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This page was generated on 2023-01-29 16:33:43 -0000 (Sun, 29 Jan 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4021
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CHECK results for DeepPINCS on kunpeng1


To the developers/maintainers of the DeepPINCS package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DeepPINCS.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 486/2162HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DeepPINCS 1.7.0  (landing page)
Dongmin Jung
Snapshot Date: 2023-01-27 13:09:27 -0000 (Fri, 27 Jan 2023)
git_url: https://git.bioconductor.org/packages/DeepPINCS
git_branch: master
git_last_commit: 7f63a68
git_last_commit_date: 2022-11-01 15:24:50 -0000 (Tue, 01 Nov 2022)
kunpeng1Linux (Ubuntu 22.04.1 LTS) / aarch64  OK    OK    ERROR  

Summary

Package: DeepPINCS
Version: 1.7.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:DeepPINCS.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings DeepPINCS_1.7.0.tar.gz
StartedAt: 2023-01-28 21:11:12 -0000 (Sat, 28 Jan 2023)
EndedAt: 2023-01-28 21:17:26 -0000 (Sat, 28 Jan 2023)
EllapsedTime: 373.8 seconds
RetCode: 1
Status:   ERROR  
CheckDir: DeepPINCS.Rcheck
Warnings: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:DeepPINCS.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings DeepPINCS_1.7.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/DeepPINCS.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* 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 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘DeepPINCS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DeepPINCS’ version ‘1.7.0’
* 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 ‘DeepPINCS’ can be installed ... 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 ... WARNING
Error in library(DeepPINCS, lib.loc = "/home/biocbuild/bbs-3.17-bioc/R/library") : 
  there is no package called ‘DeepPINCS’
Execution halted

It looks like this package has a loading problem when not on .libPaths:
see the messages for details.
* 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 ... NOTE
fit_cpi: no visible binding for global variable ‘compound’
fit_cpi: no visible binding for global variable ‘compound_args’
fit_cpi: no visible binding for global variable ‘protein’
fit_cpi: no visible binding for global variable ‘protein_args’
fit_cpi: no visible binding for global variable ‘max_atoms’
gcn_in_out : initialize: no visible global function definition for
  ‘super’
gcn_in_out : call: no visible binding for global variable ‘self’
gcn_in_out : <anonymous>: no visible binding for global variable ‘self’
gcn_in_out: no visible binding for global variable ‘temp_units’
multiple_sampling_generator : <anonymous>: no visible binding for
  global variable ‘batch_start’
Undefined global functions or variables:
  batch_start compound compound_args max_atoms protein protein_args
  self super temp_units
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... SKIPPED
* 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 ...
  ‘DeepPINCS.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... ERROR
Error(s) in re-building vignettes:
--- re-building ‘DeepPINCS.Rmd’ using rmarkdown
/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/__init__.py:98: UserWarning: unable to load libtensorflow_io_plugins.so: unable to open file: libtensorflow_io_plugins.so, from paths: ['/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io_plugins.so']
caused by: ["[Errno 2] The file to load file system plugin from does not exist.: '/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io_plugins.so'"]
  warnings.warn(f"unable to load libtensorflow_io_plugins.so: {e}")
/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/__init__.py:104: UserWarning: file system plugins are not loaded: unable to open file: libtensorflow_io.so, from paths: ['/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io.so']
caused by: ['/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io.so: cannot open shared object file: No such file or directory']
  warnings.warn(f"file system plugins are not loaded: {e}")
Epoch 1/20

