Britta Velten
| Snapshot Date: 2026-02-16 13:45 -0500 (Mon, 16 Feb 2026) |
| git_url: https://git.bioconductor.org/packages/graper |
| git_branch: RELEASE_3_22 |
| git_last_commit: 76fc31b |
| git_last_commit_date: 2025-10-29 10:49:21 -0500 (Wed, 29 Oct 2025) |
| Back to Build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-02-18 11:57 -0500 (Wed, 18 Feb 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4890 |
| 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 922/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.26.0 (landing page) Britta Velten
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | 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: 1.26.0 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings graper_1.26.0.tar.gz |
| StartedAt: 2026-02-17 00:23:27 -0500 (Tue, 17 Feb 2026) |
| EndedAt: 2026-02-17 00:24:58 -0500 (Tue, 17 Feb 2026) |
| EllapsedTime: 91.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: graper.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings graper_1.26.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/graper.Rcheck’
* using R version 4.5.2 (2025-10-31)
* 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 ‘1.26.0’
* 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 ... INFO
installed size is 6.1Mb
sub-directories of 1Mb or more:
libs 6.0Mb
* 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 ... 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/home/biocbuild/bbs-3.22-bioc/meat/graper.Rcheck/00check.log’
for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’ * installing *source* package ‘graper’ ... ** this is package ‘graper’ version ‘1.26.0’ ** 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-3.22-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.22-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-3.22-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.22-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-3.22-bioc/R/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -llapack -L/home/biocbuild/bbs-3.22-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.22-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.22-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 version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
Copyright (C) 2025 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=-844.545
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-552.346
ELB improved by 292.199
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-490.967
ELB improved by 61.3793
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.639
ELB improved by 35.3275
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.505
ELB improved by 14.1338
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.422
ELB improved by 6.08344
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.832
ELB improved by 3.58975
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.08
ELB improved by 2.75233
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.544
ELB improved by 2.53583
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.982
ELB improved by 2.56249
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.295
ELB improved by 2.68639
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.487
ELB improved by 2.80791
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.676
ELB improved by 2.8117
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.08
ELB improved by 2.59502
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.921
ELB improved by 2.15974
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.287
ELB improved by 1.63423
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.121
ELB improved by 1.16553
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.298
ELB improved by 0.823392
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.695
ELB improved by 0.60281
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.226
ELB improved by 0.46915
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.836
ELB improved by 0.389621
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.494
ELB improved by 0.342275
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.18
ELB improved by 0.314176
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.882
ELB improved by 0.297873
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.593
ELB improved by 0.288935
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.308
ELB improved by 0.28458
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.025
ELB improved by 0.282952
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.742
ELB improved by 0.282749
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.459
ELB improved by 0.283044
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.176
ELB improved by 0.283203
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.893
ELB improved by 0.282858
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.611
ELB improved by 0.281899
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.331
ELB improved by 0.280457
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.052
ELB improved by 0.278859
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.775
ELB improved by 0.277493
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.498
ELB improved by 0.27655
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.222
ELB improved by 0.27565
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.949
ELB improved by 0.273608
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.68
ELB improved by 0.268814
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.42
ELB improved by 0.260246
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.172
ELB improved by 0.248147
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.938
ELB improved by 0.233624
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.72
ELB improved by 0.217807
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.519
ELB improved by 0.201471
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.334
ELB improved by 0.185108
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.165
ELB improved by 0.169079
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.011
ELB improved by 0.153692
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.872
ELB improved by 0.139221
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.746
ELB improved by 0.125901
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.632
ELB improved by 0.113923
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.528
ELB improved by 0.103431
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.434
ELB improved by 0.0945158
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.347
ELB improved by 0.0872
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.265
ELB improved by 0.0813994
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.188
ELB improved by 0.0768808
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.115
ELB improved by 0.0732483
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.045
ELB improved by 0.0700096
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.978
ELB improved by 0.0667295
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.915
ELB improved by 0.0631785
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.856
ELB improved by 0.0593626
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.8
ELB improved by 0.0554253
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.749
ELB improved by 0.0515318
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.701
ELB improved by 0.0478185
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.657
ELB improved by 0.0444025
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.615
ELB improved by 0.0414155
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.576
ELB improved by 0.0390471
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.539
ELB improved by 0.0376088
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.501
ELB improved by 0.0376411
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.461
ELB improved by 0.0400933
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.414
ELB improved by 0.0465709
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.355
ELB improved by 0.0594129
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.274
ELB improved by 0.0804639
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.168
ELB improved by 0.106013
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.048
ELB improved by 0.120436
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.939
ELB improved by 0.10889
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.856
ELB improved by 0.0826806
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.795
ELB improved by 0.061578
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.745
ELB improved by 0.0494343
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.703
ELB improved by 0.0427902
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.664
ELB improved by 0.0390671
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.627
ELB improved by 0.0369034
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.591
