Appendix A — Website Build Session

Author

Ivan Jacob Agaloos Pesigan

Session

sessionInfo()
R version 4.4.1 (2024-06-14)
Platform: x86_64-pc-linux-gnu
Running under: Ubuntu 22.04.4 LTS

Matrix products: default
BLAS:   /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 
LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.20.so;  LAPACK version 3.10.0

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

time zone: Etc/UTC
tzcode source: system (glibc)

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
 [1] htmlwidgets_1.6.4 compiler_4.4.1    fastmap_1.2.0     cli_3.6.3.9000   
 [5] tools_4.4.1       htmltools_0.5.8.1 yaml_2.3.10       rmarkdown_2.28   
 [9] knitr_1.48        jsonlite_1.8.8    xfun_0.47         digest_0.6.37    
[13] rlang_1.1.4       evaluate_0.24.0  
/srv/build/CONTAINER_RELEASE: 70b8abb3ac2cb2334a420a00afe53b7bf41b9f8c
/srv/build/CONTAINER_RELEASE_MSG: This release is based on commit 70b8abb3ac2cb2334a420a00afe53b7bf41b9f8c.
/srv/build/DOCKER_HUB_CONTAINER: docs
/srv/build/DOCKER_HUB_USERNAME: ijapesigan
/srv/build/GIT_HUB_REPO: docker-docs
/srv/build/GIT_HUB_USERNAME: ijapesigan

