binderlog.txt

** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (SingleCellExperiment)
* installing *source* package ‘LRBase.Hsa.eg.db’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (LRBase.Hsa.eg.db)
* installing *source* package ‘MeSH.Hsa.eg.db’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (MeSH.Hsa.eg.db)
* installing *source* package ‘GSEABase’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (GSEABase)
* installing *source* package ‘msigdbr’ ...
** package ‘msigdbr’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (msigdbr)

The downloaded source packages are in
        ‘/tmp/Rtmp8yw9cA/downloaded_packages’
Installation path not writeable, unable to update packages: nlme, survival
Old packages: 'checkmate', 'curl', 'data.table', 'devtools', 'git2r', 'hexbin',
  'httpuv', 'httr', 'igraph', 'interactiveDisplayBase', 'IRkernel', 'later',
  'mime', 'openssl', 'plotrix', 'promises', 'R6', 'RBGL', 'reactome.db',
  'rstudioapi', 'shiny', 'whisker', 'withr', 'xfun', 'xtable'
Downloading GitHub repo rikenbit/scTensor@master
plotly       (NA    -> 4.9.0    ) [CRAN]
nnTensor     (NA    -> 0.99.4   ) [CRAN]
heatmaply    (NA    -> 0.15.2   ) [CRAN]
tagcloud     (NA    -> 0.6      ) [CRAN]
rmarkdown    (NA    -> 1.12     ) [CRAN]
BiocStyle    (NA    -> 2.12.0   ) [CRAN]
knitr        (NA    -> 1.22     ) [CRAN]
Annotatio... (NA    -> 2.16.1   ) [CRAN]
Category     (NA    -> 2.50.0   ) [CRAN]
meshr        (NA    -> 1.20.0   ) [CRAN]
GOstats      (NA    -> 2.50.0   ) [CRAN]
ReactomePA   (NA    -> 1.28.0   ) [CRAN]
DOSE         (NA    -> 3.10.2   ) [CRAN]
visNetwork   (NA    -> 2.0.6    ) [CRAN]
ggplot2      (NA    -> 3.1.1    ) [CRAN]
scales       (NA    -> 1.0.0    ) [CRAN]
httr         (1.3.1 -> 1.4.0    ) [CRAN]
htmlwidgets  (NA    -> 1.3      ) [CRAN]
tidyr        (NA    -> 0.8.3    ) [CRAN]
crosstalk    (NA    -> 1.0.0    ) [CRAN]
fields       (NA    -> 9.6      ) [CRAN]
plot3D       (NA    -> 1.1.1    ) [CRAN]
viridis      (NA    -> 0.5.1    ) [CRAN]
dendextend   (NA    -> 1.10.0   ) [CRAN]
reshape2     (NA    -> 1.4.3    ) [CRAN]
seriation    (NA    -> 1.2-3    ) [CRAN]
webshot      (NA    -> 0.5.1    ) [CRAN]
gplots       (NA    -> 3.0.1.1  ) [CRAN]
tinytex      (NA    -> 0.12     ) [CRAN]
stringr      (NA    -> 1.4.0    ) [CRAN]
bookdown     (NA    -> 0.9      ) [CRAN]
markdown     (NA    -> 0.9      ) [CRAN]
BiocFileC... (NA    -> 1.8.0    ) [CRAN]
genefilter   (NA    -> 1.66.0   ) [CRAN]
fdrtool      (NA    -> 1.2.15   ) [CRAN]
MeSH.db      (NA    -> 1.12.0   ) [CRAN]
MeSH.AOR.db  (NA    -> 1.12.0   ) [CRAN]
MeSH.PCR.db  (NA    -> 1.12.0   ) [CRAN]
MeSH.Aca.... (NA    -> 1.12.0   ) [CRAN]
MeSH.Bsu.... (NA    -> 1.12.0   ) [CRAN]
MeSH.Syn.... (NA    -> 1.12.0   ) [CRAN]
cummeRbund   (NA    -> 2.26.0   ) [CRAN]
org.Hs.eg.db (NA    -> 3.8.2    ) [CRAN]
GO.db        (NA    -> 3.8.2    ) [CRAN]
Annotatio... (NA    -> 1.26.0   ) [CRAN]
Rgraphviz    (NA    -> 2.28.0   ) [CRAN]
enrichplot   (NA    -> 1.4.0    ) [CRAN]
ggraph       (NA    -> 1.0.2    ) [CRAN]
graphite     (NA    -> 1.30.0   ) [CRAN]
DO.db        (NA    -> 2.9      ) [CRAN]
fgsea        (NA    -> 1.10.1   ) [CRAN]
GOSemSim     (NA    -> 2.10.0   ) [CRAN]
qvalue       (NA    -> 2.16.0   ) [CRAN]
gtable       (NA    -> 0.3.0    ) [CRAN]
plyr         (NA    -> 1.8.4    ) [CRAN]
withr        (2.1.1 -> 2.1.2    ) [CRAN]
labeling     (NA    -> 0.3      ) [CRAN]
munsell      (NA    -> 0.5.0    ) [CRAN]
R6           (2.2.2 -> 2.4.0    ) [CRAN]
stringi      (NA    -> 1.4.3    ) [CRAN]
openssl      (0.9.9 -> 1.3      ) [CRAN]
askpass      (NA    -> 1.1      ) [CRAN]
sys          (NA    -> 3.1      ) [CRAN]
spam         (NA    -> 2.2-2    ) [CRAN]
maps         (NA    -> 3.3.0    ) [CRAN]
dotCall64    (NA    -> 1.0-0    ) [CRAN]
misc3d       (NA    -> 0.8-4    ) [CRAN]
gridExtra    (NA    -> 2.3      ) [CRAN]
fpc          (NA    -> 2.1-11.1 ) [CRAN]
mclust       (NA    -> 5.4.3    ) [CRAN]
