Package: BiocNimfa2

Version: 0.0.1

Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:BiocNimfa2.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings BiocNimfa2_0.0.1.tar.gz

StartedAt: 2018-09-13 15:19:03 -0400 (Thu, 13 Sep 2018)

EndedAt: 2018-09-13 15:19:35 -0400 (Thu, 13 Sep 2018)

EllapsedTime: 32.0 seconds

RetCode: 1

Status:  ERROR

CheckDir: BiocNimfa2.Rcheck

Warnings: NA

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### Running command:
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###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:BiocNimfa2.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings BiocNimfa2_0.0.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/BiocNimfa2.Rcheck’
* using R Under development (unstable) (2018-08-20 r75173)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BiocNimfa2/DESCRIPTION’ ... OK
* this is package ‘BiocNimfa2’ version ‘0.0.1’
* 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 ‘BiocNimfa2’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Deprecated license: BSD
* 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 examples ... ERROR
Running examples in ‘BiocNimfa2-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: install_nimfa
> ### Title: Import python nimfa library for use in R
> ### Aliases: install_nimfa nimfa
> 
> ### ** Examples
> 
> nimfa = nimfa()
Error in py_module_import(module, convert = convert) : 
  ImportError: No module named nimfa
Calls: nimfa -> import -> py_module_import
Execution halted
* checking for unstated dependencies in ‘tests’ ... WARNING
'library' or 'require' call not declared from: ‘BiocNimfa’
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
  3: py_module_import(module, convert = convert)
  
  ── 2. Error: nimfa class is a python.builtin.module (@test_nimfa.R#17)  ────────
  ImportNo module named nimfa
  1: nimfa() at testthat/test_nimfa.R:17
  2: import("nimfa")
  3: py_module_import(module, convert = convert)
  
  ══ testthat results  ═══════════════════════════════════════════════════════════
  OK: 0 SKIPPED: 0 FAILED: 2
  1. Error: nimfa loads and performs basic test (@test_nimfa.R#4) 
  2. Error: nimfa class is a python.builtin.module (@test_nimfa.R#17) 
  
  Error: testthat unit tests failed
  Execution halted
* checking PDF version of manual ... OK
* DONE

Status: 2 ERRORs, 1 WARNING, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.8-bioc/meat/BiocNimfa2.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL BiocNimfa2
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* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’
* installing *source* package ‘BiocNimfa2’ ...
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (BiocNimfa2)

R Under development (unstable) (2018-08-20 r75173) -- "Unsuffered Consequences"
Copyright (C) 2018 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(BiocNimfa)
Loading required package: reticulate
> 
> test_check("BiocNimfa")
── 1. Error: nimfa loads and performs basic test (@test_nimfa.R#4)  ────────────
ImportNo module named nimfa
1: nimfa() at testthat/test_nimfa.R:4
2: import("nimfa")
3: py_module_import(module, convert = convert)

── 2. Error: nimfa class is a python.builtin.module (@test_nimfa.R#17)  ────────
ImportNo module named nimfa
1: nimfa() at testthat/test_nimfa.R:17
2: import("nimfa")
3: py_module_import(module, convert = convert)

══ testthat results  ═══════════════════════════════════════════════════════════
OK: 0 SKIPPED: 0 FAILED: 2
1. Error: nimfa loads and performs basic test (@test_nimfa.R#4) 
2. Error: nimfa class is a python.builtin.module (@test_nimfa.R#17) 

Error: testthat unit tests failed
Execution halted

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