Britta Velten
| Snapshot Date: 2026-01-22 13:40 -0500 (Thu, 22 Jan 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 2026-01-23 11:34 -0500 (Fri, 23 Jan 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" | 4808 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4542 |
| 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 921/2345 | 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 | | ||||||||
|
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: 2026-01-23 00:13:32 -0500 (Fri, 23 Jan 2026) |
| EndedAt: 2026-01-23 00:15:03 -0500 (Fri, 23 Jan 2026) |
| EllapsedTime: 91.1 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=-834.401
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-575.623
ELB improved by 258.778
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-513.008
ELB improved by 62.6149
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.769
ELB improved by 47.2388
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.501
ELB improved by 23.2683
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.827
ELB improved by 8.67423
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.477
ELB improved by 4.35002
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.347
ELB improved by 3.12928
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.642
ELB improved by 2.70547
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.094
ELB improved by 2.54749
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.587
ELB improved by 2.50732
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.048
ELB improved by 2.53886
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.427
ELB improved by 2.62082
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.713
ELB improved by 2.71461
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.971
ELB improved by 2.74217
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.366
ELB improved by 2.60448
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.113
ELB improved by 2.25343
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.361
ELB improved by 1.75215
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.118
ELB improved by 1.24218
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.273
ELB improved by 0.845843
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.674
ELB improved by 0.598351
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.205
ELB improved by 0.46919
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.791
ELB improved by 0.414217
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.39
ELB improved by 0.401079
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.979
ELB improved by 0.411114
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.544
ELB improved by 0.434337
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.079
ELB improved by 0.46519
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.579
ELB improved by 0.50019
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.042
ELB improved by 0.536848
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.469
ELB improved by 0.573199
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.861
ELB improved by 0.607531
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.223
ELB improved by 0.638082
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.561
ELB improved by 0.662554
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.883
ELB improved by 0.677562
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.205
ELB improved by 0.678497
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.544
ELB improved by 0.660417
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.924
ELB improved by 0.620153
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.365
ELB improved by 0.55869
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.883
ELB improved by 0.482062
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.484
ELB improved by 0.399641
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.163
ELB improved by 0.320762
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.911
ELB improved by 0.251883
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.715
ELB improved by 0.195702
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.563
ELB improved by 0.151968
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.445
ELB improved by 0.118856
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.35
ELB improved by 0.0940908
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.275
ELB improved by 0.0755688
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.213
ELB improved by 0.0615867
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.162
ELB improved by 0.0508694
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.12
ELB improved by 0.0425093
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.084
ELB improved by 0.0358808
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.053
ELB improved by 0.030558
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.027
ELB improved by 0.0262465
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.004
ELB improved by 0.0227345
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.985
ELB improved by 0.0198622
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.967
ELB improved by 0.0175041
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.952
ELB improved by 0.0155596
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.938
ELB improved by 0.0139471
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.925
ELB improved by 0.0126013
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.914
ELB improved by 0.0114696
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.903
ELB improved by 0.0105103
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.893
ELB improved by 0.0096903
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-862.101
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-596.231
ELB improved by 265.87
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-534.772
ELB improved by 61.4591
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-486.403
ELB improved by 48.3694
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-461.235
ELB improved by 25.168
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.789
ELB improved by 10.4462
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.286
ELB improved by 5.50227
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.022
ELB improved by 4.26401
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.837
ELB improved by 4.18509
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.356
ELB improved by 4.4816
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.644
ELB improved by 4.71123
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.158
ELB improved by 4.48669
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.467
ELB improved by 3.69109
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.823
ELB improved by 2.64345
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.07
ELB improved by 1.75281
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.9
ELB improved by 1.17045
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.062
ELB improved by 0.838329
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.406
ELB improved by 0.655265
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.855
ELB improved by 0.55145
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.365
ELB improved by 0.489499
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.915
ELB improved by 0.450414
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.491
ELB improved by 0.424179
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.086
ELB improved by 0.405199
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.695
ELB improved by 0.390239
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.318
ELB improved by 0.377469
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.952
ELB improved by 0.365961
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.597
ELB improved by 0.355382
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.251
ELB improved by 0.345762
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.913
ELB improved by 0.337318
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.583
ELB improved by 0.330306
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.258
