Britta Velten
| Snapshot Date: 2026-03-03 13:40 -0500 (Tue, 03 Mar 2026) |
| git_url: https://git.bioconductor.org/packages/graper |
| git_branch: devel |
| git_last_commit: 95474d7 |
| git_last_commit_date: 2025-10-29 10:49:21 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-03-04 11:34 -0500 (Wed, 04 Mar 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4882 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4574 |
| 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 926/2357 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.27.0 (landing page) Britta Velten
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| See other builds for graper in R Universe. | ||||||||||||||
|
To the developers/maintainers of the graper package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/graper.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: graper |
| Version: 1.27.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings graper_1.27.0.tar.gz |
| StartedAt: 2026-03-04 00:34:02 -0500 (Wed, 04 Mar 2026) |
| EndedAt: 2026-03-04 00:35:34 -0500 (Wed, 04 Mar 2026) |
| EllapsedTime: 92.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: graper.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings graper_1.27.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.23-bioc/meat/graper.Rcheck’
* using R Under development (unstable) (2026-01-15 r89304)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.27.0’
* 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 ... OK
* used C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
* 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 loading without being on the library search path ... 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 ... INFO
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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/home/biocbuild/bbs-3.23-bioc/meat/graper.Rcheck/00check.log’
for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.23-bioc/R/site-library’ * installing *source* package ‘graper’ ... ** this is package ‘graper’ version ‘1.27.0’ ** using staged installation ** libs using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’ g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BH/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BH/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c fit_graper.cpp -o fit_graper.o g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.23-bioc/R/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -llapack -L/home/biocbuild/bbs-3.23-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.23-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.23-bioc/R/site-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)
graper.Rcheck/tests/testthat.Rout
R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences"
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
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=-884.224
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-565.964
ELB improved by 318.26
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-503.323
ELB improved by 62.6407
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-468.969
ELB improved by 34.3536
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.885
ELB improved by 14.0842
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.972
ELB improved by 6.91271
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.978
ELB improved by 4.99463
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.471
ELB improved by 4.50685
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.911
ELB improved by 4.55998
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.083
ELB improved by 4.82791
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.974
ELB improved by 5.10927
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.761
ELB improved by 5.21282
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.768
ELB improved by 4.99289
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.466
ELB improved by 4.30251
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.283
ELB improved by 3.18263
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.196
ELB improved by 2.08683
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.876
ELB improved by 1.32014
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.014
ELB improved by 0.862072
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.416
ELB improved by 0.59793
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.975
ELB improved by 0.440503
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.635
ELB improved by 0.340363
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.363
ELB improved by 0.272025
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.14
ELB improved by 0.222564
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.955
ELB improved by 0.185196
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.799
ELB improved by 0.156114
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.666
ELB improved by 0.133
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.552
ELB improved by 0.114336
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.453
ELB improved by 0.0990721
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.366
ELB improved by 0.0864519
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.29
ELB improved by 0.0759163
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.223
ELB improved by 0.0670444
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.164
ELB improved by 0.0595143
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.111
ELB improved by 0.0530768
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.063
ELB improved by 0.0475368
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.02
ELB improved by 0.0427403
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.982
ELB improved by 0.0385643
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.947
ELB improved by 0.0349099
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.915
ELB improved by 0.0316968
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.886
ELB improved by 0.0288596
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.86
ELB improved by 0.0263443
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.836
ELB improved by 0.0241062
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.814
ELB improved by 0.0221078
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.794
ELB improved by 0.020318
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.775
ELB improved by 0.0187103
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.758
ELB improved by 0.0172622
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.742
ELB improved by 0.0159545
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.727
ELB improved by 0.0147709
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.713
ELB improved by 0.0136971
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.7
ELB improved by 0.012721
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.689
ELB improved by 0.0118319
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.678
ELB improved by 0.0110205
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.667
ELB improved by 0.0102789
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.658
ELB improved by 0.00959979
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-878.127
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-572.749
ELB improved by 305.378
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-512.58
ELB improved by 60.1686
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-473.718
ELB improved by 38.8619
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-458.006
ELB improved by 15.7116
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.921
ELB improved by 6.08576
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.32
ELB improved by 3.60109
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.414
ELB improved by 2.90551
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.649
ELB improved by 2.76551
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.801
ELB improved by 2.84797
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.811
ELB improved by 2.98928
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.755
ELB improved by 3.05681
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.835
ELB improved by 2.91957
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.309
ELB improved by 2.52581
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.326
ELB improved by 1.98278
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.858
ELB improved by 1.46817
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.773
ELB improved by 1.08518
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.929
ELB improved by 0.843687
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.219
ELB improved by 0.710219
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.574
ELB improved by 0.645069
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.957
ELB improved by 0.617476
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.349
