| Back to Build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-06-06 11:00:44 -0000 (Tue, 06 Jun 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.0 (2023-04-21) -- "Already Tomorrow" | 4366 |
| 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 | ||||
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To the developers/maintainers of the ttgsea package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ttgsea.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 2123/2199 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ttgsea 1.9.0 (landing page) Dongmin Jung
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | |||||||||
| Package: ttgsea |
| Version: 1.9.0 |
| Command: /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:ttgsea.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings ttgsea_1.9.0.tar.gz |
| StartedAt: 2023-06-06 08:59:21 -0000 (Tue, 06 Jun 2023) |
| EndedAt: 2023-06-06 09:03:15 -0000 (Tue, 06 Jun 2023) |
| EllapsedTime: 233.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ttgsea.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:ttgsea.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings ttgsea_1.9.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/ttgsea.Rcheck’
* using R version 4.3.0 (2023-04-21)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* checking for file ‘ttgsea/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ttgsea’ version ‘1.9.0’
* 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 ‘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 loading without being on the library search path ... 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
fit_model 23.904 1.001 20.495
predict_model 22.663 1.134 18.570
token_vector 9.514 0.620 6.421
text_token 9.422 0.467 6.266
bi_gru 5.912 0.699 10.021
* 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 ...
‘ttgsea.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
ttgsea.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL ttgsea ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.0/site-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)
ttgsea.Rcheck/tests/testthat.Rout
R version 4.3.0 (2023-04-21) -- "Already Tomorrow"
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(ttgsea)
Loading required package: keras
>
> test_check("ttgsea")
1/45 [..............................] - ETA: 4:24 - loss: 1.6572 - pearson_correlation: 0.1005
4/45 [=>............................] - ETA: 0s - loss: 1.5975 - pearson_correlation: 0.0142
5/45 [==>...........................] - ETA: 1s - loss: 1.5782 - pearson_correlation: 0.0107
6/45 [===>..........................] - ETA: 1s - loss: 1.6154 - pearson_correlation: -0.0207
7/45 [===>..........................] - ETA: 1s - loss: 1.6582 - pearson_correlation: -0.0118
8/45 [====>.........................] - ETA: 1s - loss: 1.6436 - pearson_correlation: 0.0298
9/45 [=====>........................] - ETA: 1s - loss: 1.6203 - pearson_correlation: 0.0260
10/45 [=====>........................] - ETA: 1s - loss: 1.6018 - pearson_correlation: 0.0298
11/45 [======>.......................] - ETA: 1s - loss: 1.6483 - pearson_correlation: 0.0665
12/45 [=======>......................] - ETA: 1s - loss: 1.6372 - pearson_correlation: 0.0627
13/45 [=======>......................] - ETA: 1s - loss: 1.6466 - pearson_correlation: 0.0915
14/45 [========>.....................] - ETA: 1s - loss: 1.6245 - pearson_correlation: 0.0963
15/45 [=========>....................] - ETA: 1s - loss: 1.6156 - pearson_correlation: 0.1080
16/45 [=========>....................] - ETA: 1s - loss: 1.6196 - pearson_correlation: 0.1252
17/45 [==========>...................] - ETA: 1s - loss: 1.6140 - pearson_correlation: 0.1210
18/45 [===========>..................] - ETA: 1s - loss: 1.5988 - pearson_correlation: 0.1247
19/45 [===========>..................] - ETA: 1s - loss: 1.6025 - pearson_correlation: 0.1347
20/45 [============>.................] - ETA: 1s - loss: 1.6102 - pearson_correlation: 0.1468
21/45 [=============>................] - ETA: 1s - loss: 1.5999 - pearson_correlation: 0.1452
22/45 [=============>................] - ETA: 1s - loss: 1.5872 - pearson_correlation: 0.1490
23/45 [==============>...............] - ETA: 1s - loss: 1.5871 - pearson_correlation: 0.1481
24/45 [===============>..............] - ETA: 1s - loss: 1.5812 - pearson_correlation: 0.1513
25/45 [===============>..............] - ETA: 1s - loss: 1.5847 - pearson_correlation: 0.1641
26/45 [================>.............] - ETA: 1s - loss: 1.5836 - pearson_correlation: 0.1694
