Britta Velten
| Snapshot Date: 2026-03-11 13:40 -0400 (Wed, 11 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 -0400 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-03-12 11:34 -0400 (Thu, 12 Mar 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences" | 4806 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-03-01 r89506) -- "Unsuffered Consequences" | 4049 |
| 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 928/2360 | 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 | ERROR | |||||||||
| 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: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings graper_1.27.0.tar.gz |
| StartedAt: 2026-03-11 19:00:27 -0400 (Wed, 11 Mar 2026) |
| EndedAt: 2026-03-11 19:00:59 -0400 (Wed, 11 Mar 2026) |
| EllapsedTime: 31.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: graper.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings graper_1.27.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/graper.Rcheck’
* using R Under development (unstable) (2026-03-01 r89506)
* using platform: aarch64-apple-darwin23
* R was compiled by
Apple clang version 17.0.0 (clang-1700.3.19.1)
GNU Fortran (GCC) 14.2.0
* running under: macOS Sonoma 14.8.3
* using session charset: UTF-8
* current time: 2026-03-11 23:00:27 UTC
* using option ‘--no-vignettes’
* 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: ‘Apple clang version 15.0.0 (clang-1500.3.9.4)’
* used SDK: ‘MacOSX14.4.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
checkRd: (-1) predict.graper.Rd:19-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:23-24: Lost braces in \itemize; meant \describe ?
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... 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 running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/Users/biocbuild/bbs-3.23-bioc/meat/graper.Rcheck/00check.log’
for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.6/Resources/library’ * installing *source* package ‘graper’ ... ** this is package ‘graper’ version ‘1.27.0’ ** using staged installation ** libs using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.3.9.4)’ using SDK: ‘MacOSX14.4.sdk’ clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/BH/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/BH/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c fit_graper.cpp -o fit_graper.o clang++ -arch arm64 -std=gnu++20 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o graper.so RcppExports.o fit_graper.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0 -L/opt/gfortran/lib -lemutls_w -lheapt_w -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R installing to /Library/Frameworks/R.framework/Versions/4.6/Resources/library/00LOCK-graper/00new/graper/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (graper)
graper.Rcheck/tests/testthat.Rout
R Under development (unstable) (2026-03-01 r89506) -- "Unsuffered Consequences"
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin23
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=-851.272
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-606.262
ELB improved by 245.011
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-544.975
ELB improved by 61.287
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-491.291
ELB improved by 53.6838
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.207
ELB improved by 31.0844
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.877
ELB improved by 13.3291
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.611
ELB improved by 7.26675
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.885
ELB improved by 5.7252
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.402
ELB improved by 5.48386
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.042
ELB improved by 5.35973
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.234
ELB improved by 4.80766
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.452
ELB improved by 3.78247
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.773
ELB improved by 2.67896
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.918
ELB improved by 1.85485
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.553
ELB improved by 1.36471
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.45
ELB improved by 1.10286
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.495
ELB improved by 0.955527
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.643
ELB improved by 0.851902
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.87
ELB improved by 0.773263
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.148
ELB improved by 0.721235
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.457
ELB improved by 0.691334
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.781
ELB improved by 0.676111
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.109
ELB improved by 0.6717
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.431
ELB improved by 0.678744
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.735
ELB improved by 0.695263
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.031
ELB improved by 0.704654
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.342
ELB improved by 0.688239
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.686
ELB improved by 0.656107
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.055
ELB improved by 0.630945
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.432
ELB improved by 0.623861
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.792
ELB improved by 0.639823
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.104
ELB improved by 0.687442
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.32
ELB improved by 0.783906
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.385
ELB improved by 0.934852
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.321
ELB improved by 1.06471
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.239
ELB improved by 1.08186
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.248
ELB improved by 0.990697
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.44
ELB improved by 0.808524
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.833
ELB improved by 0.606253
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.386
ELB improved by 0.44783
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.051
ELB improved by 0.334929
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.797
ELB improved by 0.25365
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.603
ELB improved by 0.194321
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.452
ELB improved by 0.150711
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.333
ELB improved by 0.118523
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.239
ELB improved by 0.0946617
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.162
ELB improved by 0.076847
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.099
ELB improved by 0.0634003
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.045
ELB improved by 0.0531097
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388
ELB improved by 0.0451203
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.961
ELB improved by 0.0388403
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.928
ELB improved by 0.0338628
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.898
ELB improved by 0.0299064
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.871
ELB improved by 0.0267739
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.847
ELB improved by 0.0243249
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.824
ELB improved by 0.0224593
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.803
ELB improved by 0.0211068
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.783
ELB improved by 0.0202198
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.763
ELB improved by 0.0197662
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.743
ELB improved by 0.0197204
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.723
ELB improved by 0.0200501
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.703
ELB improved by 0.0206973
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.681
ELB improved by 0.0215573
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.659
ELB improved by 0.0224632
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.635
ELB improved by 0.0231927
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.612
ELB improved by 0.0235105
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.589
ELB improved by 0.0232398
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.566
ELB improved by 0.022326
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.545
ELB improved by 0.020852
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.526
ELB improved by 0.0189959
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.51
ELB improved by 0.0169635
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.495
ELB improved by 0.0149349
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.482
ELB improved by 0.0130389