ELB improved by 0.607555
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.745
ELB improved by 0.603636
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.146
ELB improved by 0.599573
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.553
ELB improved by 0.592927
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.969
ELB improved by 0.583678
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.396
ELB improved by 0.573146
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.833
ELB improved by 0.563114
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.278
ELB improved by 0.555231
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.727
ELB improved by 0.550726
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.177
ELB improved by 0.550391
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.622
ELB improved by 0.554826
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.057
ELB improved by 0.565207
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.471
ELB improved by 0.585442
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.843
ELB improved by 0.627957
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.118
ELB improved by 0.724696
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.213
ELB improved by 0.905472
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.177
ELB improved by 1.03562
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.219
ELB improved by 0.957963
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.4
ELB improved by 0.819343
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.693
ELB improved by 0.706875
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.068
ELB improved by 0.62511
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.484
ELB improved by 0.583621
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.92
ELB improved by 0.564318
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.453
ELB improved by 0.467341
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.156
ELB improved by 0.296536
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.988
ELB improved by 0.168611
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.885
ELB improved by 0.102281
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.816
ELB improved by 0.0695703
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.764
ELB improved by 0.0519188
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.723
ELB improved by 0.0411497
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.689
ELB improved by 0.0338927
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.66
ELB improved by 0.0286612
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.635
ELB improved by 0.0247114
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.614
ELB improved by 0.0216251
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.595
ELB improved by 0.0191465
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.578
ELB improved by 0.0171107
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.562
ELB improved by 0.0154074
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.548
ELB improved by 0.0139606
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.536
ELB improved by 0.0127165
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.524
ELB improved by 0.011636
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.513
ELB improved by 0.0106902
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.503
ELB improved by 0.00985688
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-886.332
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-595.334
ELB improved by 290.998
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-530.393
ELB improved by 64.9408
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-485.446
ELB improved by 44.9475
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-464.34
ELB improved by 21.1059
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.022
ELB improved by 9.31753
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.967
ELB improved by 6.05499
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.822
ELB improved by 5.14583
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.943
ELB improved by 4.87819
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.41
ELB improved by 4.53287
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.568
ELB improved by 3.84225
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.654
ELB improved by 2.91425
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.613
ELB improved by 2.04104
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.219
ELB improved by 1.39418
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.256
ELB improved by 0.962879
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.572
ELB improved by 0.684117
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.065
ELB improved by 0.506823
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.674
ELB improved by 0.391275
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.366
ELB improved by 0.307881
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.125
ELB improved by 0.240519
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.939
ELB improved by 0.186016
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.793
ELB improved by 0.145738
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.675
ELB improved by 0.118342
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.575
ELB improved by 0.100126
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.487
ELB improved by 0.0876566
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.409
ELB improved by 0.0786834
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.337
ELB improved by 0.0719019
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.27
ELB improved by 0.0665652
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.208
ELB improved by 0.0622315
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.149
ELB improved by 0.0586284
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.094
ELB improved by 0.0555816
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.041
ELB improved by 0.0529766
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.99
ELB improved by 0.0507376
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.941
ELB improved by 0.0488147
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.894
ELB improved by 0.0471768
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.848
ELB improved by 0.0458081
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.804
ELB improved by 0.0447065
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.76
ELB improved by 0.0438834
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.716
ELB improved by 0.0433664
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.673
ELB improved by 0.0432031
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.63
ELB improved by 0.0434676
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.585
ELB improved by 0.0442711
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.54
ELB improved by 0.0457759
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.491
ELB improved by 0.0482146
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.439
ELB improved by 0.0519149
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.382
ELB improved by 0.0573312
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.317
ELB improved by 0.0650979
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.241
ELB improved by 0.0761788
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.148
ELB improved by 0.0923541
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.031
ELB improved by 0.117685
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.868
ELB improved by 0.162435
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.617
ELB improved by 0.251855
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.185
ELB improved by 0.431851
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.488
ELB improved by 0.696799
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.638
ELB improved by 0.849819
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.874
ELB improved by 0.763651
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.266
ELB improved by 0.608758
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.747
ELB improved by 0.51877
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.274
ELB improved by 0.472919
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.846
ELB improved by 0.427615
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.46
ELB improved by 0.385834
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.095
ELB improved by 0.365528
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.727
ELB improved by 0.36802
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.339
ELB improved by 0.388403
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.916
ELB improved by 0.422739
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.451
ELB improved by 0.465258
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.947
ELB improved by 0.503893
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.422