1/6 [====>.........................] - ETA: 11s - loss: 0.6961 - accuracy: 0.4375
3/6 [==============>...............] - ETA: 0s - loss: 0.6938 - accuracy: 0.4896 
6/6 [==============================] - ETA: 0s - loss: 0.6922 - accuracy: 0.5057
6/6 [==============================] - 3s 132ms/step - loss: 0.6922 - accuracy: 0.5057 - val_loss: 0.6873 - val_accuracy: 0.5267
Epoch 2/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6871 - accuracy: 0.5312
4/6 [===================>..........] - ETA: 0s - loss: 0.6850 - accuracy: 0.5625
6/6 [==============================] - 0s 42ms/step - loss: 0.6832 - accuracy: 0.5714 - val_loss: 0.6834 - val_accuracy: 0.5467
Epoch 3/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6910 - accuracy: 0.4844
4/6 [===================>..........] - ETA: 0s - loss: 0.6771 - accuracy: 0.6094
6/6 [==============================] - 0s 32ms/step - loss: 0.6781 - accuracy: 0.5914 - val_loss: 0.6795 - val_accuracy: 0.5667
Epoch 4/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6728 - accuracy: 0.6250
4/6 [===================>..........] - ETA: 0s - loss: 0.6728 - accuracy: 0.5898
6/6 [==============================] - 0s 33ms/step - loss: 0.6728 - accuracy: 0.5914 - val_loss: 0.6755 - val_accuracy: 0.6200
Epoch 5/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6677 - accuracy: 0.6562
4/6 [===================>..........] - ETA: 0s - loss: 0.6697 - accuracy: 0.6094
6/6 [==============================] - 0s 34ms/step - loss: 0.6674 - accuracy: 0.6086 - val_loss: 0.6718 - val_accuracy: 0.6333
Epoch 6/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6621 - accuracy: 0.6562
4/6 [===================>..........] - ETA: 0s - loss: 0.6614 - accuracy: 0.6250
6/6 [==============================] - 0s 43ms/step - loss: 0.6617 - accuracy: 0.6171 - val_loss: 0.6679 - val_accuracy: 0.6333
Epoch 7/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6670 - accuracy: 0.5469
4/6 [===================>..........] - ETA: 0s - loss: 0.6571 - accuracy: 0.6406
6/6 [==============================] - 0s 34ms/step - loss: 0.6572 - accuracy: 0.6343 - val_loss: 0.6633 - val_accuracy: 0.6133
Epoch 8/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6609 - accuracy: 0.5938
4/6 [===================>..........] - ETA: 0s - loss: 0.6512 - accuracy: 0.6680
6/6 [==============================] - 0s 33ms/step - loss: 0.6488 - accuracy: 0.6629 - val_loss: 0.6592 - val_accuracy: 0.6333
Epoch 9/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6715 - accuracy: 0.5781
4/6 [===================>..........] - ETA: 0s - loss: 0.6474 - accuracy: 0.6445
6/6 [==============================] - 0s 34ms/step - loss: 0.6422 - accuracy: 0.6571 - val_loss: 0.6547 - val_accuracy: 0.6400
Epoch 10/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6560 - accuracy: 0.6562
4/6 [===================>..........] - ETA: 0s - loss: 0.6386 - accuracy: 0.6406
6/6 [==============================] - 0s 34ms/step - loss: 0.6343 - accuracy: 0.6657 - val_loss: 0.6487 - val_accuracy: 0.6267
Epoch 11/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6214 - accuracy: 0.7031
4/6 [===================>..........] - ETA: 0s - loss: 0.6263 - accuracy: 0.6758
6/6 [==============================] - 0s 34ms/step - loss: 0.6250 - accuracy: 0.6943 - val_loss: 0.6422 - val_accuracy: 0.6533
Epoch 12/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6341 - accuracy: 0.6562
4/6 [===================>..........] - ETA: 0s - loss: 0.6106 - accuracy: 0.7148
6/6 [==============================] - 0s 34ms/step - loss: 0.6122 - accuracy: 0.7143 - val_loss: 0.6341 - val_accuracy: 0.6600
Epoch 13/20

1/6 [====>.........................] - ETA: 0s - loss: 0.6031 - accuracy: 0.7031
4/6 [===================>..........] - ETA: 0s - loss: 0.5915 - accuracy: 0.7617
6/6 [==============================] - 0s 34ms/step - loss: 0.5998 - accuracy: 0.7343 - val_loss: 0.6255 - val_accuracy: 0.6533
Epoch 14/20