flexmix      (NA    -> 2.3-15   ) [CRAN]
prabclus     (NA    -> 2.2-7    ) [CRAN]
diptest      (NA    -> 0.75-7   ) [CRAN]
mvtnorm      (NA    -> 1.0-10   ) [CRAN]
robustbase   (NA    -> 0.93-4   ) [CRAN]
kernlab      (NA    -> 0.9-27   ) [CRAN]
trimcluster  (NA    -> 0.1-2.1  ) [CRAN]
modeltools   (NA    -> 0.2-22   ) [CRAN]
DEoptimR     (NA    -> 1.0-8    ) [CRAN]
TSP          (NA    -> 1.1-6    ) [CRAN]
qap          (NA    -> 0.1-1    ) [CRAN]
gclus        (NA    -> 1.3.2    ) [CRAN]
registry     (NA    -> 0.5-1    ) [CRAN]
gtools       (NA    -> 3.8.1    ) [CRAN]
gdata        (NA    -> 2.18.0   ) [CRAN]
caTools      (NA    -> 1.17.1.2 ) [CRAN]
foreach      (NA    -> 1.4.4    ) [CRAN]
iterators    (NA    -> 1.0.10   ) [CRAN]
callr        (NA    -> 3.2.0    ) [CRAN]
processx     (NA    -> 3.3.0    ) [CRAN]
ps           (NA    -> 1.3.0    ) [CRAN]
dbplyr       (NA    -> 1.3.0    ) [CRAN]
fastcluster  (NA    -> 1.1.25   ) [CRAN]
rtracklayer  (NA    -> 1.44.4   ) [CRAN]
Gviz         (NA    -> 1.28.3   ) [CRAN]
biomaRt      (NA    -> 2.40.5   ) [CRAN]
GenomicFe... (NA    -> 1.36.4   ) [CRAN]
BSgenome     (NA    -> 1.52.0   ) [CRAN]
Biostrings   (NA    -> 2.52.0   ) [CRAN]
biovizBase   (NA    -> 1.32.0   ) [CRAN]
Rsamtools    (NA    -> 2.0.3    ) [CRAN]
latticeExtra (NA    -> 0.6-28   ) [CRAN]
GenomicAl... (NA    -> 1.20.1   ) [CRAN]
progress     (NA    -> 1.2.0    ) [CRAN]
Hmisc        (NA    -> 4.2-0    ) [CRAN]
dichromat    (NA    -> 2.0-0    ) [CRAN]
VariantAn... (NA    -> 1.30.1   ) [CRAN]
ensembldb    (NA    -> 2.8.1    ) [CRAN]
Annotatio... (NA    -> 1.8.0    ) [CRAN]
Rhtslib      (NA    -> 1.16.3   ) [CRAN]
ProtGenerics (NA    -> 1.16.0   ) [CRAN]
Formula      (NA    -> 1.2-3    ) [CRAN]
acepack      (NA    -> 1.4.1    ) [CRAN]
htmlTable    (NA    -> 1.13.1   ) [CRAN]
hms          (NA    -> 0.4.2    ) [CRAN]
rstudioapi   (0.7   -> 0.10     ) [CRAN]
fastmatch    (NA    -> 1.1-0    ) [CRAN]
cowplot      (NA    -> 0.9.4    ) [CRAN]
europepmc    (NA    -> 0.3      ) [CRAN]
ggplotify    (NA    -> 0.0.3    ) [CRAN]
ggridges     (NA    -> 0.5.1    ) [CRAN]
UpSetR       (NA    -> 1.3.3    ) [CRAN]
urltools     (NA    -> 1.7.2    ) [CRAN]
xml2         (NA    -> 1.2.0    ) [CRAN]
gridGraphics (NA    -> 0.3-0    ) [CRAN]
rvcheck      (NA    -> 0.1.3    ) [CRAN]
ggforce      (NA    -> 0.2.1    ) [CRAN]
ggrepel      (NA    -> 0.8.0    ) [CRAN]
tweenr       (NA    -> 1.0.1    ) [CRAN]
polyclip     (NA    -> 1.10-0   ) [CRAN]
RcppEigen    (NA    -> 0.3.3.5.0) [CRAN]
triebeard    (NA    -> 0.3.0    ) [CRAN]
farver       (NA    -> 1.1.0    ) [CRAN]
Skipping 38 packages ahead of CRAN: RSQLite, S4Vectors, AnnotationDbi, SummarizedExperiment, SingleCellExperiment, MeSHDbi, BiocManager, blob, pkgconfig,Rcpp, BiocGenerics, digest, htmltools, dplyr, tibble, rlang, purrr, Biobase, IRanges, GenomicRanges, DelayedArray, GenomeInfoDb, evaluate, graph, GSEABase, annotate, MeSH.Hsa.eg.db, BiocParallel, backports, cli, pillar, XVector, GenomeInfoDbData, zlibbioc, matrixStats, lambda.r, formatR, XML
Installing 133 packages: plotly, nnTensor, heatmaply, tagcloud, rmarkdown, BiocStyle, knitr, AnnotationHub, Category, meshr, GOstats, ReactomePA, DOSE, visNetwork, ggplot2, scales, httr, htmlwidgets, tidyr, crosstalk, fields, plot3D, viridis, dendextend, reshape2, seriation, webshot, gplots, tinytex, stringr, bookdown, markdown, BiocFileCache, genefilter, fdrtool, MeSH.db, MeSH.AOR.db, MeSH.PCR.db, MeSH.Aca.eg.db, MeSH.Bsu.168.eg.db, MeSH.Syn.eg.db, cummeRbund, org.Hs.eg.db, GO.db, AnnotationForge, Rgraphviz, enrichplot, ggraph, graphite, DO.db, fgsea, GOSemSim, qvalue, gtable, plyr, withr, labeling, munsell, R6, stringi, openssl, askpass, sys, spam, maps, dotCall64, misc3d, gridExtra, fpc, mclust, flexmix, prabclus, diptest, mvtnorm, robustbase, kernlab, trimcluster, modeltools, DEoptimR, TSP, qap, gclus, registry, gtools, gdata, caTools, foreach, iterators, callr, processx, ps, dbplyr, fastcluster, rtracklayer, Gviz, biomaRt, GenomicFeatures, BSgenome, Biostrings, biovizBase, Rsamtools, latticeExtra, GenomicAlignments, progress, Hmisc, dichromat, VariantAnnotation, ensembldb, AnnotationFilter, Rhtslib, ProtGenerics, Formula, acepack, htmlTable, hms, rstudioapi, fastmatch, cowplot, europepmc, ggplotify, ggridges, UpSetR, urltools, xml2, gridGraphics, rvcheck, ggforce, ggrepel, tweenr, polyclip, RcppEigen, triebeard, farver
