Britta Velten
| Snapshot Date: 2026-03-26 13:40 -0400 (Thu, 26 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 2026-03-27 11:33 -0400 (Fri, 27 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" | 4880 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-03-20 r89666) -- "Unsuffered Consequences" | 4577 |
| 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 933/2372 | 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: 2026-03-26 19:50:18 -0400 (Thu, 26 Mar 2026) |
| EndedAt: 2026-03-26 19:50:51 -0400 (Thu, 26 Mar 2026) |
| EllapsedTime: 32.4 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) (2026-03-20 r89666)
* 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 Tahoe 26.3.1
* using session charset: UTF-8
* current time: 2026-03-26 23:50:18 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 17.0.0 (clang-1700.6.4.2)’
* used SDK: ‘MacOSX26.2.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 17.0.0 (clang-1700.6.4.2)’ using SDK: ‘MacOSX26.2.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) (2026-03-20 r89666) -- "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=-862.359
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-580.078
ELB improved by 282.281
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-517.493
ELB improved by 62.5842
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-477.824
ELB improved by 39.6693
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.216
ELB improved by 17.6077
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.336
ELB improved by 7.87987
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.627
ELB improved by 4.70903
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.737
ELB improved by 3.88998
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.824
ELB improved by 3.91295
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.567
ELB improved by 4.25739
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.039
ELB improved by 4.52772
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.714
ELB improved by 4.32569
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.167
ELB improved by 3.54634
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.636
ELB improved by 2.53145
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.947
ELB improved by 1.6891
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.787
ELB improved by 1.16011
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.905
ELB improved by 0.881509
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.155
ELB improved by 0.749688
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.462
ELB improved by 0.693765
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.785
ELB improved by 0.676312
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.108
ELB improved by 0.677646
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.422
ELB improved by 0.686115
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.728
ELB improved by 0.694148
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.031
ELB improved by 0.696948
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.339
ELB improved by 0.69202
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.66
ELB improved by 0.678728
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.002
ELB improved by 0.657725
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.372
ELB improved by 0.630464
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.773
ELB improved by 0.598965
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.207
ELB improved by 0.565858
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.672
ELB improved by 0.534739
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.161
ELB improved by 0.511263
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.654
ELB improved by 0.506997
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.1
ELB improved by 0.554072
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.344
ELB improved by 0.755536
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.055
ELB improved by 1.28948
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.326
ELB improved by 1.7284
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.531
ELB improved by 1.79493
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.691
ELB improved by 1.84034
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.392
ELB improved by 1.29912
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.602
ELB improved by 0.790285
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.081
ELB improved by 0.520881
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.72
ELB improved by 0.361252
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.467
ELB improved by 0.252649
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.289
ELB improved by 0.177431
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.161
ELB improved by 0.128164
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.064
ELB improved by 0.097
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.987
ELB improved by 0.0768799
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.924
ELB improved by 0.0631444
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.871
ELB improved by 0.0531719
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.826
ELB improved by 0.0455505
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.786
ELB improved by 0.0395007
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.751
ELB improved by 0.0345673
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.721
ELB improved by 0.030467
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.694
ELB improved by 0.0270119
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.67
ELB improved by 0.0240703
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.648
ELB improved by 0.0215461
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.629
ELB improved by 0.0193663
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.612
ELB improved by 0.0174739
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.596
ELB improved by 0.0158238
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.581
ELB improved by 0.0143793
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.568
ELB improved by 0.0131105
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.556
ELB improved by 0.0119924
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.545
ELB improved by 0.0110045
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.535
ELB improved by 0.0101293
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.526
ELB improved by 0.00935208
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-889.435
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-574.341
ELB improved by 315.093
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-515.283
ELB improved by 59.0582
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-480.088
ELB improved by 35.1953
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-463.938
ELB improved by 16.1496
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.617
ELB improved by 7.32113
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.99
ELB improved by 4.62753
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.98
ELB improved by 4.00922
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.998
ELB improved by 3.98221
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.92
ELB improved by 4.07783
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.885
ELB improved by 4.03559
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.216
ELB improved by 3.66931
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.231
ELB improved by 2.98502
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.026
ELB improved by 2.20423
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.47
ELB improved by 1.55592
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.355
ELB improved by 1.11519
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.509
ELB improved by 0.845818
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.821
ELB improved by 0.687966
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.226
