Britta Velten
| Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021) |
| URL: https://git.bioconductor.org/packages/graper |
| Branch: RELEASE_3_12 |
| Last Commit: f9d8f22 |
| Last Changed Date: 2020-10-27 11:41:22 -0400 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.12 |
|
This page was generated on 2021-05-06 12:27:49 -0400 (Thu, 06 May 2021).
|
To the developers/maintainers of the graper package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 779/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.6.0 (landing page) Britta Velten
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: graper |
| Version: 1.6.0 |
| Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings graper_1.6.0.tar.gz |
| StartedAt: 2021-05-06 02:12:11 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 02:13:19 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 67.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: graper.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings graper_1.6.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/graper.Rcheck’
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.6.0’
* 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
* checking installed package size ... NOTE
installed size is 5.6Mb
sub-directories of 1Mb or more:
libs 5.4Mb
* 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
‘/home/biocbuild/bbs-3.12-bioc/meat/graper.Rcheck/00check.log’
for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’ * installing *source* package ‘graper’ ... ** using staged installation ** libs g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I/usr/local/include -fpic -g -O2 -Wall -c fit_graper.cpp -o fit_graper.o g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.12-bioc/R/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -L/home/biocbuild/bbs-3.12-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-3.12-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.12-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.12-bioc/R/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 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-pc-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=-874.54
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-590.613
ELB improved by 283.927
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-530.65
ELB improved by 59.9626
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-485.661
ELB improved by 44.9891
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.381
ELB improved by 20.28
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-457.829
ELB improved by 7.55244
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.226
ELB improved by 4.6033
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.179
ELB improved by 4.04696
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.961
ELB improved by 4.21737
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.229
ELB improved by 4.7319
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.807
ELB improved by 5.42286
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.775
ELB improved by 6.0316
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.623
ELB improved by 6.15166
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.146
ELB improved by 5.47716
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.972
ELB improved by 4.17383
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.171
ELB improved by 2.80105
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.4
ELB improved by 1.77099
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.267
ELB improved by 1.13319
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.495
ELB improved by 0.771818
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.925
ELB improved by 0.570426
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.47
ELB improved by 0.454573
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.086
ELB improved by 0.384392
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.746
ELB improved by 0.340056
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.434
ELB improved by 0.311684
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.14
ELB improved by 0.294
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.856
ELB improved by 0.283894
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.577
ELB improved by 0.279375
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.298
ELB improved by 0.279104
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.016
ELB improved by 0.282165
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.728
ELB improved by 0.287961
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.431
ELB improved by 0.296183
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.125
ELB improved by 0.306795
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.805
ELB improved by 0.320015
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.468
ELB improved by 0.336259
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.112
ELB improved by 0.356029
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.733
ELB improved by 0.379753
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.325
ELB improved by 0.407568
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.886
ELB improved by 0.439075
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.413
ELB improved by 0.473077
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.905
ELB improved by 0.507391
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.367
ELB improved by 0.53884
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.803
ELB improved by 0.563612
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.225
ELB improved by 0.578008
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.646
ELB improved by 0.579367
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.079
ELB improved by 0.566669
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.538
ELB improved by 0.540557
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.035
ELB improved by 0.50324
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.576
ELB improved by 0.459092
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.16
ELB improved by 0.415911
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.775
ELB improved by 0.385422
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.396
ELB improved by 0.378642
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.009
ELB improved by 0.386638
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.64
ELB improved by 0.369121
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.333
ELB improved by 0.307405
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.098
ELB improved by 0.234527
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.915
ELB improved by 0.182995
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.761
ELB improved by 0.154019
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.627
ELB improved by 0.134269
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.514
ELB improved by 0.112883
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.427
ELB improved by 0.0876747
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.363
ELB improved by 0.0637187
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.317
ELB improved by 0.045734
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.283
ELB improved by 0.0341214
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.256
ELB improved by 0.0269571
