| Back to Build/check report for BioC 3.18: simplified long |
|
This page was generated on 2023-05-10 10:04:32 -0000 (Wed, 10 May 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences" | 6211 |
| 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 | ||||
|
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. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 860/2194 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.17.1 (landing page) Britta Velten
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: graper |
| Version: 1.17.1 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings graper_1.17.1.tar.gz |
| StartedAt: 2023-05-09 17:51:08 -0000 (Tue, 09 May 2023) |
| EndedAt: 2023-05-09 17:53:00 -0000 (Tue, 09 May 2023) |
| EllapsedTime: 111.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: graper.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings graper_1.17.1.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/graper.Rcheck’
* using R Under development (unstable) (2023-03-12 r83975)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.17.1’
* 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: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
* checking C++ specification ... NOTE
Specified C++11: please drop specification unless essential
* checking installed package size ... NOTE
installed size is 6.1Mb
sub-directories of 1Mb or more:
libs 6.0Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking 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 ...
‘example_linear.Rmd’ using ‘UTF-8’... OK
‘example_logistic.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 3 NOTEs
See
‘/home/biocbuild/bbs-3.17-bioc/meat/graper.Rcheck/00check.log’
for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library’ * installing *source* package ‘graper’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’ using C++11 g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/BH/include' -I/usr/local/include -fPIC -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/BH/include' -I/usr/local/include -fPIC -g -O2 -c fit_graper.cpp -o fit_graper.o g++ -std=gnu++11 -shared -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -llapack -L/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/lib -lRblas -lgfortran -lm installing to /home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/00LOCK-graper/00new/graper/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (graper)
graper.Rcheck/tests/testthat.Rout
R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (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=-888.187
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-568.278
ELB improved by 319.908
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-510.071
ELB improved by 58.2078
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.789
ELB improved by 34.2816
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-462.427
ELB improved by 13.3618
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.993
ELB improved by 5.43414
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.754
ELB improved by 3.23894
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.231
ELB improved by 2.5231
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.878
ELB improved by 2.35298
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.429
ELB improved by 2.44947
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.727
ELB improved by 2.70205
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.706
ELB improved by 3.02024
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.447
ELB improved by 3.25971
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.219
ELB improved by 3.22761
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.406
ELB improved by 2.81341
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.274
ELB improved by 2.13132
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.833
ELB improved by 1.44096
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.911
ELB improved by 0.921936
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.316
ELB improved by 0.595643
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.911
ELB improved by 0.404843
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.619
ELB improved by 0.291743
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.399
ELB improved by 0.220599
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.226
ELB improved by 0.172976
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.086
ELB improved by 0.13966
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.97
ELB improved by 0.115626
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.873
ELB improved by 0.0977874
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.788
ELB improved by 0.0841386
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.715
ELB improved by 0.0733743
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.65
ELB improved by 0.0646535
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.593
ELB improved by 0.0574307
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.542
ELB improved by 0.0513437
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.495
ELB improved by 0.0461443
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.454
ELB improved by 0.0416557
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.416
ELB improved by 0.0377477
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.382
ELB improved by 0.0343216
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.35
ELB improved by 0.0313005
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.322
ELB improved by 0.028623
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.296
ELB improved by 0.0262397
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.271
ELB improved by 0.02411
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.249
ELB improved by 0.0222002
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.229
ELB improved by 0.0204821
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.21
ELB improved by 0.0189319
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.192
ELB improved by 0.0175295
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.176
ELB improved by 0.0162575
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.161
ELB improved by 0.015101
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.147
ELB improved by 0.0140474
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.134
ELB improved by 0.0130854
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.122
ELB improved by 0.0122055
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.11
ELB improved by 0.0113991
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.1
ELB improved by 0.0106588
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.09
ELB improved by 0.00997826
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-881.111
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-569.348
ELB improved by 311.763
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-511.553
ELB improved by 57.7948
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.754
ELB improved by 35.799
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.938
ELB improved by 14.8154
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.745
ELB improved by 6.19339
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.628
ELB improved by 4.11711
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.058
ELB improved by 3.56961
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.578
ELB improved by 3.47969
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.005
ELB improved by 3.57375
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.222
ELB improved by 3.783
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.137
ELB improved by 4.08434
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.718
ELB improved by 4.41944
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.103
ELB improved by 4.6153
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.718
ELB improved by 4.38433
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.11
ELB improved by 3.60788
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.53
ELB improved by 2.58039
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.828
ELB improved by 1.70154
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.708
ELB improved by 1.12085
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.924
ELB improved by 0.783325
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.33
ELB improved by 0.593901
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.846
ELB improved by 0.484611
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.429
ELB improved by 0.417095
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.057
ELB improved by 0.371481
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.72
ELB improved by 0.337672
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.409
ELB improved by 0.310449
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.122
ELB improved by 0.287043
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.856
ELB improved by 0.265968