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.47
ELB improved by 0.0113508
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.46
ELB improved by 0.00990061
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-854.814
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-587.839
ELB improved by 266.975
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-529.53
ELB improved by 58.309
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-485.859
ELB improved by 43.6705
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-463.228
ELB improved by 22.6311
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.748
ELB improved by 10.4803
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.354
ELB improved by 6.39432
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.723
ELB improved by 5.63113
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.817
ELB improved by 5.9051
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.515
ELB improved by 6.30216
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.352
ELB improved by 6.16323
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.15
ELB improved by 5.20157
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.418
ELB improved by 3.73231
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.017
ELB improved by 2.40144
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.481
ELB improved by 1.53537
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.465
ELB improved by 1.01592
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.785
ELB improved by 0.680585
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.315
ELB improved by 0.469872
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.97
ELB improved by 0.345412
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.699
ELB improved by 0.271073
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.474
ELB improved by 0.22434
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.28
ELB improved by 0.193732
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.107
ELB improved by 0.173683
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.945
ELB improved by 0.161566
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.789
ELB improved by 0.156178
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.632
ELB improved by 0.156674
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.471
ELB improved by 0.161358
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.304
ELB improved by 0.16659
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.137
ELB improved by 0.166956
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.98
ELB improved by 0.1572
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.845
ELB improved by 0.135579
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.738
ELB improved by 0.107029
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.657
ELB improved by 0.0803199
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.597
ELB improved by 0.060774
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.548
ELB improved by 0.048302
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.508
ELB improved by 0.0405472
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.472
ELB improved by 0.0354179
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.441
ELB improved by 0.031673
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.412
ELB improved by 0.0286905
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.386
ELB improved by 0.0261765
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.362
ELB improved by 0.0239887
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.34
ELB improved by 0.022052
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.319
ELB improved by 0.0203211
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.301
ELB improved by 0.018765
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.283
ELB improved by 0.0173602
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.267
ELB improved by 0.016088
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.252
ELB improved by 0.0149329
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.238
ELB improved by 0.0138815
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.225
ELB improved by 0.0129226
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.213
ELB improved by 0.0120462
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.202
ELB improved by 0.0112438
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.192
ELB improved by 0.010508
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.182
ELB improved by 0.00983201
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-845.109
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-583.565
ELB improved by 261.544
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-525.975
ELB improved by 57.5903
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-483.905
ELB improved by 42.0694
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-463.185
ELB improved by 20.7206
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.872
ELB improved by 8.31313
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.13
ELB improved by 4.74114
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.772
ELB improved by 4.3587
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.866
ELB improved by 4.90559
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.959
ELB improved by 5.90721
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.91
ELB improved by 7.04929
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.387
ELB improved by 7.52248
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.865
ELB improved by 6.52249
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.263
ELB improved by 4.6015
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.347
ELB improved by 2.9164
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.471
ELB improved by 1.87564
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.17
ELB improved by 1.30125
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.242
ELB improved by 0.92755
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.6
ELB improved by 0.642606
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.152
ELB improved by 0.447549
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.827
ELB improved by 0.325114
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.58
ELB improved by 0.247174
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.385
ELB improved by 0.19534
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.225
ELB improved by 0.159632
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.09
ELB improved by 0.134493
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.974
ELB improved by 0.116605
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.87
ELB improved by 0.103874
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.775
ELB improved by 0.0949534
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.686
ELB improved by 0.0890025
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.601
ELB improved by 0.0855524
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.516
ELB improved by 0.0844324
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.43
ELB improved by 0.0857294
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.341
ELB improved by 0.0897429
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.244
ELB improved by 0.0968631
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.136
ELB improved by 0.107256
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.016
ELB improved by 0.120333
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.882
ELB improved by 0.134419
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.734
ELB improved by 0.14749
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.576
ELB improved by 0.158738
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.407
ELB improved by 0.168974
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.227
ELB improved by 0.179355
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.037
ELB improved by 0.190404
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.835
ELB improved by 0.202102
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.62
ELB improved by 0.214299
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.393
ELB improved by 0.226925
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.153
ELB improved by 0.240004
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.9
ELB improved by 0.253577
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.632
ELB improved by 0.267602
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.35
ELB improved by 0.281882
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.054
ELB improved by 0.296035
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.745
ELB improved by 0.309501
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.423
ELB improved by 0.321529
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.092
ELB improved by 0.331154
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.755
ELB improved by 0.337166
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.417
