Britta Velten
| Snapshot Date: 2023-10-15 14:00:13 -0400 (Sun, 15 Oct 2023) |
| git_url: https://git.bioconductor.org/packages/graper |
| git_branch: RELEASE_3_17 |
| git_last_commit: 503e2c9 |
| git_last_commit_date: 2023-05-01 20:10:30 -0400 (Mon, 01 May 2023) |
| Back to Multiple platform build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-10-16 11:37:06 -0400 (Mon, 16 Oct 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4626 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4379 |
| merida1 | macOS 12.6.4 Monterey | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4395 |
| 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 875/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.16.1 (landing page) Britta Velten
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.6.4 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | see weekly results here | ||||||||||||
|
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: 1.16.1 |
| 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_1.16.1.tar.gz |
| StartedAt: 2023-10-16 02:22:59 -0400 (Mon, 16 Oct 2023) |
| EndedAt: 2023-10-16 02:25:18 -0400 (Mon, 16 Oct 2023) |
| EllapsedTime: 139.3 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_1.16.1.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.17-bioc/meat/graper.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
Apple clang version 14.0.3 (clang-1403.0.22.14.1)
GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.6.4
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.16.1’
* 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 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* checking C++ specification ... NOTE
Specified C++11: please drop specification unless essential
* 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 R 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 ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/Users/biocbuild/bbs-3.17-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/4.3-x86_64/Resources/library’ * installing *source* package ‘graper’ ... ** using staged installation ** libs using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ using C++11 using SDK: ‘MacOSX11.3.sdk’ clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/BH/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/BH/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c fit_graper.cpp -o fit_graper.o clang++ -arch x86_64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/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/x86_64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.3-x86_64/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 version 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20 (64-bit)
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=-880.139
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-612.51
ELB improved by 267.629
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-552.819
ELB improved by 59.6911
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-504.991
ELB improved by 47.8276
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-479.358
ELB improved by 25.6335
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.726
ELB improved by 11.6314
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-459.61
ELB improved by 8.11684
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.447
ELB improved by 8.16231
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.023
ELB improved by 8.42385
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.341
ELB improved by 7.68298
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.471
ELB improved by 5.86927
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.584
ELB improved by 3.88687
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.11
ELB improved by 2.4741
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.483
ELB improved by 1.62755
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.344
ELB improved by 1.13865
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.498
ELB improved by 0.846353
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.838
ELB improved by 0.659579
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.306
ELB improved by 0.532075
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.866
ELB improved by 0.440393
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.494
ELB improved by 0.37195
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.174
ELB improved by 0.319518
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.895
ELB improved by 0.278708
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.649
ELB improved by 0.246765
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.427
ELB improved by 0.221941
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.224
ELB improved by 0.203115
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.034
ELB improved by 0.189463
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.854
ELB improved by 0.180024
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.681
ELB improved by 0.173123
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.515
ELB improved by 0.166107
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.359
ELB improved by 0.15628
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.216
ELB improved by 0.142798
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.089
ELB improved by 0.127094
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.978
ELB improved by 0.111021
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.882
ELB improved by 0.095535
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.801
ELB improved by 0.0811274
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.733
ELB improved by 0.0683978
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.675
ELB improved by 0.0578677
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.625
ELB improved by 0.0496249
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.582
ELB improved by 0.0433339
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.543
ELB improved by 0.0384945
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.509
ELB improved by 0.0346561
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.477
ELB improved by 0.0314951
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.448
ELB improved by 0.0288047
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.422
ELB improved by 0.026459
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.398
ELB improved by 0.024381
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.375
ELB improved by 0.0225218
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.354
ELB improved by 0.0208476
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.335
ELB improved by 0.0193337
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.317
ELB improved by 0.0179606
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.3
ELB improved by 0.0167124
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.285
ELB improved by 0.0155755
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.27
ELB improved by 0.0145384
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.257
ELB improved by 0.0135909
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.244
ELB improved by 0.0127239
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.232
ELB improved by 0.0119296
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.221
ELB improved by 0.011201
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.21
ELB improved by 0.0105318
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.2
ELB improved by 0.00991653
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-854.674
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-565.532
ELB improved by 289.143
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-508.431
ELB improved by 57.1007
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-472.11
ELB improved by 36.3205
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.247
ELB improved by 16.8637
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.844
ELB improved by 7.40235
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.819
ELB improved by 4.02489
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.691
ELB improved by 3.12847
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.784
ELB improved by 2.90739
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.902
ELB improved by 2.88165
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.993
ELB improved by 2.90845
