC/pd_x_laevis_2/Manifest
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-sci-BIOC/pd_x_laevis_2/pd_x_laevis_2-3.12.0.ebuild
-sci-BIOC/pd_yeast_2/Manifest
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-sci-CRAN/
-sci-CRAN/FSMUMI/
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-sci-CRAN/FSMUMI/Manifest
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-sci-CRAN/FlexParamCurve/
-sci-CRAN/FlexParamCurve/FlexParamCurve-1.5.5.ebuild
-sci-CRAN/FlexParamCurve/Manifest
-sci-CRAN/FlexParamCurve/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/GENEAsphere/
-sci-CRAN/GENEAsphere/GENEAsphere-1.5.0.ebuild
-sci-CRAN/GENEAsphere/Manifest
-sci-CRAN/GENEAsphere/metadata.xml
-sci-CRAN/GSED/
-sci-CRAN/GSED/GSED-2.0.ebuild
-sci-CRAN/GSED/Manifest
-sci-CRAN/GSED/metadata.xml
-sci-CRAN/MRFcov/
-sci-CRAN/MRFcov/MRFcov-1.0.36.ebuild
-sci-CRAN/MRFcov/Manifest
-sci-CRAN/MRFcov/metadata.xml
-sci-CRAN/NormalLaplace/
-sci-CRAN/NormalLaplace/Manifest
-sci-CRAN/NormalLaplace/NormalLaplace-0.3.0.ebuild
-sci-CRAN/NormalLaplace/metadata.xml
-sci-CRAN/PDShiny/
-sci-CRAN/PDShiny/Manifest
-sci-CRAN/PDShiny/PDShiny-0.1.0.ebuild
-sci-CRAN/PDShiny/metadata.xml
-sci-CRAN/SAMM/
-sci-CRAN/SAMM/Manifest
-sci-CRAN/SAMM/SAMM-1.1.ebuild
-sci-CRAN/SAMM/metadata.xml
-sci-CRAN/SMFilter/
-sci-CRAN/SMFilter/Manifest
-sci-CRAN/SMFilter/SMFilter-1.0.0.ebuild
-sci-CRAN/SMFilter/metadata.xml
-sci-CRAN/SetMethods/
-sci-CRAN/SetMethods/Manifest
-sci-CRAN/SetMethods/SetMethods-2.4.ebuild
-sci-CRAN/SetMethods/metadata.xml
-sci-CRAN/TRES/
-sci-CRAN/TRES/Manifest
-sci-CRAN/TRES/TRES-0.1.0.ebuild
-sci-CRAN/TRES/metadata.xml
-sci-CRAN/VarianceGamma/
-sci-CRAN/VarianceGamma/Manifest
-sci-CRAN/VarianceGamma/VarianceGamma-0.4.0.ebuild
-sci-CRAN/VarianceGamma/metadata.xml
-sci-CRAN/YPInterimTesting/
-sci-CRAN/YPInterimTesting/Manifest
-sci-CRAN/YPInterimTesting/YPInterimTesting-1.0.0.ebuild
-sci-CRAN/YPInterimTesting/metadata.xml
-sci-CRAN/Z10/
-sci-CRAN/Z10/Manifest
-sci-CRAN/Z10/Z10-0.1.0.ebuild
-sci-CRAN/Z10/metadata.xml
-sci-CRAN/adamethods/
-sci-CRAN/adamethods/Manifest
-sci-CRAN/adamethods/adamethods-1.1.ebuild
-sci-CRAN/adamethods/metadata.xml
-sci-CRAN/bioacoustics/
-sci-CRAN/bioacoustics/Manifest
-sci-CRAN/bioacoustics/bioacoustics-0.1.6.ebuild
-sci-CRAN/bioacoustics/metadata.xml
-sci-CRAN/bipartiteD3/
-sci-CRAN/bipartiteD3/Manifest
-sci-CRAN/bipartiteD3/bipartiteD3-0.1.0.ebuild
-sci-CRAN/bipartiteD3/metadata.xml
-sci-CRAN/capm/
-sci-CRAN/capm/Manifest
-sci-CRAN/capm/capm-0.13.9.ebuild
-sci-CRAN/capm/metadata.xml
-sci-CRAN/changepoint_mv/
-sci-CRAN/changepoint_mv/Manifest
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-sci-CRAN/changepoint_mv/metadata.xml
-sci-CRAN/coveffectsplot/
-sci-CRAN/coveffectsplot/Manifest
-sci-CRAN/coveffectsplot/coveffectsplot-0.0.1.ebuild
-sci-CRAN/coveffectsplot/metadata.xml
-sci-CRAN/cranlike/
-sci-CRAN/cranlike/Manifest
-sci-CRAN/cranlike/cranlike-1.0.2.ebuild
-sci-CRAN/cranlike/metadata.xml
-sci-CRAN/crosswalkr/
-sci-CRAN/crosswalkr/Manifest
-sci-CRAN/crosswalkr/crosswalkr-0.2.2.ebuild
-sci-CRAN/crosswalkr/metadata.xml
-sci-CRAN/dartR/
-sci-CRAN/dartR/Manifest
-sci-CRAN/dartR/dartR-1.1.6.ebuild
-sci-CRAN/dartR/metadata.xml
-sci-CRAN/fChange/
-sci-CRAN/fChange/Manifest
-sci-CRAN/fChange/fChange-0.2.0.ebuild
-sci-CRAN/fChange/metadata.xml
-sci-CRAN/frailtypack/
-sci-CRAN/frailtypack/Manifest
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-sci-CRAN/frailtypack/metadata.xml
