R Under development (unstable) (2025-03-12 r87950 ucrt) -- "Unsuffered Consequences"
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> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
> 
> library(testthat)
> library(iRfcb)
> 
> test_check("iRfcb")
Creating temporary Python virtual environment for tests...
Using Python: C:/Users/CRAN/AppData/Local/r-reticulate/r-reticulate/pyenv/pyenv-win/versions/3.11.9/python.exe
Creating virtual environment "D:\temp\2025_03_13_22_50_17_25610\Rtmp8SRFsM/test-venv" ... 
+ "C:/Users/CRAN/AppData/Local/r-reticulate/r-reticulate/pyenv/pyenv-win/versions/3.11.9/python.exe" -m venv "D:/temp/2025_03_13_22_50_17_25610/Rtmp8SRFsM/test-venv"
Done!
Installing packages: pip, wheel, setuptools
+ "D:/temp/2025_03_13_22_50_17_25610/Rtmp8SRFsM/test-venv/Scripts/python.exe" -m pip install --upgrade pip wheel setuptools
Requirement already satisfied: pip in d:\temp\2025_03_13_22_50_17_25610\rtmp8srfsm\test-venv\lib\site-packages (24.0)
Collecting pip
  Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Requirement already satisfied: setuptools in d:\temp\2025_03_13_22_50_17_25610\rtmp8srfsm\test-venv\lib\site-packages (65.5.0)
Collecting setuptools
  Using cached setuptools-76.0.0-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-76.0.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: setuptools
    Found existing installation: setuptools 65.5.0
    Uninstalling setuptools-65.5.0:
      Successfully uninstalled setuptools-65.5.0
  Attempting uninstall: pip
    Found existing installation: pip 24.0
    Uninstalling pip-24.0:
      Successfully uninstalled pip-24.0
Successfully installed pip-25.0.1 setuptools-76.0.0 wheel-0.45.1
Installing packages per requirements file: D:\RCompile\CRANincoming\R-devel\lib\iRfcb\python\requirements.txt
+ "D:/temp/2025_03_13_22_50_17_25610/Rtmp8SRFsM/test-venv/Scripts/python.exe" -m pip install --upgrade --no-user -r "D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt"
Collecting scipy>=1.13.0 (from -r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 1))
  Using cached scipy-1.15.2-cp311-cp311-win_amd64.whl.metadata (60 kB)
Collecting pandas>=2.2.2 (from -r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 2))
  Using cached pandas-2.2.3-cp311-cp311-win_amd64.whl.metadata (19 kB)
Collecting matplotlib>=3.9.0 (from -r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 3))
  Using cached matplotlib-3.10.1-cp311-cp311-win_amd64.whl.metadata (11 kB)
Collecting numpy<2.5,>=1.23.5 (from scipy>=1.13.0->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 1))
  Using cached numpy-2.2.3-cp311-cp311-win_amd64.whl.metadata (60 kB)
Collecting python-dateutil>=2.8.2 (from pandas>=2.2.2->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 2))
  Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
Collecting pytz>=2020.1 (from pandas>=2.2.2->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 2))
  Using cached pytz-2025.1-py2.py3-none-any.whl.metadata (22 kB)
Collecting tzdata>=2022.7 (from pandas>=2.2.2->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 2))
  Using cached tzdata-2025.1-py2.py3-none-any.whl.metadata (1.4 kB)
Collecting contourpy>=1.0.1 (from matplotlib>=3.9.0->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 3))
  Using cached contourpy-1.3.1-cp311-cp311-win_amd64.whl.metadata (5.4 kB)
Collecting cycler>=0.10 (from matplotlib>=3.9.0->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 3))
  Using cached cycler-0.12.1-py3-none-any.whl.metadata (3.8 kB)
Collecting fonttools>=4.22.0 (from matplotlib>=3.9.0->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 3))
  Using cached fonttools-4.56.0-cp311-cp311-win_amd64.whl.metadata (103 kB)
Collecting kiwisolver>=1.3.1 (from matplotlib>=3.9.0->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 3))
  Using cached kiwisolver-1.4.8-cp311-cp311-win_amd64.whl.metadata (6.3 kB)
Collecting packaging>=20.0 (from matplotlib>=3.9.0->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 3))
  Using cached packaging-24.2-py3-none-any.whl.metadata (3.2 kB)
Collecting pillow>=8 (from matplotlib>=3.9.0->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 3))
  Using cached pillow-11.1.0-cp311-cp311-win_amd64.whl.metadata (9.3 kB)
Collecting pyparsing>=2.3.1 (from matplotlib>=3.9.0->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 3))
  Using cached pyparsing-3.2.1-py3-none-any.whl.metadata (5.0 kB)
Collecting six>=1.5 (from python-dateutil>=2.8.2->pandas>=2.2.2->-r D:/RCompile/CRANincoming/R-devel/lib/iRfcb/python/requirements.txt (line 2))
  Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
Using cached scipy-1.15.2-cp311-cp311-win_amd64.whl (41.2 MB)
Using cached pandas-2.2.3-cp311-cp311-win_amd64.whl (11.6 MB)
Using cached matplotlib-3.10.1-cp311-cp311-win_amd64.whl (8.1 MB)
Using cached contourpy-1.3.1-cp311-cp311-win_amd64.whl (219 kB)
Using cached cycler-0.12.1-py3-none-any.whl (8.3 kB)
Using cached fonttools-4.56.0-cp311-cp311-win_amd64.whl (2.2 MB)
Using cached kiwisolver-1.4.8-cp311-cp311-win_amd64.whl (71 kB)
Using cached numpy-2.2.3-cp311-cp311-win_amd64.whl (12.9 MB)
Using cached packaging-24.2-py3-none-any.whl (65 kB)
Using cached pillow-11.1.0-cp311-cp311-win_amd64.whl (2.6 MB)
Using cached pyparsing-3.2.1-py3-none-any.whl (107 kB)
Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
Using cached pytz-2025.1-py2.py3-none-any.whl (507 kB)
Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Installing collected packages: pytz, tzdata, six, pyparsing, pillow, packaging, numpy, kiwisolver, fonttools, cycler, scipy, python-dateutil, contourpy, pandas, matplotlib
Successfully installed contourpy-1.3.1 cycler-0.12.1 fonttools-4.56.0 kiwisolver-1.4.8 matplotlib-3.10.1 numpy-2.2.3 packaging-24.2 pandas-2.2.3 pillow-11.1.0 pyparsing-3.2.1 python-dateutil-2.9.0.post0 pytz-2025.1 scipy-1.15.2 six-1.17.0 tzdata-2025.1
Virtual environment 'D:\temp\2025_03_13_22_50_17_25610\Rtmp8SRFsM/test-venv' successfully created.
MANIFEST.txt has been created at D:\temp\2025_03_13_22_50_17_25610\Rtmp8SRFsM/mock_dir/test_data/MANIFEST.txt 
MANIFEST.txt has been created at D:\temp\2025_03_13_22_50_17_25610\Rtmp8SRFsM/mock_dir/test_data/MANIFEST.txt 
MANIFEST.txt has been created at D:\temp\2025_03_13_22_50_17_25610\Rtmp8SRFsM/mock_dir/test_data/MANIFEST.txt 