ELB improved by 0.595038
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.688
ELB improved by 0.538357
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.186
ELB improved by 0.502016
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.709
ELB improved by 0.477354
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.249
ELB improved by 0.45946
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.804
ELB improved by 0.445345
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.371
ELB improved by 0.433097
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.949
ELB improved by 0.421574
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.539
ELB improved by 0.410311
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.139
ELB improved by 0.399437
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.75
ELB improved by 0.389532
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.368
ELB improved by 0.381464
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.992
ELB improved by 0.376369
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.616
ELB improved by 0.375842
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.234
ELB improved by 0.382332
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.835
ELB improved by 0.399097
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.408
ELB improved by 0.4268
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.956
ELB improved by 0.452225
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.51
ELB improved by 0.446211
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.104
ELB improved by 0.405926
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.742
ELB improved by 0.362087
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.415
ELB improved by 0.326239
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.122
ELB improved by 0.293289
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.862
ELB improved by 0.259774
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.637
ELB improved by 0.225507
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.445
ELB improved by 0.191776
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.285
ELB improved by 0.160164
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.153
ELB improved by 0.131891
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.045
ELB improved by 0.107582
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.958
ELB improved by 0.0873069
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.887
ELB improved by 0.0707665
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.83
ELB improved by 0.0574732
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.783
ELB improved by 0.0468882
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.744
ELB improved by 0.0385012
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.713
ELB improved by 0.031867
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.686
ELB improved by 0.0266153
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.663
ELB improved by 0.0224474
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.644
ELB improved by 0.0191263
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.628
ELB improved by 0.0164663
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.614
ELB improved by 0.0143228
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.601
ELB improved by 0.0125835
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.59
ELB improved by 0.0111617
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.58
ELB improved by 0.00998988
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-873.891
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-577.435
ELB improved by 296.457
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-515.696
ELB improved by 61.7385
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-479.813
ELB improved by 35.8834
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-464.183
ELB improved by 15.6299
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.11
ELB improved by 8.07307
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.88
ELB improved by 6.22939
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.909
ELB improved by 5.97176
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.862
ELB improved by 6.04634
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.158
ELB improved by 5.70437
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.53
ELB improved by 4.62747
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.292
ELB improved by 3.23814
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.156
ELB improved by 2.13613
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.665
ELB improved by 1.49104
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.506
ELB improved by 1.15863
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.575
ELB improved by 0.931391
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.872
ELB improved by 0.703144
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.36
ELB improved by 0.511668
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.974
ELB improved by 0.38628
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.664
ELB improved by 0.31007
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.402
ELB improved by 0.261768
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.174
ELB improved by 0.22861
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.969
ELB improved by 0.204148
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.784
ELB improved by 0.185153
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.614
ELB improved by 0.169895
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.457
ELB improved by 0.157358
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.31
ELB improved by 0.14689
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.172
ELB improved by 0.13805
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.041
ELB improved by 0.130518
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.917
ELB improved by 0.124064
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.799
ELB improved by 0.118513
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.685
ELB improved by 0.113734
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.576
ELB improved by 0.109629
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.469
ELB improved by 0.106123
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.366
ELB improved by 0.10316
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.266
ELB improved by 0.100699
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.167
ELB improved by 0.0987068
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.07
ELB improved by 0.097162
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.974
ELB improved by 0.096047
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.878
ELB improved by 0.0953492
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.783
ELB improved by 0.0950585
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.688
ELB improved by 0.0951662
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.592
ELB improved by 0.0956639
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.496
ELB improved by 0.0965423
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.398
ELB improved by 0.0977896
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.299
ELB improved by 0.0993906
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.197
ELB improved by 0.101325
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.094
ELB improved by 0.103565
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.988
ELB improved by 0.106075
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.879
ELB improved by 0.108809
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.767
ELB improved by 0.111709
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.653
ELB improved by 0.114702
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.535
ELB improved by 0.117701
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.414
ELB improved by 0.120604
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.291