Installing packages into ‘/srv/rlibs’
(as ‘lib’ is unspecified)
trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/plotly_4.9.0.tar.gz'
Content type 'application/octet-stream' length 3469680 bytes (3.3 MB)
==================================================
downloaded 3.3 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/nnTensor_0.99.4.tar.gz'
Content type 'application/octet-stream' length 17351 bytes (16 KB)
==================================================
downloaded 16 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/heatmaply_0.15.2.tar.gz'
Content type 'application/octet-stream' length 1574946 bytes (1.5 MB)
==================================================
downloaded 1.5 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/tagcloud_0.6.tar.gz'
Content type 'application/octet-stream' length 909810 bytes (888 KB)
==================================================
downloaded 888 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/rmarkdown_1.12.tar.gz'
Content type 'application/octet-stream' length 3146818 bytes (3.0 MB)
==================================================
downloaded 3.0 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/BiocStyle_2.12.0.tar.gz'
Content type 'application/x-gzip' length 738703 bytes (721 KB)
==================================================
downloaded 721 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/knitr_1.22.tar.gz'
Content type 'application/octet-stream' length 928365 bytes (906 KB)
==================================================
downloaded 906 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/AnnotationHub_2.16.1.tar.gz'
Content type 'application/x-gzip' length 1298745 bytes (1.2 MB)
==================================================
downloaded 1.2 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/Category_2.50.0.tar.gz'
Content type 'application/x-gzip' length 678845 bytes (662 KB)
==================================================
downloaded 662 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/meshr_1.20.0.tar.gz'
Content type 'application/x-gzip' length 8167685 bytes (7.8 MB)
==================================================
downloaded 7.8 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/GOstats_2.50.0.tar.gz'
Content type 'application/x-gzip' length 3152356 bytes (3.0 MB)
==================================================
downloaded 3.0 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/ReactomePA_1.28.0.tar.gz'
Content type 'application/x-gzip' length 3001737 bytes (2.9 MB)
==================================================
downloaded 2.9 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/DOSE_3.10.2.tar.gz'
Content type 'application/x-gzip' length 3289925 bytes (3.1 MB)
==================================================
downloaded 3.1 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/visNetwork_2.0.6.tar.gz'
Content type 'application/octet-stream' length 4155967 bytes (4.0 MB)
==================================================
downloaded 4.0 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/ggplot2_3.1.1.tar.gz'
Content type 'application/octet-stream' length 2862022 bytes (2.7 MB)
==================================================
downloaded 2.7 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/scales_1.0.0.tar.gz'
Content type 'application/octet-stream' length 299262 bytes (292 KB)
==================================================
downloaded 292 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/httr_1.4.0.tar.gz'