Packages

installed.packages()[, c("Package", "Version")]
                  Package             Version      
abind             "abind"             "1.4-5"      
arm               "arm"               "1.14-4"     
arrow             "arrow"             "17.0.0.1"   
ash               "ash"               "1.0-15"     
AsioHeaders       "AsioHeaders"       "1.22.1-2"   
askpass           "askpass"           "1.2.0"      
assertthat        "assertthat"        "0.2.1"      
backports         "backports"         "1.5.0"      
base64enc         "base64enc"         "0.1-3"      
betaDelta         "betaDelta"         "1.0.5.9000" 
betaMC            "betaMC"            "1.3.2.9000" 
betaNB            "betaNB"            "1.0.4.9000" 
betaSandwich      "betaSandwich"      "1.0.7.9000" 
BH                "BH"                "1.84.0-0"   
bibtex            "bibtex"            "0.5.1"      
BiocManager       "BiocManager"       "1.30.25"    
bit               "bit"               "4.0.5"      
bit64             "bit64"             "4.0.5"      
bitops            "bitops"            "1.0-8"      
blob              "blob"              "1.2.4"      
brew              "brew"              "1.0-10"     
brio              "brio"              "1.1.5"      
broom             "broom"             "1.0.6"      
bslib             "bslib"             "0.8.0"      
cachem            "cachem"            "1.1.0"      
callr             "callr"             "3.7.6"      
car               "car"               "3.1-2"      
caracas           "caracas"           "2.1.1"      
carData           "carData"           "3.0-5"      
cellranger        "cellranger"        "1.1.0"      
cffr              "cffr"              "1.1.1"      
checkmate         "checkmate"         "2.3.2"      
cli               "cli"               "3.6.3.9000" 
clipr             "clipr"             "0.8.0"      
clock             "clock"             "0.7.1"      
clusterGeneration "clusterGeneration" "1.3.8"      
coda              "coda"              "0.19-4.1"   
cOde              "cOde"              "1.1.1"      
collections       "collections"       "0.3.7"      
colorspace        "colorspace"        "2.1-1"      
commonmark        "commonmark"        "1.9.1"      
conflicted        "conflicted"        "1.2.0"      
corpcor           "corpcor"           "1.6.10"     
covr              "covr"              "3.6.4"      
cowplot           "cowplot"           "1.1.3"      
cpp11             "cpp11"             "0.5.0"      
crayon            "crayon"            "1.5.3"      
credentials       "credentials"       "2.0.1"      
crosstalk         "crosstalk"         "1.2.1"      
cTMed             "cTMed"             "0.9.1"      
ctsem             "ctsem"             "3.10.1"     
curl              "curl"              "5.2.2"      
cyclocomp         "cyclocomp"         "1.1.1"      
data.table        "data.table"        "1.16.0"     
DBI               "DBI"               "1.2.3"      
dbplyr            "dbplyr"            "2.5.0"      
Deriv             "Deriv"             "4.1.3"      
desc              "desc"              "1.4.3"      
deSolve           "deSolve"           "1.40"       
devtools          "devtools"          "2.4.5.9000" 
diagram           "diagram"           "1.6.5"      
dials             "dials"             "1.3.0"      
DiceDesign        "DiceDesign"        "1.10"       
diffobj           "diffobj"           "0.3.5"      
digest            "digest"            "0.6.37"     
distributional    "distributional"    "0.4.0"      
distro            "distro"            "0.1.0"      
doBy              "doBy"              "4.6.22"     
docopt            "docopt"            "0.7.1"      
doFuture          "doFuture"          "1.0.1"      
downlit           "downlit"           "0.4.4"      
dplyr             "dplyr"             "1.1.4"      
DT                "DT"                "0.33"       
dtplyr            "dtplyr"            "1.3.1"      
duckdb            "duckdb"            "1.0.0-2"    
dynr              "dynr"              "0.1.16-106" 
dynUtils          "dynUtils"          "0.9.1"      
ellipse           "ellipse"           "0.5.0"      
ellipsis          "ellipsis"          "0.3.2"      
evaluate          "evaluate"          "0.24.0"     
expm              "expm"              "1.0-0"      
fansi             "fansi"             "1.0.6"      
farver            "farver"            "2.1.2"      
fastDummies       "fastDummies"       "1.7.4"      
fastmap           "fastmap"           "1.2.0"      
fclust            "fclust"            "2.1.1.1"    
fda               "fda"               "6.1.8"      
fdrtool           "fdrtool"           "1.2.18"     
fds               "fds"               "1.8"        
fitCTVARMx        "fitCTVARMx"        "0.0.0.9000" 
fitDTVARMx        "fitDTVARMx"        "0.0.0.9000" 
FNN               "FNN"               "1.1.4"      
fontawesome       "fontawesome"       "0.5.2"      
forcats           "forcats"           "1.0.0"      
