Mac ARM64 build report for BioC 3.19 - CHECK results for graper on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
kjohnson3	macOS 13.6.5 Ventura	arm64	4.4.0 (2024-04-24) -- "Puppy Cup"	4461
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

Package: graper

Version: 1.20.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings graper_1.20.0.tar.gz

StartedAt: 2024-05-06 22:01:40 -0400 (Mon, 06 May 2024)

EndedAt: 2024-05-06 22:02:04 -0400 (Mon, 06 May 2024)

EllapsedTime: 24.3 seconds

RetCode: 0

Status: WARNINGS

CheckDir: graper.Rcheck

Warnings: 1

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings graper_1.20.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/graper.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.20.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘graper’ can be installed ... WARNING
Found the following significant warnings:
  /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include/boost/math/tools/config.hpp:23:6: warning: "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-W#warnings]
  #    warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)"
See ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/graper.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
* used SDK: ‘MacOSX11.3.sdk’
* checking C++ specification ... NOTE
  Specified C++11: please drop specification unless essential
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
checkRd: (-1) predict.graper.Rd:19-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:23-24: Lost braces in \itemize; meant \describe ?
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 3 NOTEs
See
  ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/graper.Rcheck/00check.log’
for details.

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL graper
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’
* installing *source* package ‘graper’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using C++11
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c fit_graper.cpp -o fit_graper.o
In file included from fit_graper.cpp:4:
In file included from ./graper_linear_dense_ff.h:2:
In file included from /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include/boost/math/special_functions/digamma.hpp:15:
In file included from /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include/boost/math/special_functions/math_fwd.hpp:29:
In file included from /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include/boost/math/special_functions/detail/round_fwd.hpp:11:
/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/BH/include/boost/math/tools/config.hpp:23:6: warning: "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-W#warnings]
#    warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)"
     ^
1 warning generated.
clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o graper.so RcppExports.o fit_graper.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-graper/00new/graper/libs
** R
** 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 (graper)


R version 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(graper)
> 
> test_check("graper")
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-846.612
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-582.48
ELB improved by 264.132

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-522.022
ELB improved by 60.4578

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-477.625
ELB improved by 44.397

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-457.12
ELB improved by 20.5047

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.977
ELB improved by 7.14354

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.286
ELB improved by 3.6903

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.263
ELB improved by 3.02303

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.18
ELB improved by 3.08367

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.692
ELB improved by 3.48726

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.559
ELB improved by 4.13291

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.671
ELB improved by 4.88878

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.262
ELB improved by 5.40893

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.086
ELB improved by 5.17575

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.026
ELB improved by 4.05972

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.357
ELB improved by 2.66917

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.724
ELB improved by 1.6335

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.686
ELB improved by 1.03727

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.974
ELB improved by 0.712839

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.445
ELB improved by 0.528452

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.029
ELB improved by 0.416352

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.685
ELB improved by 0.343287

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.393
ELB improved by 0.292504

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.138
ELB improved by 0.255226

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.911
ELB improved by 0.226635

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.707
ELB improved by 0.203977

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.521
ELB improved by 0.185625

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.351
ELB improved by 0.17056

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.193
ELB improved by 0.158065

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.045
ELB improved by 0.147565

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.907
ELB improved by 0.138567

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.776
ELB improved by 0.130663

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.653
ELB improved by 0.123532

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.536
ELB improved by 0.11694

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.425
ELB improved by 0.110733

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.32
ELB improved by 0.104816

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.221
ELB improved by 0.0991399

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.127
ELB improved by 0.093688

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.039
ELB improved by 0.088462

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.955
ELB improved by 0.0834761

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.876
ELB improved by 0.0787511

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.802
ELB improved by 0.0743117

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.732
ELB improved by 0.0701868

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.666
ELB improved by 0.0664121

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.603
ELB improved by 0.0630353

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.542
ELB improved by 0.0601254

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.485
ELB improved by 0.0577869

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.428
ELB improved by 0.0561786

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.373
ELB improved by 0.0555352