1/6 [====>.........................] - ETA: 0s - loss: 0.5912 - accuracy: 0.7031
4/6 [===================>..........] - ETA: 0s - loss: 0.5807 - accuracy: 0.7734
6/6 [==============================] - 0s 35ms/step - loss: 0.5847 - accuracy: 0.7600 - val_loss: 0.6172 - val_accuracy: 0.6733
Epoch 15/20

1/6 [====>.........................] - ETA: 0s - loss: 0.5807 - accuracy: 0.7656
3/6 [==============>...............] - ETA: 0s - loss: 0.5590 - accuracy: 0.8021
6/6 [==============================] - ETA: 0s - loss: 0.5715 - accuracy: 0.7771
6/6 [==============================] - 0s 34ms/step - loss: 0.5715 - accuracy: 0.7771 - val_loss: 0.6081 - val_accuracy: 0.6600
Epoch 16/20

1/6 [====>.........................] - ETA: 0s - loss: 0.5468 - accuracy: 0.8281
4/6 [===================>..........] - ETA: 0s - loss: 0.5617 - accuracy: 0.8203
6/6 [==============================] - 0s 36ms/step - loss: 0.5528 - accuracy: 0.8229 - val_loss: 0.5988 - val_accuracy: 0.6600
Epoch 17/20

1/6 [====>.........................] - ETA: 0s - loss: 0.5284 - accuracy: 0.8438
4/6 [===================>..........] - ETA: 0s - loss: 0.5171 - accuracy: 0.8594
6/6 [==============================] - 0s 33ms/step - loss: 0.5362 - accuracy: 0.8171 - val_loss: 0.5894 - val_accuracy: 0.6733
Epoch 18/20

1/6 [====>.........................] - ETA: 0s - loss: 0.5413 - accuracy: 0.7969
4/6 [===================>..........] - ETA: 0s - loss: 0.5229 - accuracy: 0.8203
6/6 [==============================] - 0s 34ms/step - loss: 0.5171 - accuracy: 0.8343 - val_loss: 0.5798 - val_accuracy: 0.7200
Epoch 19/20

1/6 [====>.........................] - ETA: 0s - loss: 0.5171 - accuracy: 0.8281
4/6 [===================>..........] - ETA: 0s - loss: 0.5100 - accuracy: 0.8633
6/6 [==============================] - 0s 34ms/step - loss: 0.5036 - accuracy: 0.8514 - val_loss: 0.5735 - val_accuracy: 0.7000
Epoch 20/20

1/6 [====>.........................] - ETA: 0s - loss: 0.4933 - accuracy: 0.8438
3/6 [==============>...............] - ETA: 0s - loss: 0.4829 - accuracy: 0.8646
6/6 [==============================] - ETA: 0s - loss: 0.4807 - accuracy: 0.8771
6/6 [==============================] - 0s 37ms/step - loss: 0.4807 - accuracy: 0.8771 - val_loss: 0.5633 - val_accuracy: 0.7267

1/5 [=====>........................] - ETA: 0s
5/5 [==============================] - 0s 6ms/step
Epoch 1/20

 1/11 [=>............................] - ETA: 17s - loss: 0.7005 - accuracy: 0.4844
11/11 [==============================] - ETA: 0s - loss: 0.6896 - accuracy: 0.5257 
11/11 [==============================] - 2s 37ms/step - loss: 0.6896 - accuracy: 0.5257 - val_loss: 0.6799 - val_accuracy: 0.5433
Epoch 2/20

 1/11 [=>............................] - ETA: 0s - loss: 0.6375 - accuracy: 0.8125
11/11 [==============================] - 0s 9ms/step - loss: 0.6275 - accuracy: 0.7271 - val_loss: 0.6558 - val_accuracy: 0.6167
Epoch 3/20

