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###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:ttgsea.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings ttgsea_1.6.3.tar.gz
###
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* using log directory 'F:/biocbuild/bbs-3.16-bioc/meat/ttgsea.Rcheck'
* using R version 4.2.3 (2023-03-15 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'ttgsea/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ttgsea' version '1.6.3'
* 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 whether package 'ttgsea' can be installed ... OK
* 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 files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
               user system elapsed
predict_model 17.28   1.55   20.74
fit_model     15.44   1.13   22.64
bi_gru         3.19   1.50   32.51
token_vector   2.22   0.07   14.84
text_token     2.14   0.05   14.79
* 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: OK

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###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL ttgsea
###
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* installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library'
* installing *source* package 'ttgsea' ...
** using staged installation
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (ttgsea)

R version 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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(ttgsea)
Loading required package: keras
> 
> test_check("ttgsea")
2023-04-11 07:03:22.028785: W tensorflow/stream_executor/platform/default/dso_loader.cc:64] Could not load dynamic library 'cudart64_110.dll'; dlerror: cudart64_110.dll not found
2023-04-11 07:03:22.028835: I tensorflow/stream_executor/cuda/cudart_stub.cc:29] Ignore above cudart dlerror if you do not have a GPU set up on your machine.
2023-04-11 07:03:25.858607: W tensorflow/stream_executor/platform/default/dso_loader.cc:64] Could not load dynamic library 'nvcuda.dll'; dlerror: nvcuda.dll not found
2023-04-11 07:03:25.858649: W tensorflow/stream_executor/cuda/cuda_driver.cc:269] failed call to cuInit: UNKNOWN ERROR (303)
2023-04-11 07:03:25.858878: I tensorflow/stream_executor/cuda/cuda_diagnostics.cc:169] retrieving CUDA diagnostic information for host: palomino4
2023-04-11 07:03:25.858971: I tensorflow/stream_executor/cuda/cuda_diagnostics.cc:176] hostname: palomino4
2023-04-11 07:03:25.859364: I tensorflow/core/platform/cpu_feature_guard.cc:151] This TensorFlow binary is optimized with oneAPI Deep Neural Network Library (oneDNN) to use the following CPU instructions in performance-critical operations:  AVX AVX2
To enable them in other operations, rebuild TensorFlow with the appropriate compiler flags.

 1/45 [..............................] - ETA: 2:22 - loss: 1.2874 - pearson_correlation: 0.2562
 4/45 [=>............................] - ETA: 0s - loss: 1.3927 - pearson_correlation: 0.1267  
 7/45 [===>..........................] - ETA: 0s - loss: 1.5057 - pearson_correlation: 0.1339
10/45 [=====>........................] - ETA: 0s - loss: 1.5187 - pearson_correlation: 0.1138
13/45 [=======>......................] - ETA: 0s - loss: 1.5635 - pearson_correlation: 0.1491
16/45 [=========>....................] - ETA: 0s - loss: 1.5479 - pearson_correlation: 0.1492
19/45 [===========>..................] - ETA: 0s - loss: 1.5556 - pearson_correlation: 0.1418
22/45 [=============>................] - ETA: 0s - loss: 1.5622 - pearson_correlation: 0.1293
25/45 [===============>..............] - ETA: 0s - loss: 1.5654 - pearson_correlation: 0.1080
28/45 [=================>............] - ETA: 0s - loss: 1.5648 - pearson_correlation: 0.1143
31/45 [===================>..........] - ETA: 0s - loss: 1.5452 - pearson_correlation: 0.1107
35/45 [======================>.......] - ETA: 0s - loss: 1.5570 - pearson_correlation: 0.1158
38/45 [========================>.....] - ETA: 0s - loss: 1.5577 - pearson_correlation: 0.1303
41/45 [==========================>...] - ETA: 0s - loss: 1.5541 - pearson_correlation: 0.1307
44/45 [============================>.] - ETA: 0s - loss: 1.5508 - pearson_correlation: 0.1363
45/45 [==============================] - 4s 22ms/step - loss: 1.5505 - pearson_correlation: 0.1432
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
> 
> proc.time()
   user  system elapsed 
  25.53    3.31   23.20