ELB improved by 0.324924
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.937
ELB improved by 0.321254
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.618
ELB improved by 0.319258
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.299
ELB improved by 0.318816
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.979
ELB improved by 0.319838
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.657
ELB improved by 0.322501
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.329
ELB improved by 0.327747
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.99
ELB improved by 0.33842
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.628
ELB improved by 0.362034
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.211
ELB improved by 0.417255
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.669
ELB improved by 0.542288
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.907
ELB improved by 0.761321
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.978
ELB improved by 0.929288
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.147
ELB improved by 0.831418
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.51
ELB improved by 0.637197
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.007
ELB improved by 0.502504
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.593
ELB improved by 0.413873
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.249
ELB improved by 0.343819
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.976
ELB improved by 0.273125
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.773
ELB improved by 0.203178
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.626
ELB improved by 0.147043
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.517
ELB improved by 0.108533
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.434
ELB improved by 0.0832579
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.368
ELB improved by 0.0662223
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.314
ELB improved by 0.0540978
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.269
ELB improved by 0.044948
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.231
ELB improved by 0.037701
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.199
ELB improved by 0.0317912
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.173
ELB improved by 0.0269296
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.15
ELB improved by 0.0229542
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.13
ELB improved by 0.0197423
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.113
ELB improved by 0.0171739
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.098
ELB improved by 0.0151274
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.084
ELB improved by 0.0134887
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.072
ELB improved by 0.0121602
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.061
ELB improved by 0.0110647
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.051
ELB improved by 0.0101444
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.041
ELB improved by 0.00935738
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-850.385
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-570.881
ELB improved by 279.504
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-513.766
ELB improved by 57.1155
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.443
ELB improved by 38.3224
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.932
ELB improved by 18.5113
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.14
ELB improved by 7.79181
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.671
ELB improved by 4.46889
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.013
ELB improved by 3.65854
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.431
ELB improved by 3.58124
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.66
ELB improved by 3.77134
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.688
ELB improved by 3.97176
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.75
ELB improved by 3.93867
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.258
ELB improved by 3.49166
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.566
ELB improved by 2.69224
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.708
ELB improved by 1.85795
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.455
ELB improved by 1.25313
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.547
ELB improved by 0.907755
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.809
ELB improved by 0.738173
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.141
ELB improved by 0.667557
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.492
ELB improved by 0.649433
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.836
ELB improved by 0.65562
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.17
ELB improved by 0.666448
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.5
ELB improved by 0.670119
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.836
ELB improved by 0.663537
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.187
ELB improved by 0.648934
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.556
ELB improved by 0.630687
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.942
ELB improved by 0.614688
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.333
ELB improved by 0.609121
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.705
ELB improved by 0.627118
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.016
ELB improved by 0.689636
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.208
ELB improved by 0.807894
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.272
ELB improved by 0.935458
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.224
ELB improved by 1.04891
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.078
ELB improved by 1.14586
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.991
ELB improved by 1.08618
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.054
ELB improved by 0.937095
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.234
ELB improved by 0.82021
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.484
ELB improved by 0.750592
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.741
ELB improved by 0.742469
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.93
ELB improved by 0.810613
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.101
ELB improved by 0.829908
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.434
ELB improved by 0.666465
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.941
ELB improved by 0.493347
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.531
ELB improved by 0.409368
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.119
ELB improved by 0.412824
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.645
ELB improved by 0.473569
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.187
ELB improved by 0.457582
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.868
ELB improved by 0.319461
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.668
ELB improved by 0.199635
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.533
ELB improved by 0.134857
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.433
ELB improved by 0.100859
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.352
ELB improved by 0.0809368
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.284
ELB improved by 0.0676606
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.226
ELB improved by 0.0578598
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.176
ELB improved by 0.050121
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.132
ELB improved by 0.0437614
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.094
ELB improved by 0.038415
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.06
ELB improved by 0.0338612
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.03
ELB improved by 0.0299521
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.003
ELB improved by 0.0265802
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.98
ELB improved by 0.0236622
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.959