 1/11 [=>............................] - ETA: 0s - loss: 0.5749 - accuracy: 0.8125
11/11 [==============================] - 0s 17ms/step - loss: 0.5775 - accuracy: 0.7614 - val_loss: 0.6292 - val_accuracy: 0.6267
Epoch 4/20

 1/11 [=>............................] - ETA: 0s - loss: 0.5323 - accuracy: 0.8438
11/11 [==============================] - 0s 16ms/step - loss: 0.5217 - accuracy: 0.8071 - val_loss: 0.6086 - val_accuracy: 0.6667
Epoch 5/20

 1/11 [=>............................] - ETA: 0s - loss: 0.4838 - accuracy: 0.7969
11/11 [==============================] - 0s 9ms/step - loss: 0.4704 - accuracy: 0.8300 - val_loss: 0.5944 - val_accuracy: 0.6700
Epoch 6/20

 1/11 [=>............................] - ETA: 0s - loss: 0.3773 - accuracy: 0.9219
11/11 [==============================] - 0s 10ms/step - loss: 0.4231 - accuracy: 0.8671 - val_loss: 0.5795 - val_accuracy: 0.6967
Epoch 7/20

 1/11 [=>............................] - ETA: 0s - loss: 0.4458 - accuracy: 0.8125
11/11 [==============================] - 0s 10ms/step - loss: 0.3783 - accuracy: 0.8900 - val_loss: 0.5732 - val_accuracy: 0.7067
Epoch 8/20

 1/11 [=>............................] - ETA: 0s - loss: 0.3495 - accuracy: 0.8594
11/11 [==============================] - 0s 10ms/step - loss: 0.3361 - accuracy: 0.9100 - val_loss: 0.5625 - val_accuracy: 0.7133
Epoch 9/20

 1/11 [=>............................] - ETA: 0s - loss: 0.3232 - accuracy: 0.9062
11/11 [==============================] - 0s 9ms/step - loss: 0.2982 - accuracy: 0.9257 - val_loss: 0.5555 - val_accuracy: 0.7400
Epoch 10/20

 1/11 [=>............................] - ETA: 0s - loss: 0.2686 - accuracy: 0.9531
11/11 [==============================] - 0s 9ms/step - loss: 0.2661 - accuracy: 0.9329 - val_loss: 0.5511 - val_accuracy: 0.7267
Epoch 11/20

 1/11 [=>............................] - ETA: 0s - loss: 0.2489 - accuracy: 0.9531
11/11 [==============================] - 0s 9ms/step - loss: 0.2370 - accuracy: 0.9400 - val_loss: 0.5482 - val_accuracy: 0.7233
Epoch 12/20

 1/11 [=>............................] - ETA: 0s - loss: 0.2560 - accuracy: 0.9062
11/11 [==============================] - 0s 10ms/step - loss: 0.2110 - accuracy: 0.9486 - val_loss: 0.5527 - val_accuracy: 0.7200
Epoch 13/20

 1/11 [=>............................] - ETA: 0s - loss: 0.1827 - accuracy: 0.9844
11/11 [==============================] - 0s 9ms/step - loss: 0.1879 - accuracy: 0.9671 - val_loss: 0.5548 - val_accuracy: 0.7267
Epoch 14/20

 1/11 [=>............................] - ETA: 0s - loss: 0.1519 - accuracy: 0.9844
11/11 [==============================] - 0s 9ms/step - loss: 0.1675 - accuracy: 0.9657 - val_loss: 0.5532 - val_accuracy: 0.7367
Epoch 15/20

 1/11 [=>............................] - ETA: 0s - loss: 0.1228 - accuracy: 0.9688
11/11 [==============================] - 0s 9ms/step - loss: 0.1496 - accuracy: 0.9800 - val_loss: 0.5593 - val_accuracy: 0.7300
Epoch 16/20

 1/11 [=>............................] - ETA: 0s - loss: 0.1257 - accuracy: 0.9844
11/11 [==============================] - 0s 9ms/step - loss: 0.1345 - accuracy: 0.9814 - val_loss: 0.5618 - val_accuracy: 0.7333
Epoch 17/20