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.317
ELB improved by 0.0561797

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.258
ELB improved by 0.0584855

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.196
ELB improved by 0.0626997

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.127
ELB improved by 0.0684942

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.053
ELB improved by 0.0742778

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.976
ELB improved by 0.0769921

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.902
ELB improved by 0.0737576

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.837
ELB improved by 0.0647884

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.784
ELB improved by 0.0535751

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.74
ELB improved by 0.0435344

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.704
ELB improved by 0.0358777

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.674
ELB improved by 0.0303004

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.648
ELB improved by 0.0261633

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.625
ELB improved by 0.0229747

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.604
ELB improved by 0.0204302

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.586
ELB improved by 0.0183462

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.569
ELB improved by 0.0166065

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.554
ELB improved by 0.0151324

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.54
ELB improved by 0.0138676

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.528
ELB improved by 0.0127703

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.516
ELB improved by 0.011809

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.505
ELB improved by 0.0109597

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.495
ELB improved by 0.0102037

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.485
ELB improved by 0.00952623

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-851.148
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-569.913
ELB improved by 281.235

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-512.487
ELB improved by 57.4263

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-478.128
ELB improved by 34.3587

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-462.547
ELB improved by 15.5812

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.677
ELB improved by 6.86948

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.711
ELB improved by 3.966

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.697
ELB improved by 3.01437

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.096
ELB improved by 2.60134

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.77
ELB improved by 2.32585

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.698
ELB improved by 2.0713

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.902
ELB improved by 1.79642

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.404
ELB improved by 1.49851

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.204
ELB improved by 1.19963

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.275
ELB improved by 0.929227

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.566
ELB improved by 0.708545

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.023
ELB improved by 0.543201

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.598
ELB improved by 0.425117

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.257
ELB improved by 0.340603

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.979
ELB improved by 0.277962

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.749
ELB improved by 0.230067

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.556
ELB improved by 0.19303

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.392
ELB improved by 0.164414

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.249
ELB improved by 0.142383

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.124
ELB improved by 0.125464

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.011
ELB improved by 0.112469

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.909
ELB improved by 0.102451

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.814
ELB improved by 0.0946736

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.726
ELB improved by 0.0885789

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.642
ELB improved by 0.0837572

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.562
ELB improved by 0.0799114

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.485
ELB improved by 0.0768276

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.411
ELB improved by 0.0743506

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.338
ELB improved by 0.0723658

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.268
ELB improved by 0.0707863

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.198
ELB improved by 0.0695442

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.13
ELB improved by 0.0685842

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.062
ELB improved by 0.0678607

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.994
ELB improved by 0.0673348

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.927
ELB improved by 0.0669732

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.861
ELB improved by 0.0667478

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.794
ELB improved by 0.0666354

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.727
ELB improved by 0.066618

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.661
ELB improved by 0.0666832

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.594
ELB improved by 0.0668248

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.527
ELB improved by 0.0670429

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.459
ELB improved by 0.0673444

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.392
ELB improved by 0.067743

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.323
ELB improved by 0.0682586

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.255
ELB improved by 0.0689169

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.185
ELB improved by 0.0697482

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.114
ELB improved by 0.0707866

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.042
ELB improved by 0.0720687

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.968
ELB improved by 0.0736319

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.893
ELB improved by 0.075514

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.815
ELB improved by 0.0777513

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.735
ELB improved by 0.080378

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.651
ELB improved by 0.0834247

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.564
ELB improved by 0.086918

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.473
ELB improved by 0.0908782

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.378
ELB improved by 0.0953183

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.278
ELB improved by 0.100242

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.172
ELB improved by 0.10564

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.061
ELB improved by 0.111489

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.943
ELB improved by 0.117748

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.819
ELB improved by 0.124356

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.687
ELB improved by 0.13123

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.549
ELB improved by 0.138264

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.404
ELB improved by 0.145332

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.252
ELB improved by 0.152297

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.093
ELB improved by 0.159011

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.927
ELB improved by 0.165334

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.756
ELB improved by 0.171144

