[ci] [docs] readthedocs build broken: Could not find LibR #3045

jameslamb · 2020-05-04T00:08:52Z

-- The C compiler identification is GNU 7.3.0
-- The CXX compiler identification is GNU 7.3.0
-- Check for working C compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-cc
-- Check for working C compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-c++
-- Check for working CXX compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring incomplete, errors occurred!
See also "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/lightgbm_r/src/build/CMakeFiles/CMakeOutput.log".

Updating lightgbm documentation
Loading lightgbm
Re-compiling lightgbm
'/home/docs/.conda/envs/r_env/lib/R/bin/R' --no-site-file --no-environ  \
  --no-save --no-restore --quiet CMD INSTALL  \
  '/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/lightgbm_r'  \
  --library='/tmp/RtmpT7BLvD/devtools_install_be97189381e' --no-R --no-data  \
  --no-help --no-demo --no-inst --no-docs --no-exec --no-multiarch  \
  --no-test-load --preclean 

* installing *source* package ‘lightgbm’ ...
** libs
installing via 'install.libs.R' to /tmp/RtmpT7BLvD/devtools_install_be97189381e/lightgbm
R version passed into FindLibR.cmake: 3.5.1
CMake Error at /home/docs/.conda/envs/r_env/share/cmake-3.14/Modules/FindPackageHandleStandardArgs.cmake:137 (message):
  Could NOT find LibR (missing: LIBR_CORE_LIBRARY)
Call Stack (most recent call first):
  /home/docs/.conda/envs/r_env/share/cmake-3.14/Modules/FindPackageHandleStandardArgs.cmake:378 (_FPHSA_FAILURE_MESSAGE)
  cmake/modules/FindLibR.cmake:221 (find_package_handle_standard_args)
  CMakeLists.txt:76 (find_package)


make: *** No rule to make target '_lightgbm'.  Stop.
Error in eval(ei, envir) : Cannot find lib_lightgbm.so
* removing ‘/tmp/RtmpT7BLvD/devtools_install_be97189381e/lightgbm’
Error: Command failed (1)
Execution halted

Full logs (clickable):

Read the Docs build information
Build id: 10956193
Project: lightgbm
Version: latest
Commit: 6823af945390ba89b66d7e579501dc87e3cc6162
Date: 2020-05-03T02:56:29.295286Z
State: finished
Success: False


[rtd-command-info] start-time: 2020-05-03T02:56:35.508728Z, end-time: 2020-05-03T02:56:37.804356Z, duration: 2, exit-code: 0
git clone --no-single-branch --depth 50 https://github.com/Microsoft/LightGBM .
Cloning into '.'...

[rtd-command-info] start-time: 2020-05-03T02:56:38.204370Z, end-time: 2020-05-03T02:56:38.583519Z, duration: 0, exit-code: 0
git checkout --force origin/master
Note: checking out 'origin/master'.

You are in 'detached HEAD' state. You can look around, make experimental
changes and commit them, and you can discard any commits you make in this
state without impacting any branches by performing another checkout.

If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -b with the checkout command again. Example:

  git checkout -b <new-branch-name>

HEAD is now at 6823af9 [docs] updated bug report template (#3032)

[rtd-command-info] start-time: 2020-05-03T02:56:38.743686Z, end-time: 2020-05-03T02:56:38.995877Z, duration: 0, exit-code: 0
git clean -d -f -f


[rtd-command-info] start-time: 2020-05-03T02:56:42.124059Z, end-time: 2020-05-03T02:56:46.975182Z, duration: 4, exit-code: 0
python3.7 -mvirtualenv  /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest
Using base prefix '/home/docs/.pyenv/versions/3.7.3'
New python executable in /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/bin/python3.7
Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/bin/python
Installing setuptools, pip, wheel...
done.

[rtd-command-info] start-time: 2020-05-03T02:56:47.163401Z, end-time: 2020-05-03T02:56:48.094174Z, duration: 0, exit-code: 0
/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/bin/python -m pip install --upgrade --no-cache-dir pip
Requirement already up-to-date: pip in /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/lib/python3.7/site-packages (20.1)

[rtd-command-info] start-time: 2020-05-03T02:56:48.266392Z, end-time: 2020-05-03T02:57:00.822122Z, duration: 12, exit-code: 0
/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/bin/python -m pip install --upgrade --no-cache-dir Pygments==2.3.1 setuptools==41.0.1 docutils==0.14 mock==1.0.1 pillow==5.4.1 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.8.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<1.1
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Building wheels for collected packages: mock, future
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  Stored in directory: /tmp/pip-ephem-wheel-cache-aeax0maq/wheels/16/03/37/f0a64ab894c9102906f192db1a4071b7592292ad661563c69b
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  Stored in directory: /tmp/pip-ephem-wheel-cache-aeax0maq/wheels/56/b0/fe/4410d17b32f1f0c3cf54cdfb2bc04d7b4b8f4ae377e2229ba0
Successfully built mock future
Installing collected packages: Pygments, setuptools, docutils, mock, pillow, alabaster, future, commonmark, snowballstemmer, certifi, chardet, urllib3, idna, requests, imagesize, six, pyparsing, packaging, pytz, babel, sphinxcontrib-websupport, MarkupSafe, Jinja2, sphinx, recommonmark, sphinx-rtd-theme, readthedocs-sphinx-ext
  Attempting uninstall: setuptools
    Found existing installation: setuptools 46.1.3
    Uninstalling setuptools-46.1.3:
      Successfully uninstalled setuptools-46.1.3
Successfully installed Jinja2-2.11.2 MarkupSafe-1.1.1 Pygments-2.3.1 alabaster-0.7.12 babel-2.8.0 certifi-2020.4.5.1 chardet-3.0.4 commonmark-0.8.1 docutils-0.14 future-0.18.2 idna-2.9 imagesize-1.2.0 mock-1.0.1 packaging-20.3 pillow-5.4.1 pyparsing-2.4.7 pytz-2020.1 readthedocs-sphinx-ext-1.0.3 recommonmark-0.5.0 requests-2.23.0 setuptools-41.0.1 six-1.14.0 snowballstemmer-2.0.0 sphinx-1.8.5 sphinx-rtd-theme-0.4.3 sphinxcontrib-websupport-1.2.2 urllib3-1.25.9

[rtd-command-info] start-time: 2020-05-03T02:57:00.954635Z, end-time: 2020-05-03T02:57:05.325175Z, duration: 4, exit-code: 0
/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/bin/python -m pip install --exists-action=w --no-cache-dir -r docs/requirements_rtd.txt
Ignoring mock: markers 'python_version < "3"' don't match your environment
Collecting sphinx>=3.0.2
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Installing collected packages: sphinxcontrib-applehelp, sphinxcontrib-htmlhelp, sphinxcontrib-serializinghtml, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-devhelp, sphinx, breathe
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Successfully installed breathe-4.18.0 sphinx-3.0.3 sphinxcontrib-applehelp-1.0.2 sphinxcontrib-devhelp-1.0.2 sphinxcontrib-htmlhelp-1.0.3 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-1.0.3 sphinxcontrib-serializinghtml-1.1.4

[rtd-command-info] start-time: 2020-05-03T02:57:06.498301Z, end-time: 2020-05-03T02:57:06.732298Z, duration: 0, exit-code: 0
cat docs/conf.py
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# LightGBM documentation build configuration file, created by
# sphinx-quickstart on Thu May  4 14:30:58 2017.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
# autogenerated file.
#
# All configuration values have a default; values that are commented out
# serve to show the default.