Content type 'application/octet-stream' length 156356 bytes (152 KB)
==================================================
downloaded 152 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/htmlwidgets_1.3.tar.gz'
Content type 'application/octet-stream' length 866548 bytes (846 KB)
==================================================
downloaded 846 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/tidyr_0.8.3.tar.gz'
Content type 'application/octet-stream' length 383932 bytes (374 KB)
==================================================
downloaded 374 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/crosstalk_1.0.0.tar.gz'
Content type 'application/octet-stream' length 563474 bytes (550 KB)
==================================================
downloaded 550 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/fields_9.6.tar.gz'
Content type 'application/octet-stream' length 3265215 bytes (3.1 MB)
==================================================
downloaded 3.1 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/plot3D_1.1.1.tar.gz'
Content type 'application/octet-stream' length 2069778 bytes (2.0 MB)
==================================================
downloaded 2.0 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/viridis_0.5.1.tar.gz'
Content type 'application/octet-stream' length 1906320 bytes (1.8 MB)
==================================================
downloaded 1.8 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/dendextend_1.10.0.tar.gz'
Content type 'application/octet-stream' length 1761881 bytes (1.7 MB)
==================================================
downloaded 1.7 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/reshape2_1.4.3.tar.gz'
Content type 'application/octet-stream' length 36405 bytes (35 KB)
==================================================
downloaded 35 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/seriation_1.2-3.tar.gz'
Content type 'application/octet-stream' length 856159 bytes (836 KB)
==================================================
downloaded 836 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/webshot_0.5.1.tar.gz'
Content type 'application/octet-stream' length 156828 bytes (153 KB)
==================================================
downloaded 153 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/gplots_3.0.1.1.tar.gz'
Content type 'application/octet-stream' length 578652 bytes (565 KB)
==================================================
downloaded 565 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/tinytex_0.12.tar.gz'
Content type 'application/octet-stream' length 23088 bytes (22 KB)
==================================================
downloaded 22 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/stringr_1.4.0.tar.gz'
Content type 'application/octet-stream' length 135777 bytes (132 KB)
==================================================
downloaded 132 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/bookdown_0.9.tar.gz'
Content type 'application/octet-stream' length 763647 bytes (745 KB)
==================================================
downloaded 745 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/markdown_0.9.tar.gz'
Content type 'application/octet-stream' length 80926 bytes (79 KB)
==================================================
downloaded 79 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/BiocFileCache_1.8.0.tar.gz'
Content type 'application/x-gzip' length 287183 bytes (280 KB)
==================================================
downloaded 280 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/genefilter_1.66.0.tar.gz'
Content type 'application/x-gzip' length 1419350 bytes (1.4 MB)
==================================================
downloaded 1.4 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/fdrtool_1.2.15.tar.gz'
Content type 'application/octet-stream' length 58387 bytes (57 KB)
==================================================
downloaded 57 KB