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.58
ELB improved by 0.176347

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.399
ELB improved by 0.180868

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.214
ELB improved by 0.184611

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.027
ELB improved by 0.187343

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.838
ELB improved by 0.18849

iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.651
ELB improved by 0.186955

iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.47
ELB improved by 0.181256

iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.3
ELB improved by 0.17033

iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.145
ELB improved by 0.154588

iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.009
ELB improved by 0.13606

iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.892
ELB improved by 0.117289

iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.792
ELB improved by 0.100145

iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.706
ELB improved by 0.0854827

iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.633
ELB improved by 0.073433

iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.569
ELB improved by 0.0637607

iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.513
ELB improved by 0.0560921

iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.463
ELB improved by 0.0500237

iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.418
ELB improved by 0.0451692

iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.377
ELB improved by 0.0411809

iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.339
ELB improved by 0.0377618

iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.304
ELB improved by 0.0346776

iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.272
ELB improved by 0.0317676

iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.243
ELB improved by 0.0289478

iteration 97
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.217
ELB improved by 0.0262011

iteration 98
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.194
ELB improved by 0.023555

iteration 99
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.173
ELB improved by 0.0210539

iteration 100
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.154
ELB improved by 0.0187378

iteration 101
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.137
ELB improved by 0.0166311

iteration 102
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.123
ELB improved by 0.0147407

iteration 103
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.11
ELB improved by 0.0130605

iteration 104
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.098
ELB improved by 0.011576

iteration 105
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.088
ELB improved by 0.0102692

iteration 106
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.079
ELB improved by 0.00912086

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-880.457
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-593.826
ELB improved by 286.632

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-536.611
ELB improved by 57.2148

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-494.361
ELB improved by 42.2496

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.979
ELB improved by 19.3825

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.513
ELB improved by 7.46612

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-462.989
ELB improved by 4.52364

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-459.18
ELB improved by 3.80948

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.467
ELB improved by 3.71251

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.594
ELB improved by 3.87282

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.48
ELB improved by 4.11426

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.232
ELB improved by 4.24784

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.226
ELB improved by 4.00637

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.912
ELB improved by 3.31397

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.484
ELB improved by 2.42797

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.855
ELB improved by 1.62922

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.803
ELB improved by 1.05183

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.112
ELB improved by 0.691033

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.633
ELB improved by 0.479141

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.279
ELB improved by 0.354002

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.002
ELB improved by 0.276426

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.777
ELB improved by 0.224938

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.589
ELB improved by 0.188354

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.428
ELB improved by 0.160854

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.289
ELB improved by 0.139303

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.167
ELB improved by 0.12191

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.059
ELB improved by 0.107577

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.964
ELB improved by 0.095585

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.878
ELB improved by 0.0854324

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.802
ELB improved by 0.0767553

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.732
ELB improved by 0.06928

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.67
ELB improved by 0.0627952

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.612
ELB improved by 0.0571354

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.56
ELB improved by 0.0521686

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.512
ELB improved by 0.0477884

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.469
ELB improved by 0.0439085

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.428
ELB improved by 0.0404577

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.391
ELB improved by 0.0373774

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.356
ELB improved by 0.0346186

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.324
ELB improved by 0.0321402

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.294
ELB improved by 0.0299077

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.266
ELB improved by 0.0278916

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.24
ELB improved by 0.0260669

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.216
ELB improved by 0.0244119

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.193
ELB improved by 0.0229083

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.171
ELB improved by 0.0215399

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.151
ELB improved by 0.0202927

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.132
ELB improved by 0.0191548

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.114
ELB improved by 0.0181153

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.096
ELB improved by 0.017165

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.08
ELB improved by 0.0162956

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.065
ELB improved by 0.0154998

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.05
ELB improved by 0.0147713

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.036
ELB improved by 0.0141042

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.022
ELB improved by 0.0134936

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.009
ELB improved by 0.0129348

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.997
ELB improved by 0.0124239

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.985
ELB improved by 0.0119572

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.973
ELB improved by 0.0115316