# If extensions (or modules to document with autodoc) are in another directory,
# add these directories to sys.path here. If the directory is relative to the
# documentation root, use os.path.abspath to make it absolute.
"""Sphinx configuration file."""
import datetime
import os
import sys
import sphinx

from distutils.dir_util import copy_tree
from docutils.parsers.rst import Directive
from sphinx.errors import VersionRequirementError
from subprocess import PIPE, Popen

CURR_PATH = os.path.abspath(os.path.dirname(__file__))
LIB_PATH = os.path.join(CURR_PATH, os.path.pardir, 'python-package')
sys.path.insert(0, LIB_PATH)

# -- mock out modules
try:
    from unittest.mock import Mock  # Python 3.x
except ImportError:
    from mock import Mock  # Python 2.x

MOCK_MODULES = ['numpy', 'scipy', 'scipy.sparse',
                'sklearn', 'matplotlib', 'pandas', 'graphviz']
for mod_name in MOCK_MODULES:
    sys.modules[mod_name] = Mock()


class IgnoredDirective(Directive):
    """Stub for unknown directives."""

    has_content = True

    def run(self):
        """Do nothing."""
        return []


# -- General configuration ------------------------------------------------

os.environ['LIGHTGBM_BUILD_DOC'] = '1'
C_API = os.environ.get('C_API', '').lower().strip() != 'no'
RTD = bool(os.environ.get('READTHEDOCS', ''))

# If your documentation needs a minimal Sphinx version, state it here.
needs_sphinx = '1.3'  # Due to sphinx.ext.napoleon
if needs_sphinx > sphinx.__version__:
    message = 'This project needs at least Sphinx v%s' % needs_sphinx
    raise VersionRequirementError(message)

# Add any Sphinx extension module names here, as strings. They can be
# extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
# ones.
extensions = [
    'sphinx.ext.autodoc',
    'sphinx.ext.autosummary',
    'sphinx.ext.todo',
    'sphinx.ext.viewcode',
    'sphinx.ext.napoleon',
]

autodoc_default_flags = ['members', 'inherited-members', 'show-inheritance']
autodoc_default_options = {
    "members": True,
    "inherited-members": True,
    "show-inheritance": True,
}

# Generate autosummary pages. Output should be set with: `:toctree: pythonapi/`
autosummary_generate = ['Python-API.rst']

# Only the class' docstring is inserted.
autoclass_content = 'class'

# If true, `todo` and `todoList` produce output, else they produce nothing.
todo_include_todos = False

# The master toctree document.
master_doc = 'index'

# General information about the project.
project = 'LightGBM'
copyright = '%s, Microsoft Corporation' % str(datetime.datetime.now().year)
author = 'Microsoft Corporation'

# The version info for the project you're documenting, acts as replacement for
# |version| and |release|, also used in various other places throughout the
# built documents.
with open(os.path.join(CURR_PATH, os.path.pardir, 'VERSION.txt'), 'r') as f:
    # The short X.Y version.
    version = f.read().strip()

    # The full version, including alpha/beta/rc tags.
    release = version

# The language for content autogenerated by Sphinx. Refer to documentation
# for a list of supported languages.
#
# This is also used if you do content translation via gettext catalogs.
# Usually you set "language" from the command line for these cases.
language = None

# List of patterns, relative to source directory, that match files and
# directories to ignore when looking for source files.
# This patterns also effect to html_static_path and html_extra_path
exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store']

# The name of the Pygments (syntax highlighting) style to use.
pygments_style = 'default'

# -- Configuration for C API docs generation ------------------------------

if C_API:
    extensions.extend([
        'breathe',
    ])
    breathe_projects = {
        "LightGBM": os.path.join(CURR_PATH, 'doxyoutput', 'xml')
    }
    breathe_default_project = "LightGBM"
    breathe_domain_by_extension = {
        "h": "c",
    }
    breathe_show_define_initializer = True
    c_id_attributes = ['LIGHTGBM_C_EXPORT']

# -- Options for HTML output ----------------------------------------------

# The theme to use for HTML and HTML Help pages.  See the documentation for
# a list of builtin themes.
html_theme = 'sphinx_rtd_theme'

# Theme options are theme-specific and customize the look and feel of a theme
# further.  For a list of options available for each theme, see the
# documentation.
html_theme_options = {
    'includehidden': False,
}

# Add any paths that contain custom static files (such as style sheets) here,
# relative to this directory. They are copied after the builtin static files,
# so a file named "default.css" will overwrite the builtin "default.css".
html_static_path = ['_static']

# -- Options for HTMLHelp output ------------------------------------------

# Output file base name for HTML help builder.
htmlhelp_basename = 'LightGBMdoc'


def generate_doxygen_xml(app):
    """Generate XML documentation for C API by Doxygen.

    Parameters
    ----------
    app : object
        The application object representing the Sphinx process.
    """
    doxygen_args = [
        "INPUT={}".format(os.path.join(CURR_PATH, os.path.pardir,
                                       'include', 'LightGBM', 'c_api.h')),
        "OUTPUT_DIRECTORY={}".format(os.path.join(CURR_PATH, 'doxyoutput')),
        "GENERATE_HTML=NO",
        "GENERATE_LATEX=NO",
        "GENERATE_XML=YES",
        "XML_OUTPUT=xml",
        "XML_PROGRAMLISTING=YES",
        r'ALIASES="rst=\verbatim embed:rst:leading-asterisk"',
        r'ALIASES+="endrst=\endverbatim"',
        "ENABLE_PREPROCESSING=YES",
        "MACRO_EXPANSION=YES",
        "EXPAND_ONLY_PREDEF=NO",
        "SKIP_FUNCTION_MACROS=NO",
        "SORT_BRIEF_DOCS=YES",
        "WARN_AS_ERROR=YES",
    ]
    doxygen_input = '\n'.join(doxygen_args)
    is_py3 = sys.version[0] == "3"
    if is_py3:
        doxygen_input = bytes(doxygen_input, "utf-8")
    if not os.path.exists(os.path.join(CURR_PATH, 'doxyoutput')):
        os.makedirs(os.path.join(CURR_PATH, 'doxyoutput'))
    try:
        # Warning! The following code can cause buffer overflows on RTD.
        # Consider suppressing output completely if RTD project silently fails.
        # Refer to https://github.com/svenevs/exhale
        # /blob/fe7644829057af622e467bb529db6c03a830da99/exhale/deploy.py#L99-L111
        process = Popen(["doxygen", "-"],
                        stdin=PIPE, stdout=PIPE, stderr=PIPE)
        stdout, stderr = process.communicate(doxygen_input)
        output = '\n'.join([i.decode('utf-8') if is_py3 else i
                            for i in (stdout, stderr) if i is not None])
        if process.returncode != 0:
            raise RuntimeError(output)
        else:
            print(output)
    except BaseException as e:
        raise Exception("An error has occurred while executing Doxygen\n" + str(e))


def generate_r_docs(app):
    """Generate documentation for R-package.

    Parameters
    ----------
    app : object
        The application object representing the Sphinx process.
    """
    commands = """
    echo 'options(repos = "https://cran.rstudio.com")' > $HOME/.Rprofile
    /home/docs/.conda/bin/conda create -q -y -n r_env \
        r-base=3.5.1=h1e0a451_2 \
        r-devtools=1.13.6=r351h6115d3f_0 \
        r-jsonlite=1.5=r351h96ca727_0 \
        r-matrix=1.2_14=r351h96ca727_0 \
        r-testthat=2.0.0=r351h29659fb_0 \
        cmake=3.14.0=h52cb24c_0 \
        ca-certificates=2019.11.27=0
    /home/docs/.conda/bin/conda install -q -y -n r_env -c conda-forge \
        r-data.table=1.12.8=r35hcdcec82_0 \
        r-pkgdown=1.3.0=r35h6115d3f_1001 \
        r-roxygen2=6.1.1=r35h0357c0b_1001
    source /home/docs/.conda/bin/activate r_env
    export TAR=/bin/tar
    cd {0}
    sed -i'.bak' '/# Build the package (do not touch this line!)/q' build_r.R
    Rscript build_r.R
    Rscript build_r_site.R
    """.format(os.path.join(CURR_PATH, os.path.pardir))
    try:
        # Warning! The following code can cause buffer overflows on RTD.
        # Consider suppressing output completely if RTD project silently fails.
        # Refer to https://github.com/svenevs/exhale
        # /blob/fe7644829057af622e467bb529db6c03a830da99/exhale/deploy.py#L99-L111
        process = Popen(['/bin/bash'],
                        stdin=PIPE, stdout=PIPE, stderr=PIPE,
                        universal_newlines=True)
        stdout, stderr = process.communicate(commands)
        output = '\n'.join([i for i in (stdout, stderr) if i is not None])
        if process.returncode != 0:
            raise RuntimeError(output)
        else:
            print(output)
    except BaseException as e:
        raise Exception("An error has occurred while generating documentation for R-package\n" + str(e))


def setup(app):
    """Add new elements at Sphinx initialization time.