trying URL 'https://bioconductor.org/packages/3.9/data/annotation/src/contrib/MeSH.db_1.12.0.tar.gz'
Content type 'application/x-gzip' length 65461537 bytes (62.4 MB)
==================================================
downloaded 62.4 MB

trying URL 'https://bioconductor.org/packages/3.9/data/annotation/src/contrib/MeSH.AOR.db_1.12.0.tar.gz'
Content type 'application/x-gzip' length 318618 bytes (311 KB)
==================================================
downloaded 311 KB

trying URL 'https://bioconductor.org/packages/3.9/data/annotation/src/contrib/MeSH.PCR.db_1.12.0.tar.gz'
Content type 'application/x-gzip' length 1118174 bytes (1.1 MB)
==================================================
downloaded 1.1 MB

trying URL 'https://bioconductor.org/packages/3.9/data/annotation/src/contrib/MeSH.Aca.eg.db_1.12.0.tar.gz'
Content type 'application/x-gzip' length 163965642 bytes (156.4 MB)
==================================================
downloaded 156.4 MB

trying URL 'https://bioconductor.org/packages/3.9/data/annotation/src/contrib/MeSH.Bsu.168.eg.db_1.12.0.tar.gz'
Content type 'application/x-gzip' length 5326769 bytes (5.1 MB)
==================================================
downloaded 5.1 MB

trying URL 'https://bioconductor.org/packages/3.9/data/annotation/src/contrib/MeSH.Syn.eg.db_1.12.0.tar.gz'
Content type 'application/x-gzip' length 1699757 bytes (1.6 MB)
==================================================
downloaded 1.6 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/cummeRbund_2.26.0.tar.gz'
Content type 'application/x-gzip' length 2298519 bytes (2.2 MB)
==================================================
downloaded 2.2 MB

trying URL 'https://bioconductor.org/packages/3.9/data/annotation/src/contrib/org.Hs.eg.db_3.8.2.tar.gz'
Content type 'application/x-gzip' length 74892843 bytes (71.4 MB)
==================================================
downloaded 71.4 MB

trying URL 'https://bioconductor.org/packages/3.9/data/annotation/src/contrib/GO.db_3.8.2.tar.gz'
Content type 'application/x-gzip' length 31820866 bytes (30.3 MB)
==================================================
downloaded 30.3 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/AnnotationForge_1.26.0.tar.gz'
Content type 'application/x-gzip' length 3884865 bytes (3.7 MB)
==================================================
downloaded 3.7 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/Rgraphviz_2.28.0.tar.gz'
Content type 'application/x-gzip' length 7454175 bytes (7.1 MB)
==================================================
downloaded 7.1 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/enrichplot_1.4.0.tar.gz'
Content type 'application/x-gzip' length 61168 bytes (59 KB)
==================================================
downloaded 59 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/ggraph_1.0.2.tar.gz'
Content type 'application/octet-stream' length 2607278 bytes (2.5 MB)
==================================================
downloaded 2.5 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/graphite_1.30.0.tar.gz'
Content type 'application/x-gzip' length 777431 bytes (759 KB)
==================================================
downloaded 759 KB

trying URL 'https://bioconductor.org/packages/3.9/data/annotation/src/contrib/DO.db_2.9.tar.gz'
Content type 'application/x-gzip' length 1769978 bytes (1.7 MB)
==================================================
downloaded 1.7 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/fgsea_1.10.1.tar.gz'
Content type 'application/x-gzip' length 806491 bytes (787 KB)
==================================================
downloaded 787 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/GOSemSim_2.10.0.tar.gz'
Content type 'application/x-gzip' length 603993 bytes (589 KB)
==================================================
downloaded 589 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/qvalue_2.16.0.tar.gz'
Content type 'application/x-gzip' length 2758138 bytes (2.6 MB)
==================================================
downloaded 2.6 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/gtable_0.3.0.tar.gz'
Content type 'application/octet-stream' length 368081 bytes (359 KB)
==================================================
downloaded 359 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/plyr_1.8.4.tar.gz'
Content type 'application/octet-stream' length 392451 bytes (383 KB)
==================================================
downloaded 383 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/withr_2.1.2.tar.gz'
Content type 'application/octet-stream' length 53578 bytes (52 KB)
==================================================
downloaded 52 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/labeling_0.3.tar.gz'
Content type 'application/octet-stream' length 10722 bytes (10 KB)
==================================================
downloaded 10 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/munsell_0.5.0.tar.gz'
Content type 'application/octet-stream' length 182653 bytes (178 KB)
==================================================
downloaded 178 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/R6_2.4.0.tar.gz'
Content type 'application/octet-stream' length 31545 bytes (30 KB)
==================================================
downloaded 30 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/stringi_1.4.3.tar.gz'
Content type 'application/octet-stream' length 7290890 bytes (7.0 MB)
==================================================
downloaded 7.0 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/openssl_1.3.tar.gz'
Content type 'application/octet-stream' length 1218896 bytes (1.2 MB)
==================================================
downloaded 1.2 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/askpass_1.1.tar.gz'
Content type 'application/octet-stream' length 5730 bytes
==================================================
downloaded 5730 bytes