foreach           "foreach"           "1.5.2"      
Formula           "Formula"           "1.2-5"      
fs                "fs"                "1.6.4"      
fst               "fst"               "0.9.8"      
fstcore           "fstcore"           "0.9.18"     
furrr             "furrr"             "0.3.1"      
future            "future"            "1.34.0"     
future.apply      "future.apply"      "1.11.2"     
gargle            "gargle"            "1.5.2"      
generics          "generics"          "0.1.3"      
gert              "gert"              "2.1.1"      
ggplot2           "ggplot2"           "3.5.1"      
ggrepel           "ggrepel"           "0.9.5"      
gh                "gh"                "1.4.1"      
gitcreds          "gitcreds"          "0.1.2"      
glasso            "glasso"            "1.11"       
glmnet            "glmnet"            "4.1-8"      
globals           "globals"           "0.16.3"     
glue              "glue"              "1.7.0"      
googledrive       "googledrive"       "2.1.1"      
googlesheets4     "googlesheets4"     "1.1.1"      
gower             "gower"             "1.0.1"      
GPArotation       "GPArotation"       "2024.3-1"   
GPfit             "GPfit"             "1.0-8"      
graphicalVAR      "graphicalVAR"      "0.3.4"      
gridExtra         "gridExtra"         "2.3"        
gsubfn            "gsubfn"            "0.7"        
gtable            "gtable"            "0.3.5"      
gtools            "gtools"            "3.9.5"      
hardhat           "hardhat"           "1.4.0"      
haven             "haven"             "2.5.4"      
hdrcde            "hdrcde"            "3.4"        
here              "here"              "1.0.1"      
highr             "highr"             "0.11"       
Hmisc             "Hmisc"             "5.1-3"      
hms               "hms"               "1.1.3"      
htmlTable         "htmlTable"         "2.4.3"      
htmltools         "htmltools"         "0.5.8.1"    
htmlwidgets       "htmlwidgets"       "1.6.4"      
httpgd            "httpgd"            "2.0.2"      
httpuv            "httpuv"            "1.6.15"     
httr              "httr"              "1.4.7"      
httr2             "httr2"             "1.0.3"      
ids               "ids"               "1.0.1"      
ifaTools          "ifaTools"          "0.23"       
igraph            "igraph"            "2.0.3"      
infer             "infer"             "1.0.7"      
ini               "ini"               "0.3.1"      
inline            "inline"            "0.3.19"     
ipred             "ipred"             "0.9-15"     
isoband           "isoband"           "0.2.7"      
iterators         "iterators"         "1.0.14"     
jomo              "jomo"              "2.7-6"      
jpeg              "jpeg"              "0.1-10"     
jquerylib         "jquerylib"         "0.1.4"      
jsonlite          "jsonlite"          "1.8.8"      
jsonvalidate      "jsonvalidate"      "1.3.2"      
kernlab           "kernlab"           "0.9-33"     
knitr             "knitr"             "1.48"       
ks                "ks"                "1.14.2"     
labeling          "labeling"          "0.4.3"      
Lahman            "Lahman"            "11.0-0"     
languageserver    "languageserver"    "0.3.16"     
later             "later"             "1.3.2"      
latex2exp         "latex2exp"         "0.9.6"      
lava              "lava"              "1.8.0"      
lavaan            "lavaan"            "0.6-18"     
lazyeval          "lazyeval"          "0.2.2"      
lhs               "lhs"               "1.2.0"      
lifecycle         "lifecycle"         "1.0.4"      
lintr             "lintr"             "3.1.2"      
listenv           "listenv"           "0.9.1"      
littler           "littler"           "0.3.20"     
lme4              "lme4"              "1.1-35.5"   
locfit            "locfit"            "1.5-9.10"   
longMI            "longMI"            "1.0.0"      
loo               "loo"               "2.8.0"      
lubridate         "lubridate"         "1.9.3"      
magick            "magick"            "2.8.4"      
magrittr          "magrittr"          "2.0.3"      
markdown          "markdown"          "1.13"       
MatrixModels      "MatrixModels"      "0.5-3"      
matrixStats       "matrixStats"       "1.3.0"      
mclust            "mclust"            "6.1.1"      
memoise           "memoise"           "2.0.1"      
metaSEM           "metaSEM"           "1.4.0"      
metaVAR           "metaVAR"           "0.0.0.9000" 
mice              "mice"              "3.16.0"     
microbenchmark    "microbenchmark"    "1.4.10"     
mime              "mime"              "0.12"       
miniUI            "miniUI"            "0.1.1.1"    
minqa             "minqa"             "1.2.8"      
mitml             "mitml"             "0.4-5"      
mize              "mize"              "0.2.4"      
mlVAR             "mlVAR"             "0.5.2"      
mnormt            "mnormt"            "2.1.1"      