    Parameters
    ----------
    app : object
        The application object representing the Sphinx process.
    """
    first_run = not os.path.exists(os.path.join(CURR_PATH, '_FIRST_RUN.flag'))
    if first_run and RTD:
        open(os.path.join(CURR_PATH, '_FIRST_RUN.flag'), 'w').close()
    if C_API:
        app.connect("builder-inited", generate_doxygen_xml)
    else:
        app.add_directive('doxygenfile', IgnoredDirective)
    if RTD:  # build R docs only on Read the Docs site
        if first_run:
            app.connect("builder-inited", generate_r_docs)
        app.connect("build-finished",
                    lambda app, exception: copy_tree(os.path.join(CURR_PATH, os.path.pardir, "lightgbm_r", "docs"),
                                                     os.path.join(app.outdir, "R"), verbose=0))
    add_js_file = getattr(app, 'add_js_file', False) or app.add_javascript
    add_js_file("js/script.js")




###########################################################################
#          auto-created readthedocs.org specific configuration            #
###########################################################################


#
# The following code was added during an automated build on readthedocs.org
# It is auto created and injected for every build. The result is based on the
# conf.py.tmpl file found in the readthedocs.org codebase:
# https://github.com/rtfd/readthedocs.org/blob/master/readthedocs/doc_builder/templates/doc_builder/conf.py.tmpl
#


import importlib
import sys
import os.path
from six import string_types

from sphinx import version_info

# Get suffix for proper linking to GitHub
# This is deprecated in Sphinx 1.3+,
# as each page can have its own suffix
if globals().get('source_suffix', False):
    if isinstance(source_suffix, string_types):
        SUFFIX = source_suffix
    elif isinstance(source_suffix, (list, tuple)):
        # Sphinx >= 1.3 supports list/tuple to define multiple suffixes
        SUFFIX = source_suffix[0]
    elif isinstance(source_suffix, dict):
        # Sphinx >= 1.8 supports a mapping dictionary for multiple suffixes
        SUFFIX = list(source_suffix.keys())[0]  # make a ``list()`` for py2/py3 compatibility
    else:
        # default to .rst
        SUFFIX = '.rst'
else:
    SUFFIX = '.rst'

# Add RTD Static Path. Add to the end because it overwrites previous files.
if not 'html_static_path' in globals():
    html_static_path = []
if os.path.exists('_static'):
    html_static_path.append('_static')

# Add RTD Theme only if they aren't overriding it already
using_rtd_theme = (
    (
        'html_theme' in globals() and
        html_theme in ['default'] and
        # Allow people to bail with a hack of having an html_style
        'html_style' not in globals()
    ) or 'html_theme' not in globals()
)
if using_rtd_theme:
    theme = importlib.import_module('sphinx_rtd_theme')
    html_theme = 'sphinx_rtd_theme'
    html_style = None
    html_theme_options = {}
    if 'html_theme_path' in globals():
        html_theme_path.append(theme.get_html_theme_path())
    else:
        html_theme_path = [theme.get_html_theme_path()]

if globals().get('websupport2_base_url', False):
    websupport2_base_url = 'https://readthedocs.org/websupport'
    websupport2_static_url = 'https://assets.readthedocs.org/static/'


#Add project information to the template context.
context = {
    'using_theme': using_rtd_theme,
    'html_theme': html_theme,
    'current_version': "latest",
    'version_slug': "latest",
    'MEDIA_URL': "https://media.readthedocs.org/",
    'STATIC_URL': "https://assets.readthedocs.org/static/",
    'PRODUCTION_DOMAIN': "readthedocs.org",
    'versions': [
    ("latest", "/en/latest/"),
    ],
    'downloads': [ 
    ("pdf", "//lightgbm.readthedocs.io/_/downloads/en/latest/pdf/"),
    ],
    'subprojects': [ 
    ],
    'slug': 'lightgbm',
    'name': u'lightgbm',
    'rtd_language': u'en',
    'programming_language': u'cpp',
    'canonical_url': 'https://lightgbm.readthedocs.io/en/latest/',
    'analytics_code': 'None',
    'single_version': False,
    'conf_py_path': '/docs/',
    'api_host': 'https://readthedocs.org',
    'github_user': 'Microsoft',
    'github_repo': 'LightGBM',
    'github_version': 'master',
    'display_github': True,
    'bitbucket_user': 'None',
    'bitbucket_repo': 'None',
    'bitbucket_version': 'master',
    'display_bitbucket': False,
    'gitlab_user': 'None',
    'gitlab_repo': 'None',
    'gitlab_version': 'master',
    'display_gitlab': False,
    'READTHEDOCS': True,
    'using_theme': (html_theme == "default"),
    'new_theme': (html_theme == "sphinx_rtd_theme"),
    'source_suffix': SUFFIX,
    'ad_free': False,
    'user_analytics_code': '',
    'global_analytics_code': 'UA-17997319-1',
    'commit': '6823af94',
}




if 'html_context' in globals():
    
    html_context.update(context)
    
else:
    html_context = context

# Add custom RTD extension
if 'extensions' in globals():
    # Insert at the beginning because it can interfere
    # with other extensions.
    # See https://github.com/rtfd/readthedocs.org/pull/4054
    extensions.insert(0, "readthedocs_ext.readthedocs")
else:
    extensions = ["readthedocs_ext.readthedocs"]

# Add External version warning banner to the external version documentation
if 'branch' == 'external':
    extensions.insert(1, "readthedocs_ext.external_version_warning")

project_language = 'en'

# User's Sphinx configurations
language_user = globals().get('language', None)
latex_engine_user = globals().get('latex_engine', None)
latex_elements_user = globals().get('latex_elements', None)

# Remove this once xindy gets installed in Docker image and XINDYOPS
# env variable is supported
# https://github.com/rtfd/readthedocs-docker-images/pull/98
latex_use_xindy = False

chinese = any([
    language_user in ('zh_CN', 'zh_TW'),
    project_language in ('zh_CN', 'zh_TW'),
])

japanese = any([
    language_user == 'ja',
    project_language == 'ja',
])

if chinese:
    latex_engine = latex_engine_user or 'xelatex'

    latex_elements_rtd = {
        'preamble': '\\usepackage[UTF8]{ctex}\n',
    }
    latex_elements = latex_elements_user or latex_elements_rtd
elif japanese:
    latex_engine = latex_engine_user or 'platex'