 1/11 [=>............................] - ETA: 0s - loss: 0.0822 - accuracy: 1.0000
11/11 [==============================] - 0s 14ms/step - loss: 0.1212 - accuracy: 0.9843 - val_loss: 0.5724 - val_accuracy: 0.7300
Epoch 18/20

 1/11 [=>............................] - ETA: 0s - loss: 0.0909 - accuracy: 1.0000
11/11 [==============================] - 0s 10ms/step - loss: 0.1096 - accuracy: 0.9857 - val_loss: 0.5765 - val_accuracy: 0.7433
Epoch 19/20

 1/11 [=>............................] - ETA: 0s - loss: 0.0852 - accuracy: 1.0000
11/11 [==============================] - 0s 10ms/step - loss: 0.0987 - accuracy: 0.9900 - val_loss: 0.5804 - val_accuracy: 0.7400
Epoch 20/20

 1/11 [=>............................] - ETA: 0s - loss: 0.0865 - accuracy: 1.0000
11/11 [==============================] - 0s 9ms/step - loss: 0.0881 - accuracy: 0.9914 - val_loss: 0.5913 - val_accuracy: 0.7300

 1/10 [==>...........................] - ETA: 1s
10/10 [==============================] - 0s 2ms/step
Epoch 1/20

 1/55 [..............................] - ETA: 2:03 - loss: 0.6933 - accuracy: 0.4219
11/55 [=====>........................] - ETA: 0s - loss: 0.6930 - accuracy: 0.4901  
20/55 [=========>....................] - ETA: 0s - loss: 0.6928 - accuracy: 0.5008
29/55 [==============>...............] - ETA: 0s - loss: 0.6927 - accuracy: 0.5043
38/55 [===================>..........] - ETA: 0s - loss: 0.6927 - accuracy: 0.5082
50/55 [==========================>...] - ETA: 0s - loss: 0.6923 - accuracy: 0.5163
55/55 [==============================] - 3s 12ms/step - loss: 0.6921 - accuracy: 0.5160 - val_loss: 0.6906 - val_accuracy: 0.5267
Epoch 2/20

 1/55 [..............................] - ETA: 0s - loss: 0.6846 - accuracy: 0.5938
13/55 [======>.......................] - ETA: 0s - loss: 0.6837 - accuracy: 0.5805
24/55 [============>.................] - ETA: 0s - loss: 0.6827 - accuracy: 0.5723
36/55 [==================>...........] - ETA: 0s - loss: 0.6813 - accuracy: 0.5877
48/55 [=========================>....] - ETA: 0s - loss: 0.6800 - accuracy: 0.5960
55/55 [==============================] - 0s 6ms/step - loss: 0.6795 - accuracy: 0.5977 - val_loss: 0.6820 - val_accuracy: 0.5827
Epoch 3/20

 1/55 [..............................] - ETA: 0s - loss: 0.6552 - accuracy: 0.7188
12/55 [=====>........................] - ETA: 0s - loss: 0.6557 - accuracy: 0.7331
23/55 [===========>..................] - ETA: 0s - loss: 0.6499 - accuracy: 0.7188
33/55 [=================>............] - ETA: 0s - loss: 0.6476 - accuracy: 0.7107
43/55 [======================>.......] - ETA: 0s - loss: 0.6405 - accuracy: 0.7144
53/55 [===========================>..] - ETA: 0s - loss: 0.6351 - accuracy: 0.7155
55/55 [==============================] - 0s 7ms/step - loss: 0.6350 - accuracy: 0.7134 - val_loss: 0.6673 - val_accuracy: 0.5813
Epoch 4/20

 1/55 [..............................] - ETA: 0s - loss: 0.5553 - accuracy: 0.8438
11/55 [=====>........................] - ETA: 0s - loss: 0.5756 - accuracy: 0.7727
22/55 [===========>..................] - ETA: 0s - loss: 0.5686 - accuracy: 0.7571
32/55 [================>.............] - ETA: 0s - loss: 0.5576 - accuracy: 0.7632
42/55 [=====================>........] - ETA: 0s - loss: 0.5499 - accuracy: 0.7649
54/55 [============================>.] - ETA: 0s - loss: 0.5450 - accuracy: 0.7650Killed

* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR, 1 WARNING, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.17-bioc/meat/DeepPINCS.Rcheck/00check.log’
for details.