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.61
ELB improved by 0.246458
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.381
ELB improved by 0.228154
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.171
ELB improved by 0.210932
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.976
ELB improved by 0.194784
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.796
ELB improved by 0.179746
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.63
ELB improved by 0.165854
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.477
ELB improved by 0.153121
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.335
ELB improved by 0.141536
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.204
ELB improved by 0.13106
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.083
ELB improved by 0.121637
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.97
ELB improved by 0.113201
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.864
ELB improved by 0.105676
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.765
ELB improved by 0.0989883
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.672
ELB improved by 0.0930652
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.584
ELB improved by 0.0878373
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.501
ELB improved by 0.0832403
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.422
ELB improved by 0.0792146
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.346
ELB improved by 0.0757056
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.273
ELB improved by 0.0726626
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.203
ELB improved by 0.070039
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.135
ELB improved by 0.0677912
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.069
ELB improved by 0.0658781
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.005
ELB improved by 0.0642604
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.942
ELB improved by 0.0629002
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.881
ELB improved by 0.0617603
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.82
ELB improved by 0.060804
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.76
ELB improved by 0.0599948
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.7
ELB improved by 0.0592969
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.642
ELB improved by 0.0586751
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.584
ELB improved by 0.0580961
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.526
ELB improved by 0.0575293
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.469
ELB improved by 0.0569483
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.413
ELB improved by 0.0563321
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.357
ELB improved by 0.0556665
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.302
ELB improved by 0.0549446
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.248
ELB improved by 0.0541671
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.195
ELB improved by 0.0533411
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.142
ELB improved by 0.0524791
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.091
ELB improved by 0.0515971
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.04
ELB improved by 0.0507129
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.99
ELB improved by 0.0498455
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.941
ELB improved by 0.0490146
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.893
ELB improved by 0.0482424
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.845
ELB improved by 0.0475563
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.798
ELB improved by 0.0469937
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.752
ELB improved by 0.0466098
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.705
ELB improved by 0.0464873
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.658
ELB improved by 0.0467523
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.611
ELB improved by 0.0475949
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.562
ELB improved by 0.0492973
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.509
ELB improved by 0.0522604
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.452
ELB improved by 0.0569961
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.388
ELB improved by 0.0639785
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.315
ELB improved by 0.0731311
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.232
ELB improved by 0.0828008
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.143
ELB improved by 0.0890576
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.056
ELB improved by 0.0876564
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.977
ELB improved by 0.0783501
iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.912
ELB improved by 0.0653991
iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.859
ELB improved by 0.0530921
iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.816
ELB improved by 0.0431026
iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.78
ELB improved by 0.0353454
iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.751
ELB improved by 0.0292768
iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.727
ELB improved by 0.0244246
iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.706
ELB improved by 0.020469
iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.689
ELB improved by 0.0172039
iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.675
ELB improved by 0.0144924
iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.662
ELB improved by 0.0122366
iteration 97
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.652
ELB improved by 0.0103613
iteration 98
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.643
ELB improved by 0.00880489
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-840.266
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-582.052
ELB improved by 258.213
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-523.128
ELB improved by 58.9243
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-480.085
ELB improved by 43.0433
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.136
ELB improved by 23.9484
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.137
ELB improved by 10.9995
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.405
ELB improved by 5.73187
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.083
ELB improved by 4.32216
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.015
ELB improved by 4.06823
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.753
ELB improved by 4.26146
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.013
ELB improved by 4.73988
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.716
ELB improved by 5.29748
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.252
ELB improved by 5.4637
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.513
ELB improved by 4.73871
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.184
ELB improved by 3.32981
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.146
ELB improved by 2.03788
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.884
ELB improved by 1.26181
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.008
ELB improved by 0.875929
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.326
ELB improved by 0.68165
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.754
ELB improved by 0.572683
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.25
ELB improved by 0.503847
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.794
ELB improved by 0.455595
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.375
ELB improved by 0.418638
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.987
ELB improved by 0.388016
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.627
ELB improved by 0.360724
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.292
ELB improved by 0.334775
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.983
ELB improved by 0.309012
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.7
ELB improved by 0.283203
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.442
ELB improved by 0.257934
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.208
ELB improved by 0.234111
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.995
ELB improved by 0.212423
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.802
ELB improved by 0.19313
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.626
ELB improved by 0.176158
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.465
ELB improved by 0.161279
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.317
ELB improved by 0.148218
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.18
ELB improved by 0.136713
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.053
ELB improved by 0.126532
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.936
ELB improved by 0.117475
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.826