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.11
ELB improved by 2.88369
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.397
ELB improved by 2.71301
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.035
ELB improved by 2.36194
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.143
ELB improved by 1.89199
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.724
ELB improved by 1.41881
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.691
ELB improved by 1.03259
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.931
ELB improved by 0.759998
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.349
ELB improved by 0.582504
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.88
ELB improved by 0.469054
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.485
ELB improved by 0.394431
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.142
ELB improved by 0.343095
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.835
ELB improved by 0.307027
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.553
ELB improved by 0.282762
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.283
ELB improved by 0.269143
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.018
ELB improved by 0.265734
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.746
ELB improved by 0.271559
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.462
ELB improved by 0.284445
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.16
ELB improved by 0.301812
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.837
ELB improved by 0.322464
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.49
ELB improved by 0.347049
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.114
ELB improved by 0.376706
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.702
ELB improved by 0.41202
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.249
ELB improved by 0.453082
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.749
ELB improved by 0.499911
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.196
ELB improved by 0.552698
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.584
ELB improved by 0.611706
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.908
ELB improved by 0.676726
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.161
ELB improved by 0.746024
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.346
ELB improved by 0.815373
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.467
ELB improved by 0.878742
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.536
ELB improved by 0.931529
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.563
ELB improved by 0.973133
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.558
ELB improved by 1.00502
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.529
ELB improved by 1.02819
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.494
ELB improved by 1.03517
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.525
ELB improved by 0.96957
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.742
ELB improved by 0.783093
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.18
ELB improved by 0.561658
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.792
ELB improved by 0.387974
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.52
ELB improved by 0.27209
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.322
ELB improved by 0.197749
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.173
ELB improved by 0.148709
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.058
ELB improved by 0.114995
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.967
ELB improved by 0.0914796
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.892
ELB improved by 0.0752836
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.827
ELB improved by 0.0644199
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.77
ELB improved by 0.0574207
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.717
ELB improved by 0.0531919
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.666
ELB improved by 0.0508203
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.617
ELB improved by 0.0493647
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.569
ELB improved by 0.0477736
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.524
ELB improved by 0.0450855
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.483
ELB improved by 0.0408638
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.447
ELB improved by 0.03546
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.418
ELB improved by 0.0297459
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.393
ELB improved by 0.0245441
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.373
ELB improved by 0.0202767
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.356
ELB improved by 0.0169832
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.341
ELB improved by 0.0145045
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.329
ELB improved by 0.0126362
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.317
ELB improved by 0.0112018
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.307
ELB improved by 0.0100709
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.298
ELB improved by 0.00915375
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-866.9
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-592.353
ELB improved by 274.546
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-528.025
ELB improved by 64.3284
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-483.829
ELB improved by 44.1964
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-464.379
ELB improved by 19.4493
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.807
ELB improved by 7.57248
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.345
ELB improved by 4.46201
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.569
ELB improved by 3.77581
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.48
ELB improved by 4.08863
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.56
ELB improved by 4.9203
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.893
ELB improved by 5.66664
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.35
ELB improved by 5.54309
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.989
ELB improved by 4.36088
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.089
ELB improved by 2.90058
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.22
ELB improved by 1.8689
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.899
ELB improved by 1.32097
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.837
ELB improved by 1.06173
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.895
ELB improved by 0.942204
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.009
ELB improved by 0.886236
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.151
ELB improved by 0.8575
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.313
ELB improved by 0.838169
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.492
ELB improved by 0.821298
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.683
ELB improved by 0.808865
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.87
ELB improved by 0.813073
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.006
ELB improved by 0.863565
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.99
ELB improved by 1.01652
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.678
ELB improved by 1.31159
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.017
ELB improved by 1.66114
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.208
ELB improved by 1.80891
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.444
ELB improved by 1.76473
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.631
ELB improved by 1.8124
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.672
ELB improved by 1.95933
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.788
ELB improved by 1.88353
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.169
ELB improved by 1.61916
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.814
ELB improved by 1.35513
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.736
ELB improved by 1.07839
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.938
ELB improved by 0.797604
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.378
ELB improved by 0.559626
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.991
ELB improved by 0.387195