ELB improved by 0.123293
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.165
ELB improved by 0.125641
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.038
ELB improved by 0.127517
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.909
ELB improved by 0.128799
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.78
ELB improved by 0.129387
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.65
ELB improved by 0.129232
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.522
ELB improved by 0.128361
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.395
ELB improved by 0.12692
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.27
ELB improved by 0.125207
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.146
ELB improved by 0.123693
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.023
ELB improved by 0.122965
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.9
ELB improved by 0.123437
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.775
ELB improved by 0.124675
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.651
ELB improved by 0.124529
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.531
ELB improved by 0.119533
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.423
ELB improved by 0.107809
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.332
ELB improved by 0.0915465
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.257
ELB improved by 0.0750022
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.196
ELB improved by 0.0609744
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.146
ELB improved by 0.0500636
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.104
ELB improved by 0.0417658
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.068
ELB improved by 0.0353809
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.038
ELB improved by 0.0303454
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.012
ELB improved by 0.0262704
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.989
ELB improved by 0.0228991
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.969
ELB improved by 0.0200614
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.951
ELB improved by 0.0176425
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.936
ELB improved by 0.0155623
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.922
ELB improved by 0.0137634
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.91
ELB improved by 0.0122028
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.899
ELB improved by 0.0108468
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.889
ELB improved by 0.00966771
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-861.613
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-583.067
ELB improved by 278.546
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-523.742
ELB improved by 59.3254
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-481.549
ELB improved by 42.1926
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.636
ELB improved by 20.9133
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.833
ELB improved by 8.80262
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.065
ELB improved by 4.7686
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.557
ELB improved by 3.50717
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.554
ELB improved by 3.00366
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.771
ELB improved by 2.78258
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.098
ELB improved by 2.67315
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.498
ELB improved by 2.60037
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.979
ELB improved by 2.51885
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.587
ELB improved by 2.39149
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.397
ELB improved by 2.19037
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.487
ELB improved by 1.9095
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.912
ELB improved by 1.57502
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.677
ELB improved by 1.23578
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.739
ELB improved by 0.937183
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.038
ELB improved by 0.701656
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.509
ELB improved by 0.528851
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.102
ELB improved by 0.406672
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.781
ELB improved by 0.320986
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.521
ELB improved by 0.260133
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.305
ELB improved by 0.215821
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.123
ELB improved by 0.182552
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.966
ELB improved by 0.156794
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.83
ELB improved by 0.136288
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.71
ELB improved by 0.119576
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.604
ELB improved by 0.105696
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.51
ELB improved by 0.0939944
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.426
ELB improved by 0.0840129
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.351
ELB improved by 0.0754181
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.283
ELB improved by 0.0679605
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.222
ELB improved by 0.0614485
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.166
ELB improved by 0.055731
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.115
ELB improved by 0.0506872
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.069
ELB improved by 0.0462191
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.027
ELB improved by 0.0422458
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.988
ELB improved by 0.0387003
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.952
ELB improved by 0.0355266
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.92
ELB improved by 0.0326774
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.89
ELB improved by 0.0301126
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.862
ELB improved by 0.027798
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.836
ELB improved by 0.0257043
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.812
ELB improved by 0.0238063
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.79
ELB improved by 0.0220821
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.77
ELB improved by 0.0205129
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.751
ELB improved by 0.0190821
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.733
ELB improved by 0.0177753
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.716
ELB improved by 0.0165797
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.701
ELB improved by 0.0154844
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.686
ELB improved by 0.0144793
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.673
ELB improved by 0.0135559
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.66
ELB improved by 0.0127063
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.648
ELB improved by 0.0119236
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.637
ELB improved by 0.0112018
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.626
ELB improved by 0.0105354
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.617
ELB improved by 0.00991932
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
1.082 0.086 1.168
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.028 | 0.006 | 0.041 | |
| getPIPs | 0.027 | 0.004 | 0.030 | |
| graper | 0.044 | 0.007 | 0.050 | |
| makeExampleData | 0.004 | 0.000 | 0.004 | |
| makeExampleDataWithUnequalGroups | 0.005 | 0.001 | 0.005 | |
| plotELBO | 0.125 | 0.007 | 0.132 | |
| plotGroupPenalties | 0.340 | 0.005 | 0.345 | |
| plotPosterior | 0.310 | 0.011 | 0.322 | |
| predict.graper | 1.020 | 0.037 | 1.074 | |
| print.graper | 0.027 | 0.007 | 0.035 | |