[rtd-command-info] start-time: 2020-05-03T02:57:06.861359Z, end-time: 2020-05-03T03:00:33.319705Z, duration: 206, exit-code: 2
python /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/bin/sphinx-build -T -E -W -b readthedocs -d _build/doctrees-readthedocs -D language=en . _build/html
Running Sphinx v3.0.3
loading translations [en]... done
making output directory... done
[autosummary] generating autosummary for: Python-API.rst
[autosummary] generating autosummary for: /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.Booster.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.Dataset.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.LGBMClassifier.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.LGBMModel.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.LGBMRanker.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.LGBMRegressor.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.create_tree_digraph.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.cv.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.early_stopping.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.plot_importance.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.plot_metric.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.plot_split_value_histogram.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.plot_tree.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.print_evaluation.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.record_evaluation.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.reset_parameter.rst, /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/pythonapi/lightgbm.train.rst
/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/lib/python3.7/site-packages/sphinx/deprecation.py:52: RemovedInSphinx40Warning: sphinx.builders.html.DirectoryHTMLBuilder is deprecated. Check CHANGES for Sphinx API modifications.
  return getattr(self._module, name)
/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/lib/python3.7/site-packages/readthedocs_ext/readthedocs.py:14: RemovedInSphinx40Warning: sphinx.builders.html.SingleFileHTMLBuilder is deprecated. Check CHANGES for Sphinx API modifications.
  from sphinx.builders.html import (DirectoryHTMLBuilder, SingleFileHTMLBuilder,

Traceback (most recent call last):
  File "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/conf.py", line 258, in generate_r_docs
    raise RuntimeError(output)
RuntimeError: Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /home/docs/.conda/envs/r_env

  added / updated specs:
    - ca-certificates==2019.11.27=0
    - cmake==3.14.0=h52cb24c_0
    - r-base==3.5.1=h1e0a451_2
    - r-devtools==1.13.6=r351h6115d3f_0
    - r-jsonlite==1.5=r351h96ca727_0
    - r-matrix==1.2_14=r351h96ca727_0
    - r-testthat==2.0.0=r351h29659fb_0


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    _r-mutex-1.0.0             |      anacondar_1           3 KB
    binutils_impl_linux-64-2.33.1|       he6710b0_7         3.7 MB
    binutils_linux-64-2.33.1   |      h9595d00_15          26 KB
    bwidget-1.9.11             |                1         116 KB
    bzip2-1.0.8                |       h7b6447c_0          78 KB
    ca-certificates-2019.11.27 |                0         124 KB
    cairo-1.14.12              |       h8948797_3         906 KB
    cmake-3.14.0               |       h52cb24c_0         5.5 MB
    curl-7.67.0                |       hbc83047_0         134 KB
    expat-2.2.6                |       he6710b0_0         146 KB
    fontconfig-2.13.0          |       h9420a91_0         227 KB
    freetype-2.9.1             |       h8a8886c_1         550 KB
    fribidi-1.0.5              |       h7b6447c_0         101 KB
    gcc_impl_linux-64-7.3.0    |       habb00fd_1        41.9 MB
    gcc_linux-64-7.3.0         |      h553295d_15          27 KB
    gfortran_impl_linux-64-7.3.0|       hdf63c60_1         7.8 MB
    gfortran_linux-64-7.3.0    |      h553295d_15          27 KB
    glib-2.63.1                |       h5a9c865_0         2.9 MB
    graphite2-1.3.13           |       h23475e2_0          98 KB
    gsl-2.4                    |       h14c3975_4         1.8 MB
    gxx_impl_linux-64-7.3.0    |       hdf63c60_1        15.0 MB
    gxx_linux-64-7.3.0         |      h553295d_15          26 KB
    harfbuzz-1.8.8             |       hffaf4a1_0         507 KB
    icu-58.2                   |       he6710b0_3        10.5 MB
    jpeg-9b                    |       h024ee3a_2         214 KB
    krb5-1.16.4                |       h173b8e3_0         1.2 MB
    ld_impl_linux-64-2.33.1    |       h53a641e_7         568 KB
    libcurl-7.67.0             |       h20c2e04_0         426 KB
    libgfortran-ng-7.3.0       |       hdf63c60_0        1006 KB
    libpng-1.6.37              |       hbc83047_0         278 KB
    libssh2-1.9.0              |       h1ba5d50_1         269 KB
    libtiff-4.1.0              |       h2733197_0         447 KB
    libuuid-1.0.3              |       h1bed415_2          15 KB
    libxcb-1.13                |       h1bed415_1         421 KB
    libxml2-2.9.9              |       hea5a465_1         1.6 MB
    make-4.2.1                 |       h1bed415_1         415 KB
    ncurses-6.2                |       he6710b0_1         817 KB
    openssl-1.1.1g             |       h7b6447c_0         2.5 MB
    pango-1.42.4               |       h049681c_0         464 KB
    pcre-8.43                  |       he6710b0_0         209 KB
    pixman-0.38.0              |       h7b6447c_0         364 KB
    r-assertthat-0.2.0         |   r351h6115d3f_0          55 KB
    r-base-3.5.1               |       h1e0a451_2        26.5 MB
    r-cli-1.0.0                |   r351h6115d3f_1         310 KB
    r-crayon-1.3.4             |   r351h6115d3f_0         729 KB
    r-curl-3.2                 |   r351hadc6856_1         374 KB
    r-devtools-1.13.6          |   r351h6115d3f_0         665 KB
    r-digest-0.6.15            |   r351h96ca727_0         138 KB
    r-git2r-0.23.0             |   r351h96ca727_1         804 KB
    r-httr-1.3.1               |   r351h6115d3f_1         421 KB
    r-jsonlite-1.5             |   r351h96ca727_0         632 KB
    r-lattice-0.20_35          |   r351h96ca727_0         1.1 MB
    r-magrittr-1.5             |   r351h6115d3f_4         157 KB
    r-matrix-1.2_14            |   r351h96ca727_0         3.3 MB
    r-memoise-1.1.0            |   r351h6115d3f_0          38 KB
    r-mime-0.5                 |   r351h96ca727_0          37 KB
    r-openssl-1.0.2            |   r351h96ca727_1         588 KB
    r-praise-1.0.0             |   r351h6115d3f_4          21 KB
    r-r6-2.2.2                 |   r351h6115d3f_0         245 KB
    r-rlang-0.2.1              |   r351h96ca727_0         744 KB
    r-rstudioapi-0.7           |   r351h6115d3f_0         126 KB
    r-testthat-2.0.0           |   r351h29659fb_0         879 KB
    r-whisker-0.3_2            |   r351hf348343_4          63 KB
    r-withr-2.1.2              |   r351h6115d3f_0         149 KB
    rhash-1.3.8                |       h1ba5d50_0         188 KB
    tktable-2.10               |       h14c3975_0          86 KB
    xz-5.2.5                   |       h7b6447c_0         438 KB
    zstd-1.3.7                 |       h0b5b093_0         401 KB
    ------------------------------------------------------------
                                           Total:       142.0 MB

The following NEW packages will be INSTALLED:

  _libgcc_mutex      pkgs/main/linux-64::_libgcc_mutex-0.1-main
  _r-mutex           pkgs/r/linux-64::_r-mutex-1.0.0-anacondar_1
  binutils_impl_lin~ pkgs/main/linux-64::binutils_impl_linux-64-2.33.1-he6710b0_7
  binutils_linux-64  pkgs/main/linux-64::binutils_linux-64-2.33.1-h9595d00_15
  bwidget            pkgs/main/linux-64::bwidget-1.9.11-1
  bzip2              pkgs/main/linux-64::bzip2-1.0.8-h7b6447c_0
  ca-certificates    pkgs/main/linux-64::ca-certificates-2019.11.27-0
  cairo              pkgs/main/linux-64::cairo-1.14.12-h8948797_3
  cmake              pkgs/main/linux-64::cmake-3.14.0-h52cb24c_0
  curl               pkgs/main/linux-64::curl-7.67.0-hbc83047_0
  expat              pkgs/main/linux-64::expat-2.2.6-he6710b0_0
  fontconfig         pkgs/main/linux-64::fontconfig-2.13.0-h9420a91_0
  freetype           pkgs/main/linux-64::freetype-2.9.1-h8a8886c_1
  fribidi            pkgs/main/linux-64::fribidi-1.0.5-h7b6447c_0
  gcc_impl_linux-64  pkgs/main/linux-64::gcc_impl_linux-64-7.3.0-habb00fd_1
  gcc_linux-64       pkgs/main/linux-64::gcc_linux-64-7.3.0-h553295d_15
  gfortran_impl_lin~ pkgs/main/linux-64::gfortran_impl_linux-64-7.3.0-hdf63c60_1
  gfortran_linux-64  pkgs/main/linux-64::gfortran_linux-64-7.3.0-h553295d_15
  glib               pkgs/main/linux-64::glib-2.63.1-h5a9c865_0
  graphite2          pkgs/main/linux-64::graphite2-1.3.13-h23475e2_0
  gsl                pkgs/main/linux-64::gsl-2.4-h14c3975_4
  gxx_impl_linux-64  pkgs/main/linux-64::gxx_impl_linux-64-7.3.0-hdf63c60_1
  gxx_linux-64       pkgs/main/linux-64::gxx_linux-64-7.3.0-h553295d_15
  harfbuzz           pkgs/main/linux-64::harfbuzz-1.8.8-hffaf4a1_0
  icu                pkgs/main/linux-64::icu-58.2-he6710b0_3
  jpeg               pkgs/main/linux-64::jpeg-9b-h024ee3a_2
  krb5               pkgs/main/linux-64::krb5-1.16.4-h173b8e3_0
  ld_impl_linux-64   pkgs/main/linux-64::ld_impl_linux-64-2.33.1-h53a641e_7
  libcurl            pkgs/main/linux-64::libcurl-7.67.0-h20c2e04_0
  libedit            pkgs/main/linux-64::libedit-3.1.20181209-hc058e9b_0
  libffi             pkgs/main/linux-64::libffi-3.2.1-hd88cf55_4
  libgcc-ng          pkgs/main/linux-64::libgcc-ng-9.1.0-hdf63c60_0
  libgfortran-ng     pkgs/main/linux-64::libgfortran-ng-7.3.0-hdf63c60_0
  libpng             pkgs/main/linux-64::libpng-1.6.37-hbc83047_0
  libssh2            pkgs/main/linux-64::libssh2-1.9.0-h1ba5d50_1
  libstdcxx-ng       pkgs/main/linux-64::libstdcxx-ng-9.1.0-hdf63c60_0
  libtiff            pkgs/main/linux-64::libtiff-4.1.0-h2733197_0
  libuuid            pkgs/main/linux-64::libuuid-1.0.3-h1bed415_2
  libxcb             pkgs/main/linux-64::libxcb-1.13-h1bed415_1
  libxml2            pkgs/main/linux-64::libxml2-2.9.9-hea5a465_1
  make               pkgs/main/linux-64::make-4.2.1-h1bed415_1
  ncurses            pkgs/main/linux-64::ncurses-6.2-he6710b0_1
  openssl            pkgs/main/linux-64::openssl-1.1.1g-h7b6447c_0
  pango              pkgs/main/linux-64::pango-1.42.4-h049681c_0
  pcre               pkgs/main/linux-64::pcre-8.43-he6710b0_0
  pixman             pkgs/main/linux-64::pixman-0.38.0-h7b6447c_0
  r-assertthat       pkgs/r/linux-64::r-assertthat-0.2.0-r351h6115d3f_0
  r-base             pkgs/r/linux-64::r-base-3.5.1-h1e0a451_2
  r-cli              pkgs/r/linux-64::r-cli-1.0.0-r351h6115d3f_1
  r-crayon           pkgs/r/linux-64::r-crayon-1.3.4-r351h6115d3f_0
  r-curl             pkgs/r/linux-64::r-curl-3.2-r351hadc6856_1
  r-devtools         pkgs/r/linux-64::r-devtools-1.13.6-r351h6115d3f_0
  r-digest           pkgs/r/linux-64::r-digest-0.6.15-r351h96ca727_0
  r-git2r            pkgs/r/linux-64::r-git2r-0.23.0-r351h96ca727_1
  r-httr             pkgs/r/linux-64::r-httr-1.3.1-r351h6115d3f_1
  r-jsonlite         pkgs/r/linux-64::r-jsonlite-1.5-r351h96ca727_0
  r-lattice          pkgs/r/linux-64::r-lattice-0.20_35-r351h96ca727_0
  r-magrittr         pkgs/r/linux-64::r-magrittr-1.5-r351h6115d3f_4
  r-matrix           pkgs/r/linux-64::r-matrix-1.2_14-r351h96ca727_0
  r-memoise          pkgs/r/linux-64::r-memoise-1.1.0-r351h6115d3f_0
  r-mime             pkgs/r/linux-64::r-mime-0.5-r351h96ca727_0
  r-openssl          pkgs/r/linux-64::r-openssl-1.0.2-r351h96ca727_1
  r-praise           pkgs/r/linux-64::r-praise-1.0.0-r351h6115d3f_4
  r-r6               pkgs/r/linux-64::r-r6-2.2.2-r351h6115d3f_0
  r-rlang            pkgs/r/linux-64::r-rlang-0.2.1-r351h96ca727_0
  r-rstudioapi       pkgs/r/linux-64::r-rstudioapi-0.7-r351h6115d3f_0
  r-testthat         pkgs/r/linux-64::r-testthat-2.0.0-r351h29659fb_0
  r-whisker          pkgs/r/linux-64::r-whisker-0.3_2-r351hf348343_4
  r-withr            pkgs/r/linux-64::r-withr-2.1.2-r351h6115d3f_0
  readline           pkgs/main/linux-64::readline-7.0-h7b6447c_5
  rhash              pkgs/main/linux-64::rhash-1.3.8-h1ba5d50_0
  tk                 pkgs/main/linux-64::tk-8.6.8-hbc83047_0
  tktable            pkgs/main/linux-64::tktable-2.10-h14c3975_0
  xz                 pkgs/main/linux-64::xz-5.2.5-h7b6447c_0
  zlib               pkgs/main/linux-64::zlib-1.2.11-h7b6447c_3
  zstd               pkgs/main/linux-64::zstd-1.3.7-h0b5b093_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /home/docs/.conda/envs/r_env

  added / updated specs:
    - r-data.table==1.12.8=r35hcdcec82_0
    - r-pkgdown==1.3.0=r35h6115d3f_1001
    - r-roxygen2==6.1.1=r35h0357c0b_1001