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.234
ELB improved by 0.0223625
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.214
ELB improved by 0.0191734
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.198
ELB improved by 0.0167836
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.183
ELB improved by 0.0148916
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.169
ELB improved by 0.0133421
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.157
ELB improved by 0.0120472
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.146
ELB improved by 0.0109509
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.136
ELB improved by 0.0100144
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.127
ELB improved by 0.00920855
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-895.597
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-596.438
ELB improved by 299.158
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-537.863
ELB improved by 58.5753
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-500.64
ELB improved by 37.2228
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-484.304
ELB improved by 16.3368
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-476.795
ELB improved by 7.50811
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-471.107
ELB improved by 5.68853
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.422
ELB improved by 5.68529
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-459.523
ELB improved by 5.8987
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.824
ELB improved by 5.69932
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.94
ELB improved by 4.88353
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.201
ELB improved by 3.73858
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.561
ELB improved by 2.64011
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.787
ELB improved by 1.77424
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.597
ELB improved by 1.18977
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.767
ELB improved by 0.830248
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.154
ELB improved by 0.612672
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.68
ELB improved by 0.4741
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.303
ELB improved by 0.377307
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.999
ELB improved by 0.304218
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.752
ELB improved by 0.247225
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.549
ELB improved by 0.202811
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.38
ELB improved by 0.168508
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.238
ELB improved by 0.142097
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.117
ELB improved by 0.121629
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.011
ELB improved by 0.10554
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.918
ELB improved by 0.0926672
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.836
ELB improved by 0.082179
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.763
ELB improved by 0.0734923
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.696
ELB improved by 0.0661965
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.636
ELB improved by 0.0599975
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.582
ELB improved by 0.0546801
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.532
ELB improved by 0.0500823
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.486
ELB improved by 0.0460798
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.443
ELB improved by 0.042575
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.404
ELB improved by 0.0394901
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.367
ELB improved by 0.0367623
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.332
ELB improved by 0.0343401
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.3
ELB improved by 0.032181
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.27
ELB improved by 0.0302496
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.241
ELB improved by 0.0285161
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.215
ELB improved by 0.0269554
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.189
ELB improved by 0.0255462
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.165
ELB improved by 0.0242701
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.142
ELB improved by 0.0231114
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.12
ELB improved by 0.0220565
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.098
ELB improved by 0.0210938
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.078
ELB improved by 0.0202128
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.059
ELB improved by 0.0194047
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.04
ELB improved by 0.0186615
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.022
ELB improved by 0.0179764
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.005
ELB improved by 0.0173431
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.988
ELB improved by 0.0167562
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.972
ELB improved by 0.016211
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.956
ELB improved by 0.015703
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.941
ELB improved by 0.0152285
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.926
ELB improved by 0.014784
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.912
ELB improved by 0.0143665
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.898
ELB improved by 0.0139732
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.884
ELB improved by 0.0136016
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.871
ELB improved by 0.0132495
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.858
ELB improved by 0.012915
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.845
ELB improved by 0.0125963
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.833
ELB improved by 0.0122918
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.821
ELB improved by 0.012
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.809
ELB improved by 0.0117198
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.798
ELB improved by 0.01145
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.787
ELB improved by 0.0111896
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.776
ELB improved by 0.0109377
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.765
ELB improved by 0.0106936
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.755
ELB improved by 0.0104567
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.745
ELB improved by 0.0102263
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.735
ELB improved by 0.0100021
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.725
ELB improved by 0.00978349
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-808.674
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-577.814
ELB improved by 230.859
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-523.083
ELB improved by 54.7314
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-481.577
ELB improved by 41.5062
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.643
ELB improved by 24.9333
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.132