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.962
ELB improved by 0.0111442

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.952
ELB improved by 0.0107925

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.941
ELB improved by 0.0104741

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.931
ELB improved by 0.0101871

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.921
ELB improved by 0.00992972

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-844.638
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-559.199
ELB improved by 285.439

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-501.489
ELB improved by 57.7096

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-466.376
ELB improved by 35.1133

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.575
ELB improved by 14.8007

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.609
ELB improved by 6.96568

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.919
ELB improved by 5.69033

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.678
ELB improved by 6.24121

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.2
ELB improved by 7.47732

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.599
ELB improved by 8.60184

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.072
ELB improved by 8.52691

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.138
ELB improved by 6.93318

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.055
ELB improved by 5.08309

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.456
ELB improved by 3.59895

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.097
ELB improved by 2.35964

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.533
ELB improved by 1.5641

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.422
ELB improved by 1.11077

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.564
ELB improved by 0.857605

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.86
ELB improved by 0.70475

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.275
ELB improved by 0.584672

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.805
ELB improved by 0.470307

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.431
ELB improved by 0.373453

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.127
ELB improved by 0.303802

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.871
ELB improved by 0.256004

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.649
ELB improved by 0.221873

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.453
ELB improved by 0.196018

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.278
ELB improved by 0.17552

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.119
ELB improved by 0.158791

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.974
ELB improved by 0.144887

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.841
ELB improved by 0.133192

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.718
ELB improved by 0.123277

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.603
ELB improved by 0.114828

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.495
ELB improved by 0.107611

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.394
ELB improved by 0.101452

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.298
ELB improved by 0.0962158

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.206
ELB improved by 0.0918006

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.118
ELB improved by 0.0881287

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.033
ELB improved by 0.0851418

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.95
ELB improved by 0.0827972

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.869
ELB improved by 0.0810654

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.789
ELB improved by 0.0799287

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.709
ELB improved by 0.0793798

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.63
ELB improved by 0.0794229

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.55
ELB improved by 0.0800735

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.469
ELB improved by 0.081362

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.385
ELB improved by 0.0833373

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.299
ELB improved by 0.0860762

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.209
ELB improved by 0.089699

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.115
ELB improved by 0.0944

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.015
ELB improved by 0.100508

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.906
ELB improved by 0.108617

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.786
ELB improved by 0.119877

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.649
ELB improved by 0.136729

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.484
ELB improved by 0.164917

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.265
ELB improved by 0.219453

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.924
ELB improved by 0.340577

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.326
ELB improved by 0.598095

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.435
ELB improved by 0.891163

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-377.5
ELB improved by 0.934615

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-376.623
ELB improved by 0.877791

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.774
ELB improved by 0.848436

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-374.947
ELB improved by 0.8275

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-374.21
ELB improved by 0.736638

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-373.652
ELB improved by 0.557638

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-373.27
ELB improved by 0.382512

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-373.014
ELB improved by 0.255756

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.843
ELB improved by 0.171333

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.727
ELB improved by 0.116173

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.647
ELB improved by 0.080051

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.591
ELB improved by 0.0561106

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.551
ELB improved by 0.0400001

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.522
ELB improved by 0.0289923

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.5
ELB improved by 0.0213632

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.484
ELB improved by 0.0160059

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.472
ELB improved by 0.0121975

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.463
ELB improved by 0.00945872

ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
> 
> proc.time()
   user  system elapsed 
  0.840   0.063   0.901

name	user	system	elapsed
coef.graper	0.029	0.005	0.034
getPIPs	0.028	0.004	0.032
graper	0.046	0.005	0.051
makeExampleData	0.004	0.000	0.004
makeExampleDataWithUnequalGroups	0.005	0.001	0.005
plotELBO	0.086	0.006	0.092
plotGroupPenalties	0.225	0.004	0.230
plotPosterior	0.187	0.005	0.192
predict.graper	1.016	0.016	1.032
print.graper	0.026	0.003	0.029

CHECK results for graper on kjohnson3

Summary

Command output

Installation output

Tests output

Example timings