<commit_before># R for travis
# https://docs.travis-ci.com/user/languages/r

language: r
cache: packages
warnings_are_errors: false

before_install:
- openssl aes-256-cbc -K $encrypted_edc1907ba0ad_key -iv $encrypted_edc1907ba0ad_iv -in tests/testthat/token.rds.enc -out tests/testthat/token.rds -d

# Temporarily enable when caching Bioconductor packages
# script: true

notifications:
  email:
    on_success: change
    on_failure: change

r:
  - bioc-release
  - bioc-devel

r_packages:
  - covr
  - DT
  - formatR
  - hexbin
  - rlang
  - testthat
  - tidyverse
bioc_packages:
  - BiocCheck

after_success:
  - Rscript -e 'covr::codecov()'
  - R CMD BiocCheck .
  - pwd
  - cd ..
  - git clone https://github.com/bcbio/bcbio_rnaseq_output_example.git
  - cd bcbio_rnaseq_output_example
  - Rscript -e 'devtools::install_local("../bcbioRNASeq")'
  - Rscript -e 'testthat::test_file("test_reports.R")'
  - cd report
  - mv de.html de-${TRAVIS_BRANCH}.html
  - mv qc.html qc-${TRAVIS_BRANCH}.html
  - mv fa.html fa-${TRAVIS_BRANCH}.html
  - cd ..
  - cp ../bcbioRNASeq/.push.sh push.sh
  - chmod +x push.sh
  - ./push.sh
<commit_msg>Just test against bioc-release for time being<commit_after># R for travis
# https://docs.travis-ci.com/user/languages/r

language: r
cache: packages
warnings_are_errors: false

before_install:
- openssl aes-256-cbc -K $encrypted_edc1907ba0ad_key -iv $encrypted_edc1907ba0ad_iv -in tests/testthat/token.rds.enc -out tests/testthat/token.rds -d

# Temporarily enable when caching Bioconductor packages
# script: true

notifications:
  email:
    on_success: change
    on_failure: change

r:
  - bioc-release
  # - bioc-devel

r_packages:
  - covr
  - DT
  - formatR
  - hexbin
  - rlang
  - testthat
  - tidyverse
bioc_packages:
  - BiocCheck

after_success:
  - Rscript -e 'covr::codecov()'
  - R CMD BiocCheck .
  - pwd
  - cd ..
  - git clone https://github.com/bcbio/bcbio_rnaseq_output_example.git
  - cd bcbio_rnaseq_output_example
  - Rscript -e 'devtools::install_local("../bcbioRNASeq")'
  - Rscript -e 'testthat::test_file("test_reports.R")'
  - cd report
  - mv de.html de-${TRAVIS_BRANCH}.html
  - mv qc.html qc-${TRAVIS_BRANCH}.html
  - mv fa.html fa-${TRAVIS_BRANCH}.html
  - cd ..
  - cp ../bcbioRNASeq/.push.sh push.sh
  - chmod +x push.sh
  - ./push.sh

{'fraction_non_alphanumeric': 0.1267361111111111, 'fraction_numerical': 0.011284722222222222, 'mean_word_length': 3.0509666080843587, 'pattern_counts': {'":': 0, '<': 3, '<?xml version=': 0, '>': 3, 'https://': 4, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '3157749', 'n_tokens_mistral': 983, 'n_tokens_neox': 950, 'n_words': 184}