ELB improved by 0.035435
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.557
ELB improved by 0.0340149
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.525
ELB improved by 0.0321815
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.495
ELB improved by 0.029713
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.469
ELB improved by 0.026661
iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.445
ELB improved by 0.0232888
iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.425
ELB improved by 0.0199303
iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.409
ELB improved by 0.0168551
iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.394
ELB improved by 0.0142059
iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.382
ELB improved by 0.0120106
iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.372
ELB improved by 0.0102281
iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.363
ELB improved by 0.00879067
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-868.692
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-605.682
ELB improved by 263.01
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-546.939
ELB improved by 58.7429
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-499.624
ELB improved by 47.3147
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.193
ELB improved by 25.4317
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-463.692
ELB improved by 10.5008
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-458.176
ELB improved by 5.51545
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.045
ELB improved by 4.13129
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.308
ELB improved by 3.73731
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.632
ELB improved by 3.67534
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.947
ELB improved by 3.68552
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.324
ELB improved by 3.62273
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.93
ELB improved by 3.39418
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.939
ELB improved by 2.99129
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.456
ELB improved by 2.48301
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.485
ELB improved by 1.97037
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.975
ELB improved by 1.51071
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.863
ELB improved by 1.11196
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.062
ELB improved by 0.800779
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.474
ELB improved by 0.587818
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.024
ELB improved by 0.449703
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.666
ELB improved by 0.358263
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.372
ELB improved by 0.294366
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.125
ELB improved by 0.247151
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.914
ELB improved by 0.210681
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.732
ELB improved by 0.181606
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.574
ELB improved by 0.157911
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.436
ELB improved by 0.138293
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.314
ELB improved by 0.121854
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.206
ELB improved by 0.107947
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.11
ELB improved by 0.0960864
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.024
ELB improved by 0.0858991
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.947
ELB improved by 0.0770944
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.878
ELB improved by 0.0694416
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.815
ELB improved by 0.0627557
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.758
ELB improved by 0.0568873
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.706
ELB improved by 0.051714
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.659
ELB improved by 0.0471355
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.616
ELB improved by 0.0430685
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.577
ELB improved by 0.0394436
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.541
ELB improved by 0.0362026
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.507
ELB improved by 0.0332964
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.477
ELB improved by 0.0306833
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.448
ELB improved by 0.0283277
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.422
ELB improved by 0.0261994
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.398
ELB improved by 0.024272
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.375
ELB improved by 0.022523
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.354
ELB improved by 0.0209328
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.335
ELB improved by 0.0194842
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.317
ELB improved by 0.0181624
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.3
ELB improved by 0.0169543
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.284
ELB improved by 0.0158484
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.269
ELB improved by 0.0148345
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.255
ELB improved by 0.0139037
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.242
ELB improved by 0.0130479
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.23
ELB improved by 0.0122602
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.218
ELB improved by 0.0115342
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.207
ELB improved by 0.0108642
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.197
ELB improved by 0.0102453
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.188
ELB improved by 0.00967289
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-873.718
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-580.159
ELB improved by 293.559
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-520.728
ELB improved by 59.4311
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-481.567
ELB improved by 39.1604
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-464.432
ELB improved by 17.136
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-458.042
ELB improved by 6.38978
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.306
ELB improved by 3.73607
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.121
ELB improved by 3.18429
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.918
ELB improved by 3.20306
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.44
ELB improved by 3.47813
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.574
ELB improved by 3.86586
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.391
ELB improved by 4.18372
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.234
ELB improved by 4.15634
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.634
ELB improved by 3.60006
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.933
ELB improved by 2.70164
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.075
ELB improved by 1.85785
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.796
ELB improved by 1.27855
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.856
ELB improved by 0.939801
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.108
ELB improved by 0.748861
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.472
ELB improved by 0.635675
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.91
ELB improved by 0.56182
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.402
ELB improved by 0.508281
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.936
ELB improved by 0.465714
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.507
ELB improved by 0.429346
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.11
ELB improved by 0.396647
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.744
ELB improved by 0.366313
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.406
ELB improved by 0.337803
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.095
ELB improved by 0.311064
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.809
ELB improved by 0.286327
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.545
ELB improved by 0.263951
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.3
ELB improved by 0.24434
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.072
ELB improved by 0.227926
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.857
ELB improved by 0.215246
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.65
ELB improved by 0.207117
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.445
ELB improved by 0.204999
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.233
ELB improved by 0.211632
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.001
ELB improved by 0.231818
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.73
ELB improved by 0.271376