ELB improved by 0.0211312
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.94
ELB improved by 0.0189318
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.923
ELB improved by 0.0170175
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.907
ELB improved by 0.0153489
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.893
ELB improved by 0.0138922
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.881
ELB improved by 0.0126185
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.869
ELB improved by 0.0115031
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.859
ELB improved by 0.0105247
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.849
ELB improved by 0.00966481
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-861.657
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-562.063
ELB improved by 299.593
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-504.412
ELB improved by 57.651
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-470.74
ELB improved by 33.6721
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.548
ELB improved by 15.1928
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.279
ELB improved by 8.26883
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.704
ELB improved by 7.57473
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.946
ELB improved by 8.75806
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.262
ELB improved by 9.68438
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.719
ELB improved by 8.54236
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.83
ELB improved by 5.88872
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.181
ELB improved by 3.64967
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.747
ELB improved by 2.43357
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.826
ELB improved by 1.92139
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.22
ELB improved by 1.60622
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.943
ELB improved by 1.27643
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.895
ELB improved by 1.04872
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.984
ELB improved by 0.910976
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.166
ELB improved by 0.817904
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.417
ELB improved by 0.749079
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.712
ELB improved by 0.704611
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.002
ELB improved by 0.709629
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.166
ELB improved by 0.8367
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.079
ELB improved by 1.08641
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.004
ELB improved by 1.0755
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.137
ELB improved by 0.866836
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.423
ELB improved by 0.714006
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.814
ELB improved by 0.609168
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.286
ELB improved by 0.527671
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.826
ELB improved by 0.460095
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.423
ELB improved by 0.402951
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.068
ELB improved by 0.354482
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.755
ELB improved by 0.313368
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.477
ELB improved by 0.278443
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.228
ELB improved by 0.248663
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.005
ELB improved by 0.223114
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.804
ELB improved by 0.201021
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.622
ELB improved by 0.181731
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.457
ELB improved by 0.164696
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.308
ELB improved by 0.149452
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.172
ELB improved by 0.135614
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.05
ELB improved by 0.122872
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.939
ELB improved by 0.111
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.839
ELB improved by 0.099853
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.749
ELB improved by 0.0893661
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.67
ELB improved by 0.0795386
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.599
ELB improved by 0.0704117
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.537
ELB improved by 0.062042
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.483
ELB improved by 0.054479
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.435
ELB improved by 0.0477485
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.393
ELB improved by 0.0418456
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.356
ELB improved by 0.0367356
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.324
ELB improved by 0.03236
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.295
ELB improved by 0.0286449
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.27
ELB improved by 0.0255094
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.247
ELB improved by 0.0228724
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.226
ELB improved by 0.0206575
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.208
ELB improved by 0.0187965
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.19
ELB improved by 0.0172302
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.175
ELB improved by 0.015909
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.16
ELB improved by 0.0147929
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.146
ELB improved by 0.0138504
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.133
ELB improved by 0.0130579
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.12
ELB improved by 0.012399
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.109
ELB improved by 0.0118641
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.097
ELB improved by 0.0114501
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.086
ELB improved by 0.0111612
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.075
ELB improved by 0.01101
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.064
ELB improved by 0.0110206
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.053
ELB improved by 0.0112333
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.041
ELB improved by 0.0117134
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.028
ELB improved by 0.012565
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.014
ELB improved by 0.0139542
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.998
ELB improved by 0.0161411
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.979
ELB improved by 0.0195145
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.954
ELB improved by 0.02458
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.922
ELB improved by 0.0317418
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.882
ELB improved by 0.040543
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.834
ELB improved by 0.0482753
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.784
ELB improved by 0.049801
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.742
ELB improved by 0.0419755
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.713
ELB improved by 0.0286848
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.696
ELB improved by 0.0168576
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.687
ELB improved by 0.00949848
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
2.283 0.215 2.488
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.053 | 0.013 | 0.067 | |
| getPIPs | 0.047 | 0.016 | 0.062 | |
| graper | 0.082 | 0.018 | 0.100 | |
| makeExampleData | 0.007 | 0.003 | 0.010 | |
| makeExampleDataWithUnequalGroups | 0.009 | 0.004 | 0.013 | |
| plotELBO | 0.322 | 0.023 | 0.345 | |
| plotGroupPenalties | 1.059 | 0.061 | 1.122 | |
| plotPosterior | 0.622 | 0.015 | 0.636 | |
| predict.graper | 2.060 | 0.057 | 2.116 | |
| print.graper | 0.047 | 0.014 | 0.062 | |