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[ FAIL 0 | WARN 0 | SKIP 52 | PASS 170 ]

══ Skipped tests (52) ══════════════════════════════════════════════════════════
• On CRAN (52): 'test-ifcb_adjust_classes.R:4:3',
  'test-ifcb_annotate_batch.R:5:3', 'test-ifcb_annotate_batch.R:67:3',
  'test-ifcb_correct_annotation.R:4:3', 'test-ifcb_correct_annotation.R:69:3',
  'test-ifcb_correct_annotation.R:125:3',
  'test-ifcb_correct_annotation.R:185:3',
  'test-ifcb_count_mat_annotations.R:3:3', 'test-ifcb_create_class2use.R:4:3',
  'test-ifcb_create_empty_manual_file.R:4:3',
  'test-ifcb_download_test_data.R:3:3',
  'test-ifcb_extract_annotated_images.R:2:3',
  'test-ifcb_extract_annotated_images.R:60:3',
  'test-ifcb_extract_biovolumes.R:18:3', 'test-ifcb_extract_biovolumes.R:49:3',
  'test-ifcb_extract_biovolumes.R:67:3', 'test-ifcb_extract_biovolumes.R:79:3',
  'test-ifcb_extract_biovolumes.R:95:3',
  'test-ifcb_extract_biovolumes.R:128:3',
  'test-ifcb_extract_biovolumes.R:163:3',
  'test-ifcb_extract_classified_images.R:2:3',
  'test-ifcb_extract_classified_images.R:48:3',
  'test-ifcb_extract_classified_images.R:84:3',
  'test-ifcb_extract_classified_images.R:119:3',
  'test-ifcb_extract_classified_images.R:153:3',
  'test-ifcb_extract_classified_images.R:192:3',
  'test-ifcb_extract_pngs.R:2:3', 'test-ifcb_get_mat_names.R:3:3',
  'test-ifcb_get_mat_names.R:19:3', 'test-ifcb_get_mat_names.R:33:3',
  'test-ifcb_get_mat_variable.R:3:3', 'test-ifcb_get_mat_variable.R:21:3',
  'test-ifcb_get_mat_variable.R:37:3', 'test-ifcb_get_runtime.R:60:3',
  'test-ifcb_is_diatom.R:3:3', 'test-ifcb_is_diatom.R:21:3',
  'test-ifcb_is_near_land.R:3:3', 'test-ifcb_match_taxa_names.R:3:3',
  'test-ifcb_match_taxa_names.R:21:3', 'test-ifcb_merge_manual.R:4:3',
  'test-ifcb_merge_manual.R:69:3', 'test-ifcb_psd.R:6:3',
  'test-ifcb_py_install.R:3:3', 'test-ifcb_py_install.R:35:3',
  'test-ifcb_replace_mat_values.R:4:3',
  'test-ifcb_summarize_biovolumes.R:13:3',
  'test-ifcb_summarize_biovolumes.R:47:3',
  'test-ifcb_summarize_biovolumes.R:65:3',
  'test-ifcb_summarize_biovolumes.R:107:3', 'test-ifcb_which_basin.R:37:3',
  'test-ifcb_zip_matlab.R:3:3', 'test-ifcb_zip_pngs.R:3:3'

[ FAIL 0 | WARN 0 | SKIP 52 | PASS 170 ]
Warning message:
In check_forbidden_install("Python Virtual Environments") :
  cannot install Python Virtual Environments during R CMD check
> 
> proc.time()
   user  system elapsed 
   7.90    1.20  103.87