-sci-CRAN/hR/
-sci-CRAN/hR/Manifest
-sci-CRAN/hR/hR-0.1.4.ebuild
-sci-CRAN/hR/metadata.xml
-sci-CRAN/hmm_discnp/
-sci-CRAN/hmm_discnp/Manifest
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-sci-CRAN/hmm_discnp/metadata.xml
-sci-CRAN/hsphase/
-sci-CRAN/hsphase/Manifest
-sci-CRAN/hsphase/hsphase-2.0.2.ebuild
-sci-CRAN/hsphase/metadata.xml
-sci-CRAN/ipdw/
-sci-CRAN/ipdw/Manifest
-sci-CRAN/ipdw/ipdw-0.2.7.ebuild
-sci-CRAN/ipdw/metadata.xml
-sci-CRAN/kappaSize/
-sci-CRAN/kappaSize/Manifest
-sci-CRAN/kappaSize/kappaSize-1.2.ebuild
-sci-CRAN/kappaSize/metadata.xml
-sci-CRAN/mixKernel/
-sci-CRAN/mixKernel/Manifest
-sci-CRAN/mixKernel/metadata.xml
-sci-CRAN/mixKernel/mixKernel-0.3.ebuild
-sci-CRAN/motmot_2_0/Manifest
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-sci-CRAN/npordtests/
-sci-CRAN/npordtests/Manifest
-sci-CRAN/npordtests/metadata.xml
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-sci-CRAN/postlogic/
-sci-CRAN/postlogic/Manifest
-sci-CRAN/postlogic/metadata.xml
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-sci-CRAN/questionr/
-sci-CRAN/questionr/Manifest
-sci-CRAN/questionr/metadata.xml
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-sci-CRAN/raptr/
-sci-CRAN/raptr/Manifest
-sci-CRAN/raptr/metadata.xml
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-sci-CRAN/rdwd/
-sci-CRAN/rdwd/Manifest
-sci-CRAN/rdwd/metadata.xml
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-sci-CRAN/readODS/
-sci-CRAN/readODS/Manifest
-sci-CRAN/readODS/metadata.xml
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-sci-CRAN/read_gb/
-sci-CRAN/read_gb/Manifest
-sci-CRAN/read_gb/metadata.xml
-sci-CRAN/read_gb/read_gb-1.6.ebuild
-sci-CRAN/restez/
-sci-CRAN/restez/Manifest
-sci-CRAN/restez/metadata.xml
-sci-CRAN/restez/restez-1.0.0.ebuild
-sci-CRAN/rio/
-sci-CRAN/rio/Manifest
-sci-CRAN/rio/metadata.xml
-sci-CRAN/rio/rio-0.5.16.ebuild
-sci-CRAN/spacesXYZ/
-sci-CRAN/spacesXYZ/Manifest
-sci-CRAN/spacesXYZ/metadata.xml
-sci-CRAN/spacesXYZ/spacesXYZ-1.0.2.ebuild
-sci-CRAN/suropt/
-sci-CRAN/suropt/Manifest
-sci-CRAN/suropt/metadata.xml
-sci-CRAN/suropt/suropt-0.1.0.ebuild
-sci-CRAN/survival/
-sci-CRAN/survival/Manifest
-sci-CRAN/survival/metadata.xml
-sci-CRAN/survival/survival-2.43.3.ebuild
-sci-CRAN/ypr/
-sci-CRAN/ypr/Manifest
-sci-CRAN/ypr/metadata.xml
-sci-CRAN/ypr/ypr-0.3.0.ebuild
-sci-CRAN/zscorer/
-sci-CRAN/zscorer/Manifest
-sci-CRAN/zscorer/metadata.xml
-sci-CRAN/zscorer/zscorer-0.2.0.ebuild
Number of files: 152,542 (reg: 136,034, dir: 16,508)
-Number of created files: 129 (reg: 116, dir: 13)
+Number of created files: 0
Number of deleted files: 0
-Number of regular files transferred: 330
+Number of regular files transferred: 0
Total file size: 135.24M bytes
-Total transferred file size: 449.83K bytes
-Literal data: 449.83K bytes
+Total transferred file size: 0 bytes
+Literal data: 0 bytes
Matched data: 0 bytes
-File list size: 3.92M
+File list size: 3.96M
File list generation time: 0.001 seconds
File list transfer time: 0.000 seconds
-Total bytes sent: 23.94K
-Total bytes received: 4.71M
+Total bytes sent: 17.31K
+Total bytes received: 4.45M
-sent 23.94K bytes received 4.71M bytes 1.89M bytes/sec
-total size is 135.24M speedup is 28.59
+sent 17.31K bytes received 4.45M bytes 1.79M bytes/sec
+total size is 135.24M speedup is 30.25
*** synced R_Overlay
* Sync succeeded
$ stat --format=%y .