ELB improved by 0.338161
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.084
ELB improved by 0.332746
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.764
ELB improved by 0.31992
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.465
ELB improved by 0.299516
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.192
ELB improved by 0.272485
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.951
ELB improved by 0.240835
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.744
ELB improved by 0.207173
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.57
ELB improved by 0.174086
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.426
ELB improved by 0.143608
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.309
ELB improved by 0.116979
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.215
ELB improved by 0.0946712
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.138
ELB improved by 0.0765758
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.076
ELB improved by 0.0622414
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.025
ELB improved by 0.0510689
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.982
ELB improved by 0.0424475
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.947
ELB improved by 0.0358276
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.916
ELB improved by 0.0307513
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.889
ELB improved by 0.0268551
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.865
ELB improved by 0.0238603
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.844
ELB improved by 0.0215585
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.824
ELB improved by 0.0197974
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.805
ELB improved by 0.0184692
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.788
ELB improved by 0.0175017
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.771
ELB improved by 0.0168517
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.755
ELB improved by 0.0165027
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.738
ELB improved by 0.0164637
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.721
ELB improved by 0.0167732
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.704
ELB improved by 0.0175043
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.685
ELB improved by 0.0187723
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.664
ELB improved by 0.0207358
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.641
ELB improved by 0.0235768
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.613
ELB improved by 0.0274346
iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.581
ELB improved by 0.0322912
iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.543
ELB improved by 0.0378805
iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.499
ELB improved by 0.0437667
iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.45
ELB improved by 0.0494853
iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.396
ELB improved by 0.0541365
iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.34
ELB improved by 0.0554024
iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.29
ELB improved by 0.050278
iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.251
ELB improved by 0.0388805
iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.225
ELB improved by 0.0258214
iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.21
ELB improved by 0.0156268
iteration 97
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.2
ELB improved by 0.00936834
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-891.55
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-579.81
ELB improved by 311.74
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-521.192
ELB improved by 58.6178
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-484.309
ELB improved by 36.8836
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.385
ELB improved by 16.9234
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-457.974
ELB improved by 9.41139
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.772
ELB improved by 8.20208
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.116
ELB improved by 8.65585
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.234
ELB improved by 8.88179
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.455
ELB improved by 7.77872
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.71
ELB improved by 5.74578
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.794
ELB improved by 3.91568
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.095
ELB improved by 2.6988
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.085
ELB improved by 2.00961
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.432
ELB improved by 1.65326
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.082
ELB improved by 1.34976
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.072
ELB improved by 1.0101
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.289
ELB improved by 0.783782
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.567
ELB improved by 0.72156
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.853
ELB improved by 0.713916
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.278
ELB improved by 0.575324
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.873
ELB improved by 0.404445
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.554
ELB improved by 0.318825
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.264
ELB improved by 0.290012
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.978
ELB improved by 0.286758
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.681
ELB improved by 0.296906
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.364
ELB improved by 0.316431
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.02
ELB improved by 0.344158
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.64
ELB improved by 0.380012
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.216
ELB improved by 0.424449
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.738
ELB improved by 0.478216
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.195
ELB improved by 0.542111
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.579
ELB improved by 0.616562
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.878
ELB improved by 0.700844
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.086
ELB improved by 0.791859
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.204
ELB improved by 0.882635
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.242
ELB improved by 0.961237
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.231
ELB improved by 1.01157
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.213
ELB improved by 1.01759
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.243
ELB improved by 0.970458
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.368
ELB improved by 0.874497
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.621
ELB improved by 0.746814
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.012
ELB improved by 0.609604
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.531
ELB improved by 0.480617
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.162
ELB improved by 0.368867
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.885
ELB improved by 0.276851
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.681
ELB improved by 0.204262
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.532
ELB improved by 0.149412
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.422
ELB improved by 0.109429
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.341
ELB improved by 0.0808878
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.281
ELB improved by 0.060629
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.235
ELB improved by 0.0461758
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.199
ELB improved by 0.0357536
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.171
ELB improved by 0.0281412
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.148
ELB improved by 0.0225073
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.13
ELB improved by 0.018284
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.115
ELB improved by 0.0150792
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.102
ELB improved by 0.0126185
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.092
ELB improved by 0.0107077
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.082
ELB improved by 0.00920751
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
1.219 0.092 1.312
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.013 | 0.006 | 0.018 | |
| getPIPs | 0.010 | 0.003 | 0.014 | |
| graper | 0.019 | 0.007 | 0.033 | |
| makeExampleData | 0.002 | 0.001 | 0.003 | |
| makeExampleDataWithUnequalGroups | 0.003 | 0.000 | 0.003 | |
| plotELBO | 0.117 | 0.007 | 0.130 | |
| plotGroupPenalties | 0.369 | 0.005 | 0.377 | |
| plotPosterior | 0.323 | 0.013 | 0.342 | |
| predict.graper | 0.222 | 0.060 | 0.297 | |
| print.graper | 0.011 | 0.004 | 0.016 | |