Package: graper

Version: 1.3.2

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings graper_1.3.2.tar.gz

StartedAt: 2020-01-16 05:09:25 -0500 (Thu, 16 Jan 2020)

EndedAt: 2020-01-16 05:11:03 -0500 (Thu, 16 Jan 2020)

EllapsedTime: 98.3 seconds

RetCode: 0

Status:  OK

CheckDir: graper.Rcheck

Warnings: 0

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings graper_1.3.2.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/graper.Rcheck’
* using R Under development (unstable) (2019-12-14 r77572)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.3.2’
* 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 ... OK
* 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 R 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 ... OK
* 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 in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.11-bioc/meat/graper.Rcheck/00check.log’
for details.

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL graper
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘graper’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/BH/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/BH/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c fit_graper.cpp -o fit_graper.o
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/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/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.0/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 Under development (unstable) (2019-12-14 r77572) -- "Unsuffered Consequences"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (64-bit)

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=-854.288
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-569.707
ELB improved by 284.581

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-508.921
ELB improved by 60.7864

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.7
ELB improved by 41.2205

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.045
ELB improved by 18.6548

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.333
ELB improved by 8.71267

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.325
ELB improved by 6.00742

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.399
ELB improved by 5.92637

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.315
ELB improved by 7.08346

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.673
ELB improved by 8.64188

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.646
ELB improved by 9.0274

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.464
ELB improved by 7.18258

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.95
ELB improved by 4.51351

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.303
ELB improved by 2.64732

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.646
ELB improved by 1.65683

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.519
ELB improved by 1.12666

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.709
ELB improved by 0.81018

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.097
ELB improved by 0.6116

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.608
ELB improved by 0.48956

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.19
ELB improved by 0.41741

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.811
ELB improved by 0.379024

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.442
ELB improved by 0.368951

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.053
ELB improved by 0.389824

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.615
ELB improved by 0.437306

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.146
ELB improved by 0.469479

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.707
ELB improved by 0.438381

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.33
ELB improved by 0.377909

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.989
ELB improved by 0.340545

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.658
ELB improved by 0.330842

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.321
ELB improved by 0.337582

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.966
ELB improved by 0.354678

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.584
ELB improved by 0.381649

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.162
ELB improved by 0.421831

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.682
ELB improved by 0.48072

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.123
ELB improved by 0.559218

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-377.483
ELB improved by 0.639556

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-376.788
ELB improved by 0.694504

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-376.063
ELB improved by 0.725747

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.315
ELB improved by 0.747706

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-374.556
ELB improved by 0.75939

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-373.802
ELB improved by 0.753715

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-373.076
ELB improved by 0.726259

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.398
ELB improved by 0.677195

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-371.786
ELB improved by 0.612534

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-371.241
ELB improved by 0.544597

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.751
ELB improved by 0.489987

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.286
ELB improved by 0.465294

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.807
ELB improved by 0.479106

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.294
ELB improved by 0.5125

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-368.786
ELB improved by 0.508337

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-368.35
ELB improved by 0.436237

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-368.011
ELB improved by 0.338678

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.751
ELB improved by 0.26047

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.539
ELB improved by 0.211795

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.357
ELB improved by 0.182258

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.203
ELB improved by 0.153921

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.086
ELB improved by 0.116442

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.009
ELB improved by 0.0776668

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.96
ELB improved by 0.0490597

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.928
ELB improved by 0.032024

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.905
ELB improved by 0.0225702

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.888
ELB improved by 0.0171795

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.874
ELB improved by 0.0138733

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.862
ELB improved by 0.0116715

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.852
ELB improved by 0.0100942

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.843
ELB improved by 0.00889715

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-907.248
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-587.028
ELB improved by 320.22

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-531.273
ELB improved by 55.7551

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-495.821
ELB improved by 35.4524

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-479.188
ELB improved by 16.6327

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-470.882
ELB improved by 8.30606

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.352
ELB improved by 5.53004

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.525
ELB improved by 4.8267

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.712
ELB improved by 4.81325

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.677
ELB improved by 5.03505