ELB improved by 0.109372
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.724
ELB improved by 0.102079
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.629
ELB improved by 0.0954802
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.539
ELB improved by 0.0894777
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.455
ELB improved by 0.0839945
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.376
ELB improved by 0.0789699
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.302
ELB improved by 0.0743575
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.232
ELB improved by 0.0701237
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.166
ELB improved by 0.0662454
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.103
ELB improved by 0.0627083
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.043
ELB improved by 0.0595044
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.987
ELB improved by 0.0566288
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.933
ELB improved by 0.0540751
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.881
ELB improved by 0.0518295
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.831
ELB improved by 0.0498618
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.783
ELB improved by 0.0481149
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.736
ELB improved by 0.0464962
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.692
ELB improved by 0.044876
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.648
ELB improved by 0.0431021
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.607
ELB improved by 0.0410363
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.569
ELB improved by 0.0386018
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.533
ELB improved by 0.0358184
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.5
ELB improved by 0.0328
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.471
ELB improved by 0.0297109
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.444
ELB improved by 0.0267093
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.42
ELB improved by 0.0239091
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.399
ELB improved by 0.0213701
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.379
ELB improved by 0.0191094
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.362
ELB improved by 0.0171178
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.347
ELB improved by 0.0153738
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.333
ELB improved by 0.0138524
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.321
ELB improved by 0.0125285
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.309
ELB improved by 0.0113793
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.299
ELB improved by 0.010384
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.289
ELB improved by 0.00952461
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-868.201
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-563.107
ELB improved by 305.094
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-504.67
ELB improved by 58.4367
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-470.063
ELB improved by 34.6077
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.603
ELB improved by 13.4598
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.908
ELB improved by 5.69434
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.974
ELB improved by 3.93396
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.57
ELB improved by 3.40472
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.32
ELB improved by 3.24929
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.112
ELB improved by 3.20797
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.934
ELB improved by 3.17828
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.843
ELB improved by 3.09166
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.958
ELB improved by 2.88454
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.428
ELB improved by 2.53048
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.346
ELB improved by 2.08187
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.701
ELB improved by 1.64428
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.411
ELB improved by 1.29012
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.391
ELB improved by 1.02024
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.582
ELB improved by 0.808586
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.94
ELB improved by 0.642506
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.421
ELB improved by 0.51888
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.988
ELB improved by 0.432682
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.613
ELB improved by 0.37557
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.274
ELB improved by 0.339087
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.957
ELB improved by 0.316809
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.652
ELB improved by 0.304552
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.353
ELB improved by 0.299797
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.051
ELB improved by 0.30113
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.744
ELB improved by 0.307873
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.424
ELB improved by 0.319895
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.086
ELB improved by 0.337537
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.724
ELB improved by 0.361629
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.331
ELB improved by 0.393575
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.895
ELB improved by 0.435528
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.405
ELB improved by 0.490726
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.841
ELB improved by 0.564144
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.177
ELB improved by 0.663789
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.374
ELB improved by 0.802663
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.376
ELB improved by 0.997589
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.128
ELB improved by 1.24863
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.623
ELB improved by 1.50504
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.905
ELB improved by 1.71759
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.021
ELB improved by 1.88397
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.083
ELB improved by 1.93785
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.287
ELB improved by 1.79658
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.714
ELB improved by 1.57275
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.426
ELB improved by 1.28847
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.546
ELB improved by 0.879833
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.985
ELB improved by 0.560868
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.638
ELB improved by 0.346724
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.422
ELB improved by 0.216371
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.277
ELB improved by 0.144807
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.171
ELB improved by 0.105555
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.089
ELB improved by 0.0826003
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.021
ELB improved by 0.0681527
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.962
ELB improved by 0.0584979
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.911
ELB improved by 0.0516165
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.864
ELB improved by 0.0461622
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.823
ELB improved by 0.0411701
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.787
ELB improved by 0.036095
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.756
ELB improved by 0.0308762
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.73
ELB improved by 0.025817
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.709
ELB improved by 0.0213038
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.692
ELB improved by 0.0175724
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.677
ELB improved by 0.01465
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.664
ELB improved by 0.0124257
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.654
ELB improved by 0.0107427
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.644
ELB improved by 0.00945514
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
2.771 0.196 2.947
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.088 | 0.004 | 0.092 | |
| getPIPs | 0.082 | 0.004 | 0.086 | |
| graper | 0.136 | 0.012 | 0.147 | |
| makeExampleData | 0.013 | 0.000 | 0.013 | |
| makeExampleDataWithUnequalGroups | 0.015 | 0.000 | 0.015 | |
| plotELBO | 0.285 | 0.016 | 0.302 | |
| plotGroupPenalties | 1.096 | 0.048 | 1.143 | |
| plotPosterior | 0.711 | 0.016 | 0.727 | |
| predict.graper | 3.140 | 0.047 | 3.192 | |
| print.graper | 0.083 | 0.003 | 0.087 | |