modeldata         "modeldata"         "1.4.0"      
modelenv          "modelenv"          "0.1.1"      
modelr            "modelr"            "0.1.11"     
MplusAutomation   "MplusAutomation"   "1.1.1"      
multicool         "multicool"         "1.0.1"      
munsell           "munsell"           "0.5.1"      
mvtnorm           "mvtnorm"           "1.3-0"      
nloptr            "nloptr"            "2.1.1"      
numDeriv          "numDeriv"          "2016.8-1.1" 
nycflights13      "nycflights13"      "1.0.2"      
OpenMx            "OpenMx"            "2.21.12"    
openssl           "openssl"           "2.2.1"      
ordinal           "ordinal"           "2023.12-4.1"
pan               "pan"               "1.9"        
pander            "pander"            "0.6.5"      
parallelly        "parallelly"        "1.38.0"     
parsnip           "parsnip"           "1.2.1"      
patchwork         "patchwork"         "1.2.0"      
pbapply           "pbapply"           "1.7-2"      
pbivnorm          "pbivnorm"          "0.6.0"      
pbkrtest          "pbkrtest"          "0.5.3"      
pcaPP             "pcaPP"             "2.0-5"      
pdftools          "pdftools"          "3.4.0"      
pillar            "pillar"            "1.9.0"      
pkgbuild          "pkgbuild"          "1.4.4"      
pkgconfig         "pkgconfig"         "2.0.3"      
pkgdown           "pkgdown"           "2.1.0"      
pkgload           "pkgload"           "1.4.0"      
plogr             "plogr"             "0.2.0"      
plyr              "plyr"              "1.8.9"      
png               "png"               "0.1-8"      
posterior         "posterior"         "1.6.0"      
pracma            "pracma"            "2.4.4"      
praise            "praise"            "1.0.0"      
prettyunits       "prettyunits"       "1.2.0"      
printr            "printr"            "0.3"        
processx          "processx"          "3.8.4"      
prodlim           "prodlim"           "2024.06.25" 
profvis           "profvis"           "0.3.8"      
progress          "progress"          "1.2.3"      
progressr         "progressr"         "0.14.0"     
promises          "promises"          "1.3.0"      
proto             "proto"             "1.0.0"      
ps                "ps"                "1.7.7"      
psych             "psych"             "2.4.6.26"   
purrr             "purrr"             "1.0.2"      
qgraph            "qgraph"            "1.9.8"      
qpdf              "qpdf"              "1.3.3"      
quadprog          "quadprog"          "1.5-8"      
quantreg          "quantreg"          "5.98"       
quarto            "quarto"            "1.4.4"      
QuickJSR          "QuickJSR"          "1.3.1"      
R.cache           "R.cache"           "0.16.0"     
R.methodsS3       "R.methodsS3"       "1.8.2"      
R.oo              "R.oo"              "1.26.0"     
R.utils           "R.utils"           "2.12.3"     
R6                "R6"                "2.5.1"      
ragg              "ragg"              "1.3.2"      
rainbow           "rainbow"           "3.8"        
rappdirs          "rappdirs"          "0.3.3"      
rbibutils         "rbibutils"         "2.2.16"     
rcmdcheck         "rcmdcheck"         "1.4.0"      
RColorBrewer      "RColorBrewer"      "1.1-3"      
Rcpp              "Rcpp"              "1.0.13"     
RcppArmadillo     "RcppArmadillo"     "14.0.0-1"   
RcppEigen         "RcppEigen"         "0.3.4.0.2"  
RcppGSL           "RcppGSL"           "0.3.13"     
RcppParallel      "RcppParallel"      "5.1.9"      
RcppTOML          "RcppTOML"          "0.2.2"      
RCurl             "RCurl"             "1.98-1.16"  
Rdpack            "Rdpack"            "2.6.1"      
readr             "readr"             "2.1.5"      
readxl            "readxl"            "1.4.3"      
recipes           "recipes"           "1.1.0"      
RefManageR        "RefManageR"        "1.4.0"      
rematch           "rematch"           "2.0.0"      
rematch2          "rematch2"          "2.1.2"      
remotes           "remotes"           "2.5.0"      
reprex            "reprex"            "2.1.1"      
reshape2          "reshape2"          "1.4.4"      
reticulate        "reticulate"        "1.38.0"     
rex               "rex"               "1.2.1"      
rhub              "rhub"              "2.0.0"      
rjags             "rjags"             "4-16"       
rlang             "rlang"             "1.1.4"      
RMariaDB          "RMariaDB"          "1.3.2"      
rmarkdown         "rmarkdown"         "2.28"       
roxygen2          "roxygen2"          "7.3.2"      
rpf               "rpf"               "1.0.14"     
RPostgres         "RPostgres"         "1.4.7"      
rProject          "rProject"          "0.0.14"     
rprojroot         "rprojroot"         "2.0.4"      
rsample           "rsample"           "1.2.1"      
RSQLite           "RSQLite"           "2.3.7"      
rstan             "rstan"             "2.32.6"     
rstantools        "rstantools"        "2.4.0"      
rstudioapi        "rstudioapi"        "0.16.0"     