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.402
ELB improved by 0.327871
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.026
ELB improved by 0.37654
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.631
ELB improved by 0.394433
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.233
ELB improved by 0.398009
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.82
ELB improved by 0.413612
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.36
ELB improved by 0.459166
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.794
ELB improved by 0.56644
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.996
ELB improved by 0.798137
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.905
ELB improved by 1.09042
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.786
ELB improved by 1.11977
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.82
ELB improved by 0.965685
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.03
ELB improved by 0.790057
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.421
ELB improved by 0.609309
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.98
ELB improved by 0.440289
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.678
ELB improved by 0.302407
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.476
ELB improved by 0.202153
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.341
ELB improved by 0.134327
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.252
ELB improved by 0.0899907
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.19
ELB improved by 0.0613397
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.147
ELB improved by 0.0428341
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.117
ELB improved by 0.0308226
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.094
ELB improved by 0.0229557
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.076
ELB improved by 0.017735
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.062
ELB improved by 0.0142091
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.05
ELB improved by 0.0117756
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.04
ELB improved by 0.0100527
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.031
ELB improved by 0.00879764
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-833.972
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-599.774
ELB improved by 234.198
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-538.273
ELB improved by 61.501
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-485.735
ELB improved by 52.5381
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.462
ELB improved by 32.2727
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.9
ELB improved by 13.5625
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.296
ELB improved by 5.60373
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.185
ELB improved by 3.1108
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.124
ELB improved by 2.06123
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.551
ELB improved by 1.57326
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.188
ELB improved by 1.3628
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.891
ELB improved by 1.29669
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.576
ELB improved by 1.31512
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.185
ELB improved by 1.39114
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.679
ELB improved by 1.50645
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.041
ELB improved by 1.63712
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.293
ELB improved by 1.74853
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.491
ELB improved by 1.80205
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.718
ELB improved by 1.77287
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.05
ELB improved by 1.66771
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.531
ELB improved by 1.51941
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.18
ELB improved by 1.35118
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.025
ELB improved by 1.15429
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.088
ELB improved by 0.937251
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.337
ELB improved by 0.750754
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.711
ELB improved by 0.626806
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.153
ELB improved by 0.557163
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.631
ELB improved by 0.522302
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.123
ELB improved by 0.508015
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.618
ELB improved by 0.505543
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.108
ELB improved by 0.509258
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.593
ELB improved by 0.515645
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.069
ELB improved by 0.523577
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.534
ELB improved by 0.535257
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.977
ELB improved by 0.557189
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.376
ELB improved by 0.600697
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.7
ELB improved by 0.675615
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.944
ELB improved by 0.756764
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.17
ELB improved by 0.773358
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.429
ELB improved by 0.740816
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.696
ELB improved by 0.733011
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.94
ELB improved by 0.756111
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.145
ELB improved by 0.795578
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.304
ELB improved by 0.841042
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.418
ELB improved by 0.88556
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.472
ELB improved by 0.946494
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.406
ELB improved by 1.06538
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.195
ELB improved by 1.21084
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.862
ELB improved by 1.33382
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.571
ELB improved by 1.29014
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.629
ELB improved by 0.942234
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.062
ELB improved by 0.567401
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.677
ELB improved by 0.38511
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.313
ELB improved by 0.363645
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.906
ELB improved by 0.406599
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.536
ELB improved by 0.370838
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.275
ELB improved by 0.260786
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.106
ELB improved by 0.169255
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.994
ELB improved by 0.111717
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.916
ELB improved by 0.0777136
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.858
ELB improved by 0.0578599
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.813
ELB improved by 0.0457743
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.775
ELB improved by 0.037818
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.743
ELB improved by 0.0321422
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.715
ELB improved by 0.0278337
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.69
ELB improved by 0.0244224
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.669
ELB improved by 0.0216463
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.649
ELB improved by 0.0193455
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.632
ELB improved by 0.0174144
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.616
ELB improved by 0.0157786
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.602
ELB improved by 0.0143835
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.589
ELB improved by 0.0131872
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.576
ELB improved by 0.0121569
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.565
ELB improved by 0.0112663
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.555
ELB improved by 0.0104938
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.545
ELB improved by 0.00982137
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
2.251 0.202 2.439
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.053 | 0.001 | 0.055 | |
| getPIPs | 0.048 | 0.009 | 0.058 | |
| graper | 0.081 | 0.005 | 0.086 | |
| makeExampleData | 0.011 | 0.000 | 0.010 | |
| makeExampleDataWithUnequalGroups | 0.010 | 0.003 | 0.013 | |
| plotELBO | 0.313 | 0.037 | 0.351 | |
| plotGroupPenalties | 1.047 | 0.064 | 1.111 | |
| plotPosterior | 0.634 | 0.002 | 0.636 | |
| predict.graper | 2.046 | 0.016 | 2.063 | |
| print.graper | 0.045 | 0.006 | 0.051 | |