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    ca-certificates-2020.4.5.1 |       hecc5488_0         146 KB  conda-forge
    openssl-1.1.1g             |       h516909a_0         2.1 MB  conda-forge
    pandoc-2.9.2.1             |                0        18.7 MB  conda-forge
    r-backports-1.1.6          |    r35hcdcec82_1          76 KB  conda-forge
    r-base64enc-0.1_3          | r35hcdcec82_1003          43 KB  conda-forge
    r-brew-1.0_6               | r35h6115d3f_1002          92 KB  conda-forge
    r-callr-3.4.3              |    r35h6115d3f_0         391 KB  conda-forge
    r-commonmark-1.7           | r35hcdcec82_1001         151 KB  conda-forge
    r-data.table-1.12.8        |    r35hcdcec82_0         1.8 MB  conda-forge
    r-desc-1.2.0               | r35h6115d3f_1002         286 KB  conda-forge
    r-evaluate-0.14            |    r35h6115d3f_1          79 KB  conda-forge
    r-fansi-0.4.1              |    r35hcdcec82_0         195 KB  conda-forge
    r-fs-1.4.1                 |    r35h0357c0b_0         483 KB  conda-forge
    r-glue-1.4.0               |    r35hcdcec82_0         143 KB  conda-forge
    r-highlight-0.5.0          |    r35h0357c0b_0         566 KB  conda-forge
    r-highr-0.8                |    r35h6115d3f_1          47 KB  conda-forge
    r-htmltools-0.4.0          |    r35h0357c0b_0         213 KB  conda-forge
    r-knitr-1.28               |    r35h6115d3f_0         1.3 MB  conda-forge
    r-markdown-1.1             |    r35hcdcec82_0         143 KB  conda-forge
    r-mass-7.3_51.6            |    r35hcdcec82_1         1.1 MB  conda-forge
    r-packrat-0.5.0            | r35h6115d3f_1001         455 KB  conda-forge
    r-pillar-1.3.0             |   r351h6115d3f_0         152 KB
    r-pkgbuild-1.0.7           |    r35h6115d3f_0         151 KB  conda-forge
    r-pkgdown-1.3.0            | r35h6115d3f_1001         505 KB  conda-forge
    r-pkgload-1.0.2            | r35h0357c0b_1001         159 KB  conda-forge
    r-prettyunits-1.1.1        |    r35h6115d3f_0          40 KB  conda-forge
    r-processx-3.4.2           |    r35hcdcec82_0         269 KB  conda-forge
    r-ps-1.3.2                 |    r35hcdcec82_0         224 KB  conda-forge
    r-purrr-0.2.5              |r351h96ca727_1002         283 KB  conda-forge
    r-rcpp-1.0.4.6             |    r35h0357c0b_0         1.9 MB  conda-forge
    r-rematch2-2.1.2           |    r35h6115d3f_0          52 KB  conda-forge
    r-rmarkdown-2.1            |    r35h6115d3f_0         3.0 MB  conda-forge
    r-roxygen2-6.1.1           | r35h0357c0b_1001         508 KB  conda-forge
    r-rprojroot-1.3_2          | r35h6115d3f_1002          93 KB  conda-forge
    r-rsconnect-0.8.16         |    r35h6115d3f_0         670 KB  conda-forge
    r-stringi-1.4.3            |    r35h0357c0b_2         766 KB  conda-forge
    r-stringr-1.4.0            |    r35h6115d3f_1         207 KB  conda-forge
    r-tibble-1.4.2             |r351h96ca727_1002         229 KB  conda-forge
    r-tinytex-0.22             |    r35h6115d3f_0         110 KB  conda-forge
    r-utf8-1.1.4               | r35hcdcec82_1002         160 KB  conda-forge
    r-xfun-0.13                |    r35h6115d3f_0         194 KB  conda-forge
    r-xml2-1.3.2               |    r35h0357c0b_0         249 KB  conda-forge
    r-yaml-2.2.1               |    r35hcdcec82_0         116 KB  conda-forge
    ------------------------------------------------------------
                                           Total:        38.3 MB

The following NEW packages will be INSTALLED:

  pandoc             conda-forge/linux-64::pandoc-2.9.2.1-0
  r-backports        conda-forge/linux-64::r-backports-1.1.6-r35hcdcec82_1
  r-base64enc        conda-forge/linux-64::r-base64enc-0.1_3-r35hcdcec82_1003
  r-brew             conda-forge/noarch::r-brew-1.0_6-r35h6115d3f_1002
  r-callr            conda-forge/noarch::r-callr-3.4.3-r35h6115d3f_0
  r-commonmark       conda-forge/linux-64::r-commonmark-1.7-r35hcdcec82_1001
  r-data.table       conda-forge/linux-64::r-data.table-1.12.8-r35hcdcec82_0
  r-desc             conda-forge/noarch::r-desc-1.2.0-r35h6115d3f_1002
  r-evaluate         conda-forge/noarch::r-evaluate-0.14-r35h6115d3f_1
  r-fansi            conda-forge/linux-64::r-fansi-0.4.1-r35hcdcec82_0
  r-fs               conda-forge/linux-64::r-fs-1.4.1-r35h0357c0b_0
  r-glue             conda-forge/linux-64::r-glue-1.4.0-r35hcdcec82_0
  r-highlight        conda-forge/linux-64::r-highlight-0.5.0-r35h0357c0b_0
  r-highr            conda-forge/noarch::r-highr-0.8-r35h6115d3f_1
  r-htmltools        conda-forge/linux-64::r-htmltools-0.4.0-r35h0357c0b_0
  r-knitr            conda-forge/noarch::r-knitr-1.28-r35h6115d3f_0
  r-markdown         conda-forge/linux-64::r-markdown-1.1-r35hcdcec82_0
  r-mass             conda-forge/linux-64::r-mass-7.3_51.6-r35hcdcec82_1
  r-packrat          conda-forge/noarch::r-packrat-0.5.0-r35h6115d3f_1001
  r-pillar           pkgs/r/linux-64::r-pillar-1.3.0-r351h6115d3f_0
  r-pkgbuild         conda-forge/noarch::r-pkgbuild-1.0.7-r35h6115d3f_0
  r-pkgdown          conda-forge/noarch::r-pkgdown-1.3.0-r35h6115d3f_1001
  r-pkgload          conda-forge/linux-64::r-pkgload-1.0.2-r35h0357c0b_1001
  r-prettyunits      conda-forge/noarch::r-prettyunits-1.1.1-r35h6115d3f_0
  r-processx         conda-forge/linux-64::r-processx-3.4.2-r35hcdcec82_0
  r-ps               conda-forge/linux-64::r-ps-1.3.2-r35hcdcec82_0
  r-purrr            conda-forge/linux-64::r-purrr-0.2.5-r351h96ca727_1002
  r-rcpp             conda-forge/linux-64::r-rcpp-1.0.4.6-r35h0357c0b_0
  r-rematch2         conda-forge/noarch::r-rematch2-2.1.2-r35h6115d3f_0
  r-rmarkdown        conda-forge/noarch::r-rmarkdown-2.1-r35h6115d3f_0
  r-roxygen2         conda-forge/linux-64::r-roxygen2-6.1.1-r35h0357c0b_1001
  r-rprojroot        conda-forge/noarch::r-rprojroot-1.3_2-r35h6115d3f_1002
  r-rsconnect        conda-forge/noarch::r-rsconnect-0.8.16-r35h6115d3f_0
  r-stringi          conda-forge/linux-64::r-stringi-1.4.3-r35h0357c0b_2
  r-stringr          conda-forge/noarch::r-stringr-1.4.0-r35h6115d3f_1
  r-tibble           conda-forge/linux-64::r-tibble-1.4.2-r351h96ca727_1002
  r-tinytex          conda-forge/noarch::r-tinytex-0.22-r35h6115d3f_0
  r-utf8             conda-forge/linux-64::r-utf8-1.1.4-r35hcdcec82_1002
  r-xfun             conda-forge/noarch::r-xfun-0.13-r35h6115d3f_0
  r-xml2             conda-forge/linux-64::r-xml2-1.3.2-r35h0357c0b_0
  r-yaml             conda-forge/linux-64::r-yaml-2.2.1-r35hcdcec82_0

The following packages will be UPDATED:

  ca-certificates    pkgs/main::ca-certificates-2019.11.27~ --> conda-forge::ca-certificates-2020.4.5.1-hecc5488_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl              pkgs/main::openssl-1.1.1g-h7b6447c_0 --> conda-forge::openssl-1.1.1g-h516909a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
-- The C compiler identification is GNU 7.3.0
-- The CXX compiler identification is GNU 7.3.0
-- Check for working C compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-cc
-- Check for working C compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-c++
-- Check for working CXX compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring incomplete, errors occurred!
See also "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/lightgbm_r/src/build/CMakeFiles/CMakeOutput.log".