rversions         "rversions"         "2.1.2"      
rvest             "rvest"             "1.0.4"      
Ryacas            "Ryacas"            "1.1.5"      
sass              "sass"              "0.4.9"      
scales            "scales"            "1.3.0"      
selectr           "selectr"           "0.4-2"      
semlbci           "semlbci"           "0.11.2"     
semmcci           "semmcci"           "1.1.4.9000" 
sessioninfo       "sessioninfo"       "1.2.2"      
sfd               "sfd"               "0.1.0"      
shape             "shape"             "1.4.6.1"    
shiny             "shiny"             "1.9.1"      
simStateSpace     "simStateSpace"     "1.2.2.9000" 
slider            "slider"            "0.3.1"      
snow              "snow"              "0.4-4"      
snowfall          "snowfall"          "1.84-6.3"   
sourcetools       "sourcetools"       "0.1.7-1"    
SparseM           "SparseM"           "1.84-2"     
SQUAREM           "SQUAREM"           "2021.1"     
StanHeaders       "StanHeaders"       "2.32.10"    
statmod           "statmod"           "1.5.0"      
stringi           "stringi"           "1.8.4"      
stringr           "stringr"           "1.5.1"      
styler            "styler"            "1.10.3"     
symSEM            "symSEM"            "0.4"        
sys               "sys"               "3.4.2"      
systemfonts       "systemfonts"       "1.1.0"      
tensorA           "tensorA"           "0.36.2.1"   
testthat          "testthat"          "3.2.1.9000" 
texreg            "texreg"            "1.39.4"     
textshaping       "textshaping"       "0.4.0"      
tibble            "tibble"            "3.2.1"      
tidymodels        "tidymodels"        "1.2.0"      
tidyr             "tidyr"             "1.3.1"      
tidyselect        "tidyselect"        "1.2.1"      
tidyverse         "tidyverse"         "2.0.0"      
timechange        "timechange"        "0.3.0"      
timeDate          "timeDate"          "4032.109"   
tinytex           "tinytex"           "0.52.1"     
tune              "tune"              "1.2.1"      
tzdb              "tzdb"              "0.4.0"      
ucminf            "ucminf"            "1.2.2"      
unigd             "unigd"             "0.1.2"      
urlchecker        "urlchecker"        "1.0.1"      
usethis           "usethis"           "3.0.0"      
utf8              "utf8"              "1.2.4"      
uuid              "uuid"              "1.2-1"      
V8                "V8"                "5.0.0"      
vctrs             "vctrs"             "0.6.5"      
viridis           "viridis"           "0.6.5"      
viridisLite       "viridisLite"       "0.4.2"      
vroom             "vroom"             "1.6.5"      
waldo             "waldo"             "0.5.3"      
warp              "warp"              "0.2.1"      
whisker           "whisker"           "0.4.1"      
whoami            "whoami"            "1.3.0"      
withr             "withr"             "3.0.1"      
workflows         "workflows"         "1.1.4"      
workflowsets      "workflowsets"      "1.1.0"      
xfun              "xfun"              "0.47"       
xml2              "xml2"              "1.3.6"      
xmlparsedata      "xmlparsedata"      "1.0.5"      
xopen             "xopen"             "1.0.1"      
xtable            "xtable"            "1.8-4"      
yaml              "yaml"              "2.3.10"     
yardstick         "yardstick"         "1.3.1"      
zip               "zip"               "2.3.1"      
base              "base"              "4.4.1"      
boot              "boot"              "1.3-30"     
class             "class"             "7.3-22"     
cluster           "cluster"           "2.1.6"      
codetools         "codetools"         "0.2-20"     
compiler          "compiler"          "4.4.1"      
datasets          "datasets"          "4.4.1"      
foreign           "foreign"           "0.8-86"     
graphics          "graphics"          "4.4.1"      
grDevices         "grDevices"         "4.4.1"      
grid              "grid"              "4.4.1"      
KernSmooth        "KernSmooth"        "2.23-24"    
lattice           "lattice"           "0.22-6"     
MASS              "MASS"              "7.3-60.2"   
Matrix            "Matrix"            "1.7-0"      
methods           "methods"           "4.4.1"      
mgcv              "mgcv"              "1.9-1"      
nlme              "nlme"              "3.1-164"    
nnet              "nnet"              "7.3-19"     
parallel          "parallel"          "4.4.1"      
rpart             "rpart"             "4.1.23"     
spatial           "spatial"           "7.3-17"     
splines           "splines"           "4.4.1"      
stats             "stats"             "4.4.1"      
stats4            "stats4"            "4.4.1"      
survival          "survival"          "3.6-4"      
tcltk             "tcltk"             "4.4.1"      
tools             "tools"             "4.4.1"      
utils             "utils"             "4.4.1"      