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/sys_3.1.tar.gz'
Content type 'application/octet-stream' length 17796 bytes (17 KB)
==================================================
downloaded 17 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/spam_2.2-2.tar.gz'
Content type 'application/octet-stream' length 1778469 bytes (1.7 MB)
==================================================
downloaded 1.7 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/maps_3.3.0.tar.gz'
Content type 'application/octet-stream' length 2493744 bytes (2.4 MB)
==================================================
downloaded 2.4 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/dotCall64_1.0-0.tar.gz'
Content type 'application/octet-stream' length 17249 bytes (16 KB)
==================================================
downloaded 16 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/misc3d_0.8-4.tar.gz'
Content type 'application/octet-stream' length 66165 bytes (64 KB)
==================================================
downloaded 64 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/gridExtra_2.3.tar.gz'
Content type 'application/octet-stream' length 1062844 bytes (1.0 MB)
==================================================
downloaded 1.0 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/fpc_2.1-11.1.tar.gz'
Content type 'application/octet-stream' length 152514 bytes (148 KB)
==================================================
downloaded 148 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/mclust_5.4.3.tar.gz'
Content type 'application/octet-stream' length 2784747 bytes (2.7 MB)
==================================================
downloaded 2.7 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/flexmix_2.3-15.tar.gz'
Content type 'application/octet-stream' length 1176059 bytes (1.1 MB)
==================================================
downloaded 1.1 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/prabclus_2.2-7.tar.gz'
Content type 'application/octet-stream' length 166517 bytes (162 KB)
==================================================
downloaded 162 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/diptest_0.75-7.tar.gz'
Content type 'application/octet-stream' length 330777 bytes (323 KB)
==================================================
downloaded 323 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/mvtnorm_1.0-10.tar.gz'
Content type 'application/octet-stream' length 159856 bytes (156 KB)
==================================================
downloaded 156 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/robustbase_0.93-4.tar.gz'
Content type 'application/octet-stream' length 2957921 bytes (2.8 MB)
==================================================
downloaded 2.8 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/kernlab_0.9-27.tar.gz'
Content type 'application/octet-stream' length 1197907 bytes (1.1 MB)
==================================================
downloaded 1.1 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/trimcluster_0.1-2.1.tar.gz'
Content type 'application/octet-stream' length 4492 bytes
==================================================
downloaded 4492 bytes