Updating lightgbm documentation
Loading lightgbm
Re-compiling lightgbm
'/home/docs/.conda/envs/r_env/lib/R/bin/R' --no-site-file --no-environ  \
  --no-save --no-restore --quiet CMD INSTALL  \
  '/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/lightgbm_r'  \
  --library='/tmp/RtmpT7BLvD/devtools_install_be97189381e' --no-R --no-data  \
  --no-help --no-demo --no-inst --no-docs --no-exec --no-multiarch  \
  --no-test-load --preclean 

* installing *source* package ‘lightgbm’ ...
** libs
installing via 'install.libs.R' to /tmp/RtmpT7BLvD/devtools_install_be97189381e/lightgbm
R version passed into FindLibR.cmake: 3.5.1
CMake Error at /home/docs/.conda/envs/r_env/share/cmake-3.14/Modules/FindPackageHandleStandardArgs.cmake:137 (message):
  Could NOT find LibR (missing: LIBR_CORE_LIBRARY)
Call Stack (most recent call first):
  /home/docs/.conda/envs/r_env/share/cmake-3.14/Modules/FindPackageHandleStandardArgs.cmake:378 (_FPHSA_FAILURE_MESSAGE)
  cmake/modules/FindLibR.cmake:221 (find_package_handle_standard_args)
  CMakeLists.txt:76 (find_package)


make: *** No rule to make target '_lightgbm'.  Stop.
Error in eval(ei, envir) : Cannot find lib_lightgbm.so
* removing ‘/tmp/RtmpT7BLvD/devtools_install_be97189381e/lightgbm’
Error: Command failed (1)
Execution halted


During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/lib/python3.7/site-packages/sphinx/cmd/build.py", line 279, in build_main
    args.tags, args.verbosity, args.jobs, args.keep_going)
  File "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/lib/python3.7/site-packages/sphinx/application.py", line 277, in __init__
    self._init_builder()
  File "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/lib/python3.7/site-packages/sphinx/application.py", line 333, in _init_builder
    self.events.emit('builder-inited')
  File "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/envs/latest/lib/python3.7/site-packages/sphinx/events.py", line 107, in emit
    results.append(listener.handler(self.app, *args))
  File "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/conf.py", line 262, in generate_r_docs
    raise Exception("An error has occurred while generating documentation for R-package\n" + str(e))
Exception: An error has occurred while generating documentation for R-package
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /home/docs/.conda/envs/r_env

  added / updated specs:
    - ca-certificates==2019.11.27=0
    - cmake==3.14.0=h52cb24c_0
    - r-base==3.5.1=h1e0a451_2
    - r-devtools==1.13.6=r351h6115d3f_0
    - r-jsonlite==1.5=r351h96ca727_0
    - r-matrix==1.2_14=r351h96ca727_0
    - r-testthat==2.0.0=r351h29659fb_0


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    _r-mutex-1.0.0             |      anacondar_1           3 KB
    binutils_impl_linux-64-2.33.1|       he6710b0_7         3.7 MB
    binutils_linux-64-2.33.1   |      h9595d00_15          26 KB
    bwidget-1.9.11             |                1         116 KB
    bzip2-1.0.8                |       h7b6447c_0          78 KB
    ca-certificates-2019.11.27 |                0         124 KB
    cairo-1.14.12              |       h8948797_3         906 KB
    cmake-3.14.0               |       h52cb24c_0         5.5 MB
    curl-7.67.0                |       hbc83047_0         134 KB
    expat-2.2.6                |       he6710b0_0         146 KB
    fontconfig-2.13.0          |       h9420a91_0         227 KB
    freetype-2.9.1             |       h8a8886c_1         550 KB
    fribidi-1.0.5              |       h7b6447c_0         101 KB
    gcc_impl_linux-64-7.3.0    |       habb00fd_1        41.9 MB
    gcc_linux-64-7.3.0         |      h553295d_15          27 KB
    gfortran_impl_linux-64-7.3.0|       hdf63c60_1         7.8 MB
    gfortran_linux-64-7.3.0    |      h553295d_15          27 KB
    glib-2.63.1                |       h5a9c865_0         2.9 MB
    graphite2-1.3.13           |       h23475e2_0          98 KB
    gsl-2.4                    |       h14c3975_4         1.8 MB
    gxx_impl_linux-64-7.3.0    |       hdf63c60_1        15.0 MB
    gxx_linux-64-7.3.0         |      h553295d_15          26 KB
    harfbuzz-1.8.8             |       hffaf4a1_0         507 KB
    icu-58.2                   |       he6710b0_3        10.5 MB
    jpeg-9b                    |       h024ee3a_2         214 KB
    krb5-1.16.4                |       h173b8e3_0         1.2 MB
    ld_impl_linux-64-2.33.1    |       h53a641e_7         568 KB
    libcurl-7.67.0             |       h20c2e04_0         426 KB
    libgfortran-ng-7.3.0       |       hdf63c60_0        1006 KB
    libpng-1.6.37              |       hbc83047_0         278 KB
    libssh2-1.9.0              |       h1ba5d50_1         269 KB
    libtiff-4.1.0              |       h2733197_0         447 KB
    libuuid-1.0.3              |       h1bed415_2          15 KB
    libxcb-1.13                |       h1bed415_1         421 KB
    libxml2-2.9.9              |       hea5a465_1         1.6 MB
    make-4.2.1                 |       h1bed415_1         415 KB
    ncurses-6.2                |       he6710b0_1         817 KB
    openssl-1.1.1g             |       h7b6447c_0         2.5 MB
    pango-1.42.4               |       h049681c_0         464 KB
    pcre-8.43                  |       he6710b0_0         209 KB
    pixman-0.38.0              |       h7b6447c_0         364 KB
    r-assertthat-0.2.0         |   r351h6115d3f_0          55 KB
    r-base-3.5.1               |       h1e0a451_2        26.5 MB
    r-cli-1.0.0                |   r351h6115d3f_1         310 KB
    r-crayon-1.3.4             |   r351h6115d3f_0         729 KB
    r-curl-3.2                 |   r351hadc6856_1         374 KB
    r-devtools-1.13.6          |   r351h6115d3f_0         665 KB
    r-digest-0.6.15            |   r351h96ca727_0         138 KB
    r-git2r-0.23.0             |   r351h96ca727_1         804 KB
    r-httr-1.3.1               |   r351h6115d3f_1         421 KB
    r-jsonlite-1.5             |   r351h96ca727_0         632 KB
    r-lattice-0.20_35          |   r351h96ca727_0         1.1 MB
    r-magrittr-1.5             |   r351h6115d3f_4         157 KB
    r-matrix-1.2_14            |   r351h96ca727_0         3.3 MB
    r-memoise-1.1.0            |   r351h6115d3f_0          38 KB
    r-mime-0.5                 |   r351h96ca727_0          37 KB
    r-openssl-1.0.2            |   r351h96ca727_1         588 KB
    r-praise-1.0.0             |   r351h6115d3f_4          21 KB
    r-r6-2.2.2                 |   r351h6115d3f_0         245 KB
    r-rlang-0.2.1              |   r351h96ca727_0         744 KB
    r-rstudioapi-0.7           |   r351h6115d3f_0         126 KB
    r-testthat-2.0.0           |   r351h29659fb_0         879 KB
    r-whisker-0.3_2            |   r351hf348343_4          63 KB
    r-withr-2.1.2              |   r351h6115d3f_0         149 KB
    rhash-1.3.8                |       h1ba5d50_0         188 KB
    tktable-2.10               |       h14c3975_0          86 KB
    xz-5.2.5                   |       h7b6447c_0         438 KB
    zstd-1.3.7                 |       h0b5b093_0         401 KB
    ------------------------------------------------------------
                                           Total:       142.0 MB

The following NEW packages will be INSTALLED:

  _libgcc_mutex      pkgs/main/linux-64::_libgcc_mutex-0.1-main
  _r-mutex           pkgs/r/linux-64::_r-mutex-1.0.0-anacondar_1
  binutils_impl_lin~ pkgs/main/linux-64::binutils_impl_linux-64-2.33.1-he6710b0_7
  binutils_linux-64  pkgs/main/linux-64::binutils_linux-64-2.33.1-h9595d00_15
  bwidget            pkgs/main/linux-64::bwidget-1.9.11-1
  bzip2              pkgs/main/linux-64::bzip2-1.0.8-h7b6447c_0
  ca-certificates    pkgs/main/linux-64::ca-certificates-2019.11.27-0
  cairo              pkgs/main/linux-64::cairo-1.14.12-h8948797_3
  cmake              pkgs/main/linux-64::cmake-3.14.0-h52cb24c_0
  curl               pkgs/main/linux-64::curl-7.67.0-hbc83047_0
  expat              pkgs/main/linux-64::expat-2.2.6-he6710b0_0
  fontconfig         pkgs/main/linux-64::fontconfig-2.13.0-h9420a91_0
  freetype           pkgs/main/linux-64::freetype-2.9.1-h8a8886c_1
  fribidi            pkgs/main/linux-64::fribidi-1.0.5-h7b6447c_0
  gcc_impl_linux-64  pkgs/main/linux-64::gcc_impl_linux-64-7.3.0-habb00fd_1
  gcc_linux-64       pkgs/main/linux-64::gcc_linux-64-7.3.0-h553295d_15
  gfortran_impl_lin~ pkgs/main/linux-64::gfortran_impl_linux-64-7.3.0-hdf63c60_1
  gfortran_linux-64  pkgs/main/linux-64::gfortran_linux-64-7.3.0-h553295d_15
  glib               pkgs/main/linux-64::glib-2.63.1-h5a9c865_0
  graphite2          pkgs/main/linux-64::graphite2-1.3.13-h23475e2_0
  gsl                pkgs/main/linux-64::gsl-2.4-h14c3975_4
  gxx_impl_linux-64  pkgs/main/linux-64::gxx_impl_linux-64-7.3.0-hdf63c60_1
  gxx_linux-64       pkgs/main/linux-64::gxx_linux-64-7.3.0-h553295d_15
  harfbuzz           pkgs/main/linux-64::harfbuzz-1.8.8-hffaf4a1_0
  icu                pkgs/main/linux-64::icu-58.2-he6710b0_3
  jpeg               pkgs/main/linux-64::jpeg-9b-h024ee3a_2
  krb5               pkgs/main/linux-64::krb5-1.16.4-h173b8e3_0
  ld_impl_linux-64   pkgs/main/linux-64::ld_impl_linux-64-2.33.1-h53a641e_7
  libcurl            pkgs/main/linux-64::libcurl-7.67.0-h20c2e04_0
  libedit            pkgs/main/linux-64::libedit-3.1.20181209-hc058e9b_0
  libffi             pkgs/main/linux-64::libffi-3.2.1-hd88cf55_4
  libgcc-ng          pkgs/main/linux-64::libgcc-ng-9.1.0-hdf63c60_0
  libgfortran-ng     pkgs/main/linux-64::libgfortran-ng-7.3.0-hdf63c60_0
  libpng             pkgs/main/linux-64::libpng-1.6.37-hbc83047_0
  libssh2            pkgs/main/linux-64::libssh2-1.9.0-h1ba5d50_1
  libstdcxx-ng       pkgs/main/linux-64::libstdcxx-ng-9.1.0-hdf63c60_0
  libtiff            pkgs/main/linux-64::libtiff-4.1.0-h2733197_0
  libuuid            pkgs/main/linux-64::libuuid-1.0.3-h1bed415_2
  libxcb             pkgs/main/linux-64::libxcb-1.13-h1bed415_1
  libxml2            pkgs/main/linux-64::libxml2-2.9.9-hea5a465_1
  make               pkgs/main/linux-64::make-4.2.1-h1bed415_1
  ncurses            pkgs/main/linux-64::ncurses-6.2-he6710b0_1
  openssl            pkgs/main/linux-64::openssl-1.1.1g-h7b6447c_0
  pango              pkgs/main/linux-64::pango-1.42.4-h049681c_0
  pcre               pkgs/main/linux-64::pcre-8.43-he6710b0_0
  pixman             pkgs/main/linux-64::pixman-0.38.0-h7b6447c_0
  r-assertthat       pkgs/r/linux-64::r-assertthat-0.2.0-r351h6115d3f_0
  r-base             pkgs/r/linux-64::r-base-3.5.1-h1e0a451_2
  r-cli              pkgs/r/linux-64::r-cli-1.0.0-r351h6115d3f_1
  r-crayon           pkgs/r/linux-64::r-crayon-1.3.4-r351h6115d3f_0
  r-curl             pkgs/r/linux-64::r-curl-3.2-r351hadc6856_1
  r-devtools         pkgs/r/linux-64::r-devtools-1.13.6-r351h6115d3f_0
  r-digest           pkgs/r/linux-64::r-digest-0.6.15-r351h96ca727_0
  r-git2r            pkgs/r/linux-64::r-git2r-0.23.0-r351h96ca727_1
  r-httr             pkgs/r/linux-64::r-httr-1.3.1-r351h6115d3f_1
  r-jsonlite         pkgs/r/linux-64::r-jsonlite-1.5-r351h96ca727_0
  r-lattice          pkgs/r/linux-64::r-lattice-0.20_35-r351h96ca727_0
  r-magrittr         pkgs/r/linux-64::r-magrittr-1.5-r351h6115d3f_4
  r-matrix           pkgs/r/linux-64::r-matrix-1.2_14-r351h96ca727_0
  r-memoise          pkgs/r/linux-64::r-memoise-1.1.0-r351h6115d3f_0
  r-mime             pkgs/r/linux-64::r-mime-0.5-r351h96ca727_0
  r-openssl          pkgs/r/linux-64::r-openssl-1.0.2-r351h96ca727_1
  r-praise           pkgs/r/linux-64::r-praise-1.0.0-r351h6115d3f_4
  r-r6               pkgs/r/linux-64::r-r6-2.2.2-r351h6115d3f_0
  r-rlang            pkgs/r/linux-64::r-rlang-0.2.1-r351h96ca727_0
  r-rstudioapi       pkgs/r/linux-64::r-rstudioapi-0.7-r351h6115d3f_0
  r-testthat         pkgs/r/linux-64::r-testthat-2.0.0-r351h29659fb_0
  r-whisker          pkgs/r/linux-64::r-whisker-0.3_2-r351hf348343_4
  r-withr            pkgs/r/linux-64::r-withr-2.1.2-r351h6115d3f_0
  readline           pkgs/main/linux-64::readline-7.0-h7b6447c_5
  rhash              pkgs/main/linux-64::rhash-1.3.8-h1ba5d50_0
  tk                 pkgs/main/linux-64::tk-8.6.8-hbc83047_0
  tktable            pkgs/main/linux-64::tktable-2.10-h14c3975_0
  xz                 pkgs/main/linux-64::xz-5.2.5-h7b6447c_0
  zlib               pkgs/main/linux-64::zlib-1.2.11-h7b6447c_3
  zstd               pkgs/main/linux-64::zstd-1.3.7-h0b5b093_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /home/docs/.conda/envs/r_env

  added / updated specs:
    - r-data.table==1.12.8=r35hcdcec82_0
    - r-pkgdown==1.3.0=r35h6115d3f_1001
    - r-roxygen2==6.1.1=r35h0357c0b_1001


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    ca-certificates-2020.4.5.1 |       hecc5488_0         146 KB  conda-forge
    openssl-1.1.1g             |       h516909a_0         2.1 MB  conda-forge
    pandoc-2.9.2.1             |                0        18.7 MB  conda-forge
    r-backports-1.1.6