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.403
ELB improved by 5.2739

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.12
ELB improved by 5.28278

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.277
ELB improved by 4.8428

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.277
ELB improved by 4.00072

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.26
ELB improved by 3.01685

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.187
ELB improved by 2.07294

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.858
ELB improved by 1.32877

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.011
ELB improved by 0.847205

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.444
ELB improved by 0.566501

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.039
ELB improved by 0.405773

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.729
ELB improved by 0.310018

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.48
ELB improved by 0.248622

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.274
ELB improved by 0.205859

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.1
ELB improved by 0.173804

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.952
ELB improved by 0.148406

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.824
ELB improved by 0.127532

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.714
ELB improved by 0.110034

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.619
ELB improved by 0.095255

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.536
ELB improved by 0.0827643

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.464
ELB improved by 0.0722223

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.401
ELB improved by 0.0633257

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.345
ELB improved by 0.0557999

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.296
ELB improved by 0.0494045

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.252
ELB improved by 0.0439382

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.212
ELB improved by 0.0392373

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.177
ELB improved by 0.0351705

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.146
ELB improved by 0.0316331

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.117
ELB improved by 0.0285409

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.091
ELB improved by 0.025826

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.068
ELB improved by 0.0234327

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.046
ELB improved by 0.0213152

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.027
ELB improved by 0.0194354

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.009
ELB improved by 0.0177615

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.993
ELB improved by 0.0162668

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.978
ELB improved by 0.0149284

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.964
ELB improved by 0.0137273

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.952
ELB improved by 0.0126468

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.94
ELB improved by 0.0116728

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.929
ELB improved by 0.0107931

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.919
ELB improved by 0.00999723

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-831.418
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-591.768
ELB improved by 239.65

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-531.716
ELB improved by 60.0514

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-482.101
ELB improved by 49.615

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.596
ELB improved by 27.5047

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.544
ELB improved by 10.0524

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.809
ELB improved by 4.735

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.174
ELB improved by 3.63521

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.907
ELB improved by 3.26643

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.831
ELB improved by 3.07602

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.953
ELB improved by 2.87811

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.362
ELB improved by 2.59148

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.16
ELB improved by 2.20141

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.411
ELB improved by 1.74962

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.098
ELB improved by 1.31267

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.143
ELB improved by 0.955315

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.444
ELB improved by 0.699055

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.914
ELB improved by 0.529253

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.496
ELB improved by 0.418566

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.153
ELB improved by 0.343189

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.865
ELB improved by 0.288117

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.619
ELB improved by 0.245914

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.406
ELB improved by 0.213163

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.218
ELB improved by 0.187707

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.05
ELB improved by 0.16771

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.898
ELB improved by 0.151673

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.76
ELB improved by 0.138513

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.632
ELB improved by 0.127498

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.514
ELB improved by 0.118146

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.404
ELB improved by 0.11013

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.301
ELB improved by 0.103218

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.204
ELB improved by 0.0972388

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.112
ELB improved by 0.0920639

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.024
ELB improved by 0.0875949

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.94
ELB improved by 0.0837582

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.86
ELB improved by 0.0805027

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.782
ELB improved by 0.077798

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.706
ELB improved by 0.0756356

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.632
ELB improved by 0.07403

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.559
ELB improved by 0.0730203

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.487
ELB improved by 0.0726698

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.414
ELB improved by 0.0730598

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.339
ELB improved by 0.0742723

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.263
ELB improved by 0.0763539

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.184
ELB improved by 0.0792609

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.101
ELB improved by 0.0828023

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.014
ELB improved by 0.0866276

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.924
ELB improved by 0.0903149

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.83
ELB improved by 0.0935632

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.734
ELB improved by 0.0964101

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.635
ELB improved by 0.0994099

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.531
ELB improved by 0.103868

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.418
ELB improved by 0.112437

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.288
ELB improved by 0.130418

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.121
ELB improved by 0.166852

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.893
ELB improved by 0.227919

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.601
ELB improved by 0.29164

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.29
ELB improved by 0.311693

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.997
ELB improved by 0.292645

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.723
ELB improved by 0.274498

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.456
ELB improved by 0.2666

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.199
ELB improved by 0.256851

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.959
ELB improved by 0.239952