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.718
ELB improved by 0.272745
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.519
ELB improved by 0.199176
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.368
ELB improved by 0.151541
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.248
ELB improved by 0.119627
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.151
ELB improved by 0.0971795
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.07
ELB improved by 0.0805824
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.002
ELB improved by 0.0678022
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.945
ELB improved by 0.0576881
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.895
ELB improved by 0.0495517
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.852
ELB improved by 0.0429357
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.815
ELB improved by 0.0375012
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.782
ELB improved by 0.0329787
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.753
ELB improved by 0.0291513
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.727
ELB improved by 0.0258499
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.704
ELB improved by 0.0229519
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.684
ELB improved by 0.0203772
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.665
ELB improved by 0.0180808
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.649
ELB improved by 0.0160416
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.635
ELB improved by 0.0142498
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.622
ELB improved by 0.0126966
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.611
ELB improved by 0.0113686
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.601
ELB improved by 0.0102466
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.592
ELB improved by 0.00930642
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-898.928
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-612.766
ELB improved by 286.163
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-549.801
ELB improved by 62.9648
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-500.319
ELB improved by 49.4821
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-472.007
ELB improved by 28.3116
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-459.477
ELB improved by 12.5301
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.279
ELB improved by 6.19818
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.645
ELB improved by 4.63384
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.446
ELB improved by 4.19899
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.369
ELB improved by 4.07759
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.373
ELB improved by 3.9953
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.602
ELB improved by 3.77138
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.312
ELB improved by 3.28966
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.733
ELB improved by 2.57955
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.902
ELB improved by 1.83054
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.673
ELB improved by 1.22922
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.843
ELB improved by 0.829593
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.254
ELB improved by 0.589678
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.803
ELB improved by 0.450198
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.436
ELB improved by 0.36786
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.118
ELB improved by 0.317331
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.833
ELB improved by 0.285419
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.567
ELB improved by 0.265906
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.31
ELB improved by 0.256461
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.053
ELB improved by 0.257209
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.783
ELB improved by 0.270359
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.483
ELB improved by 0.300322
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.129
ELB improved by 0.353627
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.691
ELB improved by 0.437497
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.139
ELB improved by 0.552247
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.478
ELB improved by 0.661468
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.793
ELB improved by 0.685098
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.164
ELB improved by 0.628592
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.588
ELB improved by 0.575583
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.033
ELB improved by 0.555903
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.469
ELB improved by 0.563483
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.879
ELB improved by 0.590235
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.247
ELB improved by 0.631647
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.561
ELB improved by 0.686496
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.805
ELB improved by 0.755707
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.969
ELB improved by 0.835566
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.06
ELB improved by 0.909086
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.097
ELB improved by 0.963442
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.102
ELB improved by 0.994991
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.117
ELB improved by 0.984484
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.178
ELB improved by 0.939498
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.294
ELB improved by 0.884373
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.483
ELB improved by 0.810904
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.799
ELB improved by 0.683798
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.238
ELB improved by 0.560744
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.717
ELB improved by 0.520924
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.176
ELB improved by 0.541144
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.671
ELB improved by 0.504896
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.309
ELB improved by 0.362624
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.098
ELB improved by 0.21014
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.984
ELB improved by 0.114503
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.916
ELB improved by 0.0677819
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.87
ELB improved by 0.0463329
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.833
ELB improved by 0.0362453
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.802
ELB improved by 0.0315396
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.772
ELB improved by 0.029908
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.741
ELB improved by 0.0305539
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.708
ELB improved by 0.033222
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.671
ELB improved by 0.0375111
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.629
ELB improved by 0.0420674
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.585
ELB improved by 0.0441503
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.543
ELB improved by 0.0411054
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.51
ELB improved by 0.0333573
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.486
ELB improved by 0.0244158
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.468
ELB improved by 0.0172429
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.456
ELB improved by 0.0124837
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.446
ELB improved by 0.00954563
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
4.656 0.463 6.405
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.084 | 0.038 | 0.155 | |
| getPIPs | 0.076 | 0.036 | 0.137 | |
| graper | 0.127 | 0.054 | 0.252 | |
| makeExampleData | 0.018 | 0.003 | 0.025 | |
| makeExampleDataWithUnequalGroups | 0.021 | 0.004 | 0.034 | |
| plotELBO | 0.433 | 0.052 | 0.634 | |
| plotGroupPenalties | 1.669 | 0.121 | 2.316 | |
| plotPosterior | 1.174 | 0.051 | 1.637 | |
| predict.graper | 3.142 | 0.199 | 4.291 | |
| print.graper | 0.076 | 0.032 | 0.149 | |