Installation output

DeepPINCS.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL DeepPINCS
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’
* installing *source* package ‘DeepPINCS’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (DeepPINCS)

Tests output

DeepPINCS.Rcheck/tests/testthat.Rout


R Under development (unstable) (2023-01-14 r83615) -- "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(DeepPINCS)
Loading required package: keras
> 
> test_check("DeepPINCS")
/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/__init__.py:98: UserWarning: unable to load libtensorflow_io_plugins.so: unable to open file: libtensorflow_io_plugins.so, from paths: ['/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io_plugins.so']
caused by: ["[Errno 2] The file to load file system plugin from does not exist.: '/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io_plugins.so'"]
  warnings.warn(f"unable to load libtensorflow_io_plugins.so: {e}")
/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/__init__.py:104: UserWarning: file system plugins are not loaded: unable to open file: libtensorflow_io.so, from paths: ['/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io.so']
caused by: ['/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io.so: cannot open shared object file: No such file or directory']
  warnings.warn(f"file system plugins are not loaded: {e}")
2023-01-28 21:13:23.424644: W tensorflow/tsl/framework/cpu_allocator_impl.cc:82] Allocation of 15786624 exceeds 10% of free system memory.
2023-01-28 21:13:23.425134: W tensorflow/tsl/framework/cpu_allocator_impl.cc:82] Allocation of 15786624 exceeds 10% of free system memory.

1/7 [===>..........................] - ETA: 14s - loss: 0.6954 - accuracy: 0.43752023-01-28 21:13:23.436276: W tensorflow/tsl/framework/cpu_allocator_impl.cc:82] Allocation of 15786624 exceeds 10% of free system memory.
2023-01-28 21:13:23.436546: W tensorflow/tsl/framework/cpu_allocator_impl.cc:82] Allocation of 15786624 exceeds 10% of free system memory.
2023-01-28 21:13:23.446366: W tensorflow/tsl/framework/cpu_allocator_impl.cc:82] Allocation of 15786624 exceeds 10% of free system memory.

7/7 [==============================] - ETA: 0s - loss: 0.6928 - accuracy: 0.4700 
7/7 [==============================] - 3s 89ms/step - loss: 0.6928 - accuracy: 0.4700 - val_loss: 0.6916 - val_accuracy: 0.4800

1/7 [===>..........................] - ETA: 16s - loss: 0.6936 - accuracy: 0.6250
5/7 [====================>.........] - ETA: 0s - loss: 0.6911 - accuracy: 0.5375 
7/7 [==============================] - 9s 1000ms/step - loss: 0.6907 - accuracy: 0.5200 - val_loss: 0.6910 - val_accuracy: 0.4800

1/7 [===>..........................] - ETA: 16s - loss: 0.7147 - accuracy: 0.3750
6/7 [========================>.....] - ETA: 0s - loss: 0.6978 - accuracy: 0.4688 
7/7 [==============================] - 3s 76ms/step - loss: 0.6975 - accuracy: 0.4700 - val_loss: 0.6918 - val_accuracy: 0.5300

1/1 [==============================] - ETA: 0s
1/1 [==============================] - 0s 277ms/step
[ FAIL 0 | WARN 1 | SKIP 0 | PASS 11 ]

[ FAIL 0 | WARN 1 | SKIP 0 | PASS 11 ]
> 
> proc.time()
   user  system elapsed 
100.799  11.904 147.893 

Example timings