27/45 [=================>............] - ETA: 1s - loss: 1.5833 - pearson_correlation: 0.1622
28/45 [=================>............] - ETA: 1s - loss: 1.5842 - pearson_correlation: 0.1583
29/45 [==================>...........] - ETA: 0s - loss: 1.5974 - pearson_correlation: 0.1556
30/45 [===================>..........] - ETA: 0s - loss: 1.5935 - pearson_correlation: 0.1500
31/45 [===================>..........] - ETA: 0s - loss: 1.6028 - pearson_correlation: 0.1524
32/45 [====================>.........] - ETA: 0s - loss: 1.6044 - pearson_correlation: 0.1608
33/45 [=====================>........] - ETA: 0s - loss: 1.5992 - pearson_correlation: 0.1501
34/45 [=====================>........] - ETA: 0s - loss: 1.5908 - pearson_correlation: 0.1511
35/45 [======================>.......] - ETA: 0s - loss: 1.5796 - pearson_correlation: 0.1414
36/45 [=======================>......] - ETA: 0s - loss: 1.5812 - pearson_correlation: 0.1456
37/45 [=======================>......] - ETA: 0s - loss: 1.5740 - pearson_correlation: 0.1421
38/45 [========================>.....] - ETA: 0s - loss: 1.5726 - pearson_correlation: 0.1422
39/45 [=========================>....] - ETA: 0s - loss: 1.5699 - pearson_correlation: 0.1460
40/45 [=========================>....] - ETA: 0s - loss: 1.5674 - pearson_correlation: 0.1362
41/45 [==========================>...] - ETA: 0s - loss: 1.5730 - pearson_correlation: 0.1311
42/45 [===========================>..] - ETA: 0s - loss: 1.5701 - pearson_correlation: 0.1328
43/45 [===========================>..] - ETA: 0s - loss: 1.5643 - pearson_correlation: 0.1426
44/45 [============================>.] - ETA: 0s - loss: 1.5630 - pearson_correlation: 0.1434
45/45 [==============================] - ETA: 0s - loss: 1.5598 - pearson_correlation: 0.1420
45/45 [==============================] - 9s 61ms/step - loss: 1.5598 - pearson_correlation: 0.1420
1/4 [======>.......................] - ETA: 1s
4/4 [==============================] - 1s 7ms/step
1/1 [==============================] - ETA: 0s
1/1 [==============================] - 0s 32ms/step
1/32 [..............................] - ETA: 1s
6/32 [====>.........................] - ETA: 0s
11/32 [=========>....................] - ETA: 0s
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31/32 [============================>.] - ETA: 0s
32/32 [==============================] - 0s 11ms/step
1/32 [..............................] - ETA: 1s
5/32 [===>..........................] - ETA: 0s
9/32 [=======>......................] - ETA: 0s
14/32 [============>.................] - ETA: 0s
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29/32 [==========================>...] - ETA: 0s
32/32 [==============================] - 0s 12ms/step
1/1 [==============================] - ETA: 0s
1/1 [==============================] - 0s 32ms/step
1/32 [..............................] - ETA: 1s
6/32 [====>.........................] - ETA: 0s
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30/32 [===========================>..] - ETA: 0s
32/32 [==============================] - 0s 12ms/step
1/32 [..............................] - ETA: 1s
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31/32 [============================>.] - ETA: 0s
32/32 [==============================] - 0s 13ms/step
1/32 [..............................] - ETA: 1s
5/32 [===>..........................] - ETA: 0s
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22/32 [===================>..........] - ETA: 0s
27/32 [========================>.....] - ETA: 0s
32/32 [==============================] - ETA: 0s
32/32 [==============================] - 0s 12ms/step
1/32 [..............................] - ETA: 1s
5/32 [===>..........................] - ETA: 0s
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17/32 [==============>...............] - ETA: 0s
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25/32 [======================>.......] - ETA: 0s
29/32 [==========================>...] - ETA: 0s
32/32 [==============================] - 0s 13ms/step
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
>
> proc.time()
user system elapsed
29.080 1.639 29.047
ttgsea.Rcheck/ttgsea-Ex.timings
| name | user | system | elapsed | |
| bi_gru | 5.912 | 0.699 | 10.021 | |
| bi_lstm | 0.406 | 0.008 | 0.413 | |
| fit_model | 23.904 | 1.001 | 20.495 | |
| metric_pearson_correlation | 0.029 | 0.000 | 0.029 | |
| plot_model | 0.339 | 0.012 | 0.350 | |
| predict_model | 22.663 | 1.134 | 18.570 | |
| sampling_generator | 0.019 | 0.000 | 0.019 | |
| text_token | 9.422 | 0.467 | 6.266 | |
| token_vector | 9.514 | 0.620 | 6.421 | |