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/modeltools_0.2-22.tar.gz'
Content type 'application/octet-stream' length 14779 bytes (14 KB)
==================================================
downloaded 14 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/DEoptimR_1.0-8.tar.gz'
Content type 'application/octet-stream' length 35401 bytes (34 KB)
==================================================
downloaded 34 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/TSP_1.1-6.tar.gz'
Content type 'application/octet-stream' length 778808 bytes (760 KB)
==================================================
downloaded 760 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/qap_0.1-1.tar.gz'
Content type 'application/octet-stream' length 517180 bytes (505 KB)
==================================================
downloaded 505 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/gclus_1.3.2.tar.gz'
Content type 'application/octet-stream' length 339083 bytes (331 KB)
==================================================
downloaded 331 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/registry_0.5-1.tar.gz'
Content type 'application/octet-stream' length 170969 bytes (166 KB)
==================================================
downloaded 166 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/gtools_3.8.1.tar.gz'
Content type 'application/octet-stream' length 187516 bytes (183 KB)
==================================================
downloaded 183 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/gdata_2.18.0.tar.gz'
Content type 'application/octet-stream' length 1058430 bytes (1.0 MB)
==================================================
downloaded 1.0 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/caTools_1.17.1.2.tar.gz'
Content type 'application/octet-stream' length 63590 bytes (62 KB)
==================================================
downloaded 62 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/foreach_1.4.4.tar.gz'
Content type 'application/octet-stream' length 360705 bytes (352 KB)
==================================================
downloaded 352 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/iterators_1.0.10.tar.gz'
Content type 'application/octet-stream' length 290575 bytes (283 KB)
==================================================
downloaded 283 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/callr_3.2.0.tar.gz'
Content type 'application/octet-stream' length 42563 bytes (41 KB)
==================================================
downloaded 41 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/processx_3.3.0.tar.gz'
Content type 'application/octet-stream' length 103735 bytes (101 KB)
==================================================
downloaded 101 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/ps_1.3.0.tar.gz'
Content type 'application/octet-stream' length 261887 bytes (255 KB)
==================================================
downloaded 255 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/dbplyr_1.3.0.tar.gz'
Content type 'application/octet-stream' length 269092 bytes (262 KB)
==================================================
downloaded 262 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/fastcluster_1.1.25.tar.gz'
Content type 'application/octet-stream' length 188695 bytes (184 KB)
==================================================
downloaded 184 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/rtracklayer_1.44.4.tar.gz'
Content type 'application/x-gzip' length 1541813 bytes (1.5 MB)
==================================================
downloaded 1.5 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/Gviz_1.28.3.tar.gz'
Content type 'application/x-gzip' length 9353400 bytes (8.9 MB)
==================================================
downloaded 8.9 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/biomaRt_2.40.5.tar.gz'
Content type 'application/x-gzip' length 427876 bytes (417 KB)
==================================================
downloaded 417 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/GenomicFeatures_1.36.4.tar.gz'
Content type 'application/x-gzip' length 1373749 bytes (1.3 MB)
==================================================
downloaded 1.3 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/BSgenome_1.52.0.tar.gz'
Content type 'application/x-gzip' length 6065978 bytes (5.8 MB)
==================================================
downloaded 5.8 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/Biostrings_2.52.0.tar.gz'
Content type 'application/x-gzip' length 12708343 bytes (12.1 MB)
==================================================
downloaded 12.1 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/biovizBase_1.32.0.tar.gz'
Content type 'application/x-gzip' length 2431296 bytes (2.3 MB)
==================================================
downloaded 2.3 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/Rsamtools_2.0.3.tar.gz'
Content type 'application/x-gzip' length 3032912 bytes (2.9 MB)
==================================================
downloaded 2.9 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/latticeExtra_0.6-28.tar.gz'
Content type 'application/octet-stream' length 1294369 bytes (1.2 MB)
==================================================
downloaded 1.2 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/GenomicAlignments_1.20.1.tar.gz'
Content type 'application/x-gzip' length 2314963 bytes (2.2 MB)
==================================================
downloaded 2.2 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/progress_1.2.0.tar.gz'
Content type 'application/octet-stream' length 27369 bytes (26 KB)
==================================================
downloaded 26 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/Hmisc_4.2-0.tar.gz'
Content type 'application/octet-stream' length 732731 bytes (715 KB)
==================================================
downloaded 715 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/dichromat_2.0-0.tar.gz'
Content type 'application/octet-stream' length 84320 bytes (82 KB)
==================================================
downloaded 82 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/VariantAnnotation_1.30.1.tar.gz'
Content type 'application/x-gzip' length 1725888 bytes (1.6 MB)
==================================================
downloaded 1.6 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/ensembldb_2.8.1.tar.gz'
Content type 'application/x-gzip' length 3319086 bytes (3.2 MB)
==================================================
downloaded 3.2 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/AnnotationFilter_1.8.0.tar.gz'
Content type 'application/x-gzip' length 311619 bytes (304 KB)
==================================================
downloaded 304 KB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/Rhtslib_1.16.3.tar.gz'
Content type 'application/x-gzip' length 1470806 bytes (1.4 MB)
==================================================
downloaded 1.4 MB

trying URL 'https://bioconductor.org/packages/3.9/bioc/src/contrib/ProtGenerics_1.16.0.tar.gz'
Content type 'application/x-gzip' length 3978 bytes
==================================================
downloaded 3978 bytes

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/Formula_1.2-3.tar.gz'
Content type 'application/octet-stream' length 151340 bytes (147 KB)
==================================================
downloaded 147 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/acepack_1.4.1.tar.gz'
Content type 'application/octet-stream' length 34848 bytes (34 KB)
==================================================
downloaded 34 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/htmlTable_1.13.1.tar.gz'
Content type 'application/octet-stream' length 175601 bytes (171 KB)
==================================================
downloaded 171 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/hms_0.4.2.tar.gz'
Content type 'application/octet-stream' length 12773 bytes (12 KB)
==================================================
downloaded 12 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/rstudioapi_0.10.tar.gz'
Content type 'application/octet-stream' length 61888 bytes (60 KB)
==================================================
downloaded 60 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/fastmatch_1.1-0.tar.gz'
Content type 'application/octet-stream' length 14290 bytes (13 KB)
==================================================
downloaded 13 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/cowplot_0.9.4.tar.gz'
Content type 'application/octet-stream' length 2112413 bytes (2.0 MB)
==================================================
downloaded 2.0 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/europepmc_0.3.tar.gz'
Content type 'application/octet-stream' length 247696 bytes (241 KB)
==================================================
downloaded 241 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/ggplotify_0.0.3.tar.gz'
Content type 'application/octet-stream' length 185754 bytes (181 KB)
==================================================
downloaded 181 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/ggridges_0.5.1.tar.gz'
Content type 'application/octet-stream' length 1986894 bytes (1.9 MB)
==================================================
downloaded 1.9 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/UpSetR_1.3.3.tar.gz'
Content type 'application/octet-stream' length 4496104 bytes (4.3 MB)
==================================================
downloaded 4.3 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/urltools_1.7.2.tar.gz'
Content type 'application/octet-stream' length 135765 bytes (132 KB)
==================================================
downloaded 132 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/xml2_1.2.0.tar.gz'
Content type 'application/octet-stream' length 251614 bytes (245 KB)
==================================================
downloaded 245 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/gridGraphics_0.3-0.tar.gz'
Content type 'application/octet-stream' length 64520 bytes (63 KB)
==================================================
downloaded 63 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/rvcheck_0.1.3.tar.gz'
Content type 'application/octet-stream' length 5128 bytes
==================================================
downloaded 5128 bytes