ELB improved by 11.5114
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.306
ELB improved by 5.82613
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.781
ELB improved by 4.52498
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.244
ELB improved by 4.53676
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.419
ELB improved by 4.82496
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.56
ELB improved by 4.85949
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.242
ELB improved by 4.31759
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.907
ELB improved by 3.33505
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.534
ELB improved by 2.37253
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.872
ELB improved by 1.66186
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.716
ELB improved by 1.1567
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.91
ELB improved by 0.805925
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.326
ELB improved by 0.583914
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.877
ELB improved by 0.449093
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.514
ELB improved by 0.36299
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.211
ELB improved by 0.302635
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.955
ELB improved by 0.256606
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.735
ELB improved by 0.219608
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.546
ELB improved by 0.189255
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.381
ELB improved by 0.164304
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.238
ELB improved by 0.143813
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.111
ELB improved by 0.126916
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.998
ELB improved by 0.112859
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.897
ELB improved by 0.101029
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.806
ELB improved by 0.0909628
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.724
ELB improved by 0.0823101
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.649
ELB improved by 0.0748096
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.58
ELB improved by 0.0682616
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.518
ELB improved by 0.0625104
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.461
ELB improved by 0.0574325
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.408
ELB improved by 0.0529286
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.359
ELB improved by 0.0489174
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.313
ELB improved by 0.0453318
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.271
ELB improved by 0.042116
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.232
ELB improved by 0.0392232
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.195
ELB improved by 0.0366138
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.161
ELB improved by 0.0342545
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.129
ELB improved by 0.0321167
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.099
ELB improved by 0.0301761
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.07
ELB improved by 0.0284119
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.044
ELB improved by 0.0268064
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.018
ELB improved by 0.0253445
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.994
ELB improved by 0.0240132
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.971
ELB improved by 0.0228016
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.95
ELB improved by 0.0217005
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.929
ELB improved by 0.0207025
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.909
ELB improved by 0.0198016
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.89
ELB improved by 0.0189934
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.872
ELB improved by 0.0182748
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.854
ELB improved by 0.0176444
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.837
ELB improved by 0.0171024
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.821
ELB improved by 0.0166511
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.804
ELB improved by 0.0162944
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.788
ELB improved by 0.0160394
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.772
ELB improved by 0.0158957
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.757
ELB improved by 0.0158771
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.741
ELB improved by 0.0160019
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.724
ELB improved by 0.0162943
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.707
ELB improved by 0.016786
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.69
ELB improved by 0.0175179
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.671
ELB improved by 0.0185422
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.651
ELB improved by 0.0199251
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.63
ELB improved by 0.0217479
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.606
ELB improved by 0.0241062
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.578
ELB improved by 0.0271018
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.548
ELB improved by 0.0308195
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.512
ELB improved by 0.0352763
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.472
ELB improved by 0.0403376
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.426
ELB improved by 0.0456201
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.376
ELB improved by 0.0504647
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.322
ELB improved by 0.0540932
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.266
ELB improved by 0.0559483
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.21
ELB improved by 0.0559685
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.155
ELB improved by 0.0545301
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.103
ELB improved by 0.0521436
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.054
ELB improved by 0.0492163
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.008
ELB improved by 0.0460093
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.965
ELB improved by 0.0426896
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.926
ELB improved by 0.0393784
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.89
ELB improved by 0.0361698
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.857
ELB improved by 0.0331341
iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.826
ELB improved by 0.0303189
iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.799
ELB improved by 0.0277505
iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.773
ELB improved by 0.0254379
iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.75
ELB improved by 0.0233773
iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.728
ELB improved by 0.0215559
iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.708
ELB improved by 0.0199557
iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.69
ELB improved by 0.0185561
iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.672
ELB improved by 0.0173355
iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.656
ELB improved by 0.0162731
iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.641
ELB improved by 0.0153494
iteration 97
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.626
ELB improved by 0.0145466
iteration 98
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.612
ELB improved by 0.0138488
iteration 99
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.599
ELB improved by 0.0132419
iteration 100
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.586
ELB improved by 0.0127139
iteration 101
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.574
ELB improved by 0.0122543
iteration 102
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.562
ELB improved by 0.0118541
iteration 103
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.551
ELB improved by 0.0115057
iteration 104
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.54
ELB improved by 0.0112026
iteration 105
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.529
ELB improved by 0.0109395
iteration 106
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.518
ELB improved by 0.0107115
iteration 107
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.507
ELB improved by 0.0105149
iteration 108
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.497
ELB improved by 0.0103464
iteration 109
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.487
ELB improved by 0.0102031
iteration 110
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.477
ELB improved by 0.0100827
iteration 111
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.467
ELB improved by 0.00998329
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-865.987
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-564.97
ELB improved by 301.017
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-497.46
ELB improved by 67.5098
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.638
ELB improved by 40.8225
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.92
ELB improved by 16.7174
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.127
ELB improved by 7.793
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.841
ELB improved by 5.28597
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.339
ELB improved by 4.50238
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.071
ELB improved by 4.26805
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.845
ELB improved by 4.22623
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.615
ELB improved by 4.22936
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.452
ELB improved by 4.16365
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.555
ELB improved by 3.89636
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.222
ELB improved by 3.33281
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.678
ELB improved by 2.54401
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.923
ELB improved by 1.75519
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.776
ELB improved by 1.14713
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.026
ELB improved by 0.750029
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.517
ELB improved by 0.509446
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.152
ELB improved by 0.364823
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.877
ELB improved by 0.275099
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.66
ELB improved by 0.216672
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.483
ELB improved by 0.176631
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.336
ELB improved by 0.147871
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.209
ELB improved by 0.12635
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.1
ELB improved by 0.109673
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.003
ELB improved by 0.0963676
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.918
ELB improved by 0.0854937
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.841
ELB improved by 0.0764328
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.772
ELB improved by 0.0687645
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.71
ELB improved by 0.0621944
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.654
ELB improved by 0.0565101
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.602
ELB improved by 0.0515533
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.555
ELB improved by 0.0472032
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.512
ELB improved by 0.0433651
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.472
ELB improved by 0.0399634
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.435
ELB improved by 0.0369365
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.401
ELB improved by 0.0342336
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.369
ELB improved by 0.0318123
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.339
ELB improved by 0.0296369
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.311
ELB improved by 0.0276772
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.285
ELB improved by 0.0259073
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.261
ELB improved by 0.0243052
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.238
ELB improved by 0.0228517
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.217
ELB improved by 0.0215303
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.196
ELB improved by 0.0203266
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.177
ELB improved by 0.0192282
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.159
ELB improved by 0.0182241
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.142
ELB improved by 0.0173047
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.125
ELB improved by 0.0164616
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.11
ELB improved by 0.0156874
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.095
ELB improved by 0.0149754
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.08
ELB improved by 0.0143199
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.067
ELB improved by 0.0137157
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.053
ELB improved by 0.0131581
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.041
ELB improved by 0.0126431
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.029
ELB improved by 0.012167
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.017
ELB improved by 0.0117265
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.006
ELB improved by 0.0113186
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.995
ELB improved by 0.0109409
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.984
ELB improved by 0.0105908
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.974
ELB improved by 0.0102662
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.964
ELB improved by 0.00996535
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
2.464 0.108 2.576
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.056 | 0.000 | 0.069 | |
| getPIPs | 0.052 | 0.000 | 0.051 | |
| graper | 0.076 | 0.004 | 0.082 | |
| makeExampleData | 0.008 | 0.000 | 0.009 | |
| makeExampleDataWithUnequalGroups | 0.008 | 0.000 | 0.011 | |
| plotELBO | 0.192 | 0.000 | 0.196 | |
| plotGroupPenalties | 0.800 | 0.004 | 0.809 | |
| plotPosterior | 1.008 | 0.036 | 1.048 | |
| predict.graper | 3.116 | 0.044 | 3.186 | |
| print.graper | 0.064 | 0.008 | 0.074 | |