CPU

Architecture:                       x86_64
CPU op-mode(s):                     32-bit, 64-bit
Address sizes:                      48 bits physical, 48 bits virtual
Byte Order:                         Little Endian
CPU(s):                             4
On-line CPU(s) list:                0-3
Vendor ID:                          AuthenticAMD
Model name:                         AMD EPYC 7763 64-Core Processor
CPU family:                         25
Model:                              1
Thread(s) per core:                 2
Core(s) per socket:                 2
Socket(s):                          1
Stepping:                           1
BogoMIPS:                           4890.86
Flags:                              fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ht syscall nx mmxext fxsr_opt pdpe1gb rdtscp lm constant_tsc rep_good nopl tsc_reliable nonstop_tsc cpuid extd_apicid aperfmperf pni pclmulqdq ssse3 fma cx16 pcid sse4_1 sse4_2 movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm cmp_legacy svm cr8_legacy abm sse4a misalignsse 3dnowprefetch osvw topoext invpcid_single vmmcall fsgsbase bmi1 avx2 smep bmi2 erms invpcid rdseed adx smap clflushopt clwb sha_ni xsaveopt xsavec xgetbv1 xsaves clzero xsaveerptr rdpru arat npt nrip_save tsc_scale vmcb_clean flushbyasid decodeassists pausefilter pfthreshold v_vmsave_vmload umip vaes vpclmulqdq rdpid fsrm
Virtualization:                     AMD-V
Hypervisor vendor:                  Microsoft
Virtualization type:                full
L1d cache:                          64 KiB (2 instances)
L1i cache:                          64 KiB (2 instances)
L2 cache:                           1 MiB (2 instances)
L3 cache:                           32 MiB (1 instance)
NUMA node(s):                       1
NUMA node0 CPU(s):                  0-3
Vulnerability Gather data sampling: Not affected
Vulnerability Itlb multihit:        Not affected
Vulnerability L1tf:                 Not affected
Vulnerability Mds:                  Not affected
Vulnerability Meltdown:             Not affected
Vulnerability Mmio stale data:      Not affected
Vulnerability Retbleed:             Not affected
Vulnerability Spec rstack overflow: Vulnerable: Safe RET, no microcode
Vulnerability Spec store bypass:    Vulnerable
Vulnerability Spectre v1:           Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2:           Mitigation; Retpolines; STIBP disabled; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds:                Not affected
Vulnerability Tsx async abort:      Not affected

Memory

               total        used        free      shared  buff/cache   available
Mem:            15Gi       1.3Gi       3.4Gi        23Mi        10Gi        13Gi
Swap:          4.0Gi          0B       4.0Gi
Total:          19Gi       1.3Gi       7.4Gi