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/ggforce_0.2.1.tar.gz'
Content type 'application/octet-stream' length 2201531 bytes (2.1 MB)
==================================================
downloaded 2.1 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/ggrepel_0.8.0.tar.gz'
Content type 'application/octet-stream' length 226688 bytes (221 KB)
==================================================
downloaded 221 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/tweenr_1.0.1.tar.gz'
Content type 'application/octet-stream' length 568185 bytes (554 KB)
==================================================
downloaded 554 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/polyclip_1.10-0.tar.gz'
Content type 'application/octet-stream' length 79619 bytes (77 KB)
==================================================
downloaded 77 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/RcppEigen_0.3.3.5.0.tar.gz'
Content type 'application/octet-stream' length 1633859 bytes (1.6 MB)
==================================================
downloaded 1.6 MB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/triebeard_0.3.0.tar.gz'
Content type 'application/octet-stream' length 27162 bytes (26 KB)
==================================================
downloaded 26 KB

trying URL 'https://mran.microsoft.com/snapshot/2019-04-12/src/contrib/farver_1.1.0.tar.gz'
Content type 'application/octet-stream' length 72518 bytes (70 KB)
==================================================
downloaded 70 KB

* installing *source* package ‘tagcloud’ ...
** package ‘tagcloud’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG  -I"/srv/rlibs/Rcpp/include"   -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG  -I"/srv/rlibs/Rcpp/include"   -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c overlap.cpp -o overlap.o
g++ -std=gnu++11 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o tagcloud.so RcppExports.o overlap.o -L/usr/lib/R/lib -lR
installing to /srv/rlibs/00LOCK-tagcloud/00new/tagcloud/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (tagcloud)
* installing *source* package ‘htmlwidgets’ ...
** package ‘htmlwidgets’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (htmlwidgets)
* installing *source* package ‘tinytex’ ...
** package ‘tinytex’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (tinytex)
* installing *source* package ‘markdown’ ...
** package ‘markdown’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c Rbase64.c -o Rbase64.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c Rinit.c -o Rinit.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c Rmarkdown.c -o Rmarkdown.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c autolink.c -o autolink.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c buffer.c -o buffer.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c houdini_href_e.c -o houdini_href_e.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c houdini_html_e.c -o houdini_html_e.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c html.c -o html.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c html_smartypants.c -o html_smartypants.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c markdown.c -o markdown.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c stack.c -o stack.o
gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o markdown.so Rbase64.o Rinit.o Rmarkdown.o autolink.o buffer.o houdini_href_e.o houdini_html_e.o html.o html_smartypants.o markdown.o stack.o -L/usr/lib/R/lib -lR
installing to /srv/rlibs/00LOCK-markdown/00new/markdown/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (markdown)
* installing *source* package ‘genefilter’ ...
** using staged installation
** libs
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c half_range_mode.cpp -o half_range_mode.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c init.c -o init.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c nd.c -o nd.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c pAUC.c -o pAUC.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c rowPAUCs.c -o rowPAUCs.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG     -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c rowttests.c -o rowttests.o
gfortran -fno-optimize-sibling-calls  -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-uuRxut/r-base-3.6.1=. -fstack-protector-strong  -c ttest.f -o ttest.o
g++ -std=gnu++11 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o genefilter.so half_range_mode.o init.o nd.o pAUC.o rowPAUCs.o rowttests.o ttest.o -lgfortran -lm -lquadmath -L/usr/lib/R/lib -lR
installing to /srv/rlibs/00LOCK-genefilter/00new/genefilter/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Error: objects ‘rowSums’, ‘colSums’, ‘rowMeans’, ‘colMeans’ are not exported by 'namespace:S4Vectors'
Execution halted
ERROR: lazy loading failed for package ‘genefilter’
* removing ‘/srv/rlibs/genefilter’
Error: Failed to install 'scTensor' from GitHub:
  (converted from warning) installation of package ‘genefilter’ had non-zero exit status
Execution halted
Removing intermediate container 3d3b6537ca7b
The command '/bin/sh -c if [ ! -f /tmp/.preassembled ]; then Rscript binder/install.R; fi' returned a non-zero code: 1