ELB improved by 0.52452
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.899
ELB improved by 0.523628
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.391
ELB improved by 0.507704
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.908
ELB improved by 0.483113
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.453
ELB improved by 0.455082
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.022
ELB improved by 0.43024
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.608
ELB improved by 0.414777
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.203
ELB improved by 0.405043
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.825
ELB improved by 0.377053
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.514
ELB improved by 0.311063
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.286
ELB improved by 0.22857
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.127
ELB improved by 0.159199
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.016
ELB improved by 0.110253
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.939
ELB improved by 0.0777045
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.882
ELB improved by 0.0564572
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.84
ELB improved by 0.0427006
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.806
ELB improved by 0.0338913
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.777
ELB improved by 0.0284018
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.752
ELB improved by 0.0252189
iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.728
ELB improved by 0.0237221
iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.705
ELB improved by 0.0235206
iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.68
ELB improved by 0.0243231
iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.655
ELB improved by 0.0258253
iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.627
ELB improved by 0.0276294
iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.598
ELB improved by 0.029232
iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.568
ELB improved by 0.0301128
iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.538
ELB improved by 0.0298966
iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.509
ELB improved by 0.0284871
iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.483
ELB improved by 0.0260825
iteration 97
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.46
ELB improved by 0.0230679
iteration 98
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.44
ELB improved by 0.0198587
iteration 99
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.423
ELB improved by 0.0167806
iteration 100
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.409
ELB improved by 0.0140272
iteration 101
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.398
ELB improved by 0.0116763
iteration 102
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.388
ELB improved by 0.00973109
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-869.78
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-585.177
ELB improved by 284.603
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-521.83
ELB improved by 63.3466
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.576
ELB improved by 47.2548
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.144
ELB improved by 23.4321
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.298
ELB improved by 10.8455
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.029
ELB improved by 7.2695
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.896
ELB improved by 7.13241
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.879
ELB improved by 8.01747
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.107
ELB improved by 8.772
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.72
ELB improved by 8.38675
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.028
ELB improved by 6.69204
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.405
ELB improved by 4.62275
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.329
ELB improved by 3.07659
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.053
ELB improved by 2.2757
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.141
ELB improved by 1.91154
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.714
ELB improved by 1.42737
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.755
ELB improved by 0.958998
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.061
ELB improved by 0.693538
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.502
ELB improved by 0.559892
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.017
ELB improved by 0.484665
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-377.589
ELB improved by 0.427585
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-377.211
ELB improved by 0.378651
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-376.867
ELB improved by 0.344005
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-376.541
ELB improved by 0.325531
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-376.222
ELB improved by 0.319222
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.901
ELB improved by 0.32094
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.573
ELB improved by 0.328085
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.234
ELB improved by 0.339064
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-374.881
ELB improved by 0.352724
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-374.513
ELB improved by 0.368042
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-374.129
ELB improved by 0.383966
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-373.73
ELB improved by 0.399311
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-373.317
ELB improved by 0.41274
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.894
ELB improved by 0.42283
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.466
ELB improved by 0.428268
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.038
ELB improved by 0.428113
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-371.616
ELB improved by 0.422042
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-371.205
ELB improved by 0.410487
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.811
ELB improved by 0.394627
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.434
ELB improved by 0.376288
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.077
ELB improved by 0.357816
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.735
ELB improved by 0.342026
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.402
ELB improved by 0.332179
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.071
ELB improved by 0.33142
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-368.731
ELB improved by 0.339433
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-368.388
ELB improved by 0.343824
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-368.068
ELB improved by 0.319262
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.809
ELB improved by 0.259723
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.615
ELB improved by 0.193579
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.472
ELB improved by 0.142904
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.364
ELB improved by 0.108494
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.279
ELB improved by 0.0847863
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.211
ELB improved by 0.0676363
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.157
ELB improved by 0.0547258
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.112
ELB improved by 0.0447512
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.075
ELB improved by 0.0369139
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.044
ELB improved by 0.0306823
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-367.019
ELB improved by 0.0256823
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.997
ELB improved by 0.0216403
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.979
ELB improved by 0.0183519
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.963
ELB improved by 0.0156614
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.949
ELB improved by 0.0134487
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.938
ELB improved by 0.0116204
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.928
ELB improved by 0.0101029
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-366.919
ELB improved by 0.00883784
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
2.327 0.211 2.527
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.059 | 0.022 | 0.082 | |
| getPIPs | 0.048 | 0.015 | 0.063 | |
| graper | 0.084 | 0.018 | 0.102 | |
| makeExampleData | 0.010 | 0.001 | 0.011 | |
| makeExampleDataWithUnequalGroups | 0.012 | 0.001 | 0.013 | |
| plotELBO | 0.313 | 0.034 | 0.347 | |
| plotGroupPenalties | 1.083 | 0.052 | 1.135 | |
| plotPosterior | 0.621 | 0.023 | 0.644 | |
| predict.graper | 2.065 | 0.066 | 2.132 | |
| print.graper | 0.049 | 0.013 | 0.063 | |