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.735
ELB improved by 0.224288

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.518
ELB improved by 0.217343

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.3
ELB improved by 0.217465

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.082
ELB improved by 0.217994

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.868
ELB improved by 0.213922

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.663
ELB improved by 0.205393

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.467
ELB improved by 0.195331

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.282
ELB improved by 0.185718

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.105
ELB improved by 0.176879

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.936
ELB improved by 0.168409

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.777
ELB improved by 0.159838

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.626
ELB improved by 0.150845

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.484
ELB improved by 0.14128

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.353
ELB improved by 0.131126

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.233
ELB improved by 0.12047

iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.123
ELB improved by 0.109474

iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.025
ELB improved by 0.0983532

iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.938
ELB improved by 0.087361

iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.861
ELB improved by 0.0767569

iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.794
ELB improved by 0.0667768

iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.737
ELB improved by 0.0576037

iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.687
ELB improved by 0.0493528

iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.645
ELB improved by 0.0420707

iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.609
ELB improved by 0.035746

iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.579
ELB improved by 0.0303257

iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.553
ELB improved by 0.0257306

iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.531
ELB improved by 0.0218687

iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.513
ELB improved by 0.018645

iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.497
ELB improved by 0.0159681

iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.483
ELB improved by 0.0137535

iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.471
ELB improved by 0.0119259

iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.461
ELB improved by 0.0104197

iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.452
ELB improved by 0.00917862

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-875.755
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-573.17
ELB improved by 302.585

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-508.499
ELB improved by 64.6704

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.425
ELB improved by 41.0747

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.876
ELB improved by 18.549

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.58
ELB improved by 8.29605

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.237
ELB improved by 5.3432

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.76
ELB improved by 4.47625

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.439
ELB improved by 4.3215

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.904
ELB improved by 4.53432

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.003
ELB improved by 4.90183

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.837
ELB improved by 5.16519

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.867
ELB improved by 4.9706

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.753
ELB improved by 4.11388

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.87
ELB improved by 2.88269

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.03
ELB improved by 1.83985

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.85
ELB improved by 1.18016

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.067
ELB improved by 0.783488

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.526
ELB improved by 0.541271

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.131
ELB improved by 0.394339

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.83
ELB improved by 0.301662

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.592
ELB improved by 0.237492

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.403
ELB improved by 0.188619

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.253
ELB improved by 0.149979

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.133
ELB improved by 0.120179

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.035
ELB improved by 0.0980737

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.953
ELB improved by 0.0818746

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.884
ELB improved by 0.0697763

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.823
ELB improved by 0.0604355

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.77
ELB improved by 0.0529868

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.723
ELB improved by 0.0468901

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.681
ELB improved by 0.0417998

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.644
ELB improved by 0.0374839

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.61
ELB improved by 0.0337803

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.58
ELB improved by 0.0305708

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.552
ELB improved by 0.0277671

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.527
ELB improved by 0.0253014

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.503
ELB improved by 0.0231206

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.482
ELB improved by 0.0211826

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.463
ELB improved by 0.0194528

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.445
ELB improved by 0.0179034

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.428
ELB improved by 0.0165109

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.413
ELB improved by 0.0152557

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.399
ELB improved by 0.0141213

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.386
ELB improved by 0.0130936

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.374
ELB improved by 0.0121604

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.362
ELB improved by 0.0113113

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.352
ELB improved by 0.0105372

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.342
ELB improved by 0.00983023

ELB converged
══ testthat results  ═══════════════════════════════════════════════════════════
[ OK: 24 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
> 
> proc.time()
   user  system elapsed 
  4.624   0.512   5.085 

name	user	system	elapsed
coef.graper	0.085	0.031	0.123
getPIPs	0.078	0.025	0.104
graper	0.122	0.038	0.161
makeExampleData	0.022	0.006	0.029
makeExampleDataWithUnequalGroups	0.025	0.006	0.031
plotELBO	0.359	0.051	0.410
plotGroupPenalties	1.169	0.090	1.261
plotPosterior	1.145	0.062	1.208
predict.graper	2.826	0.116	2.944
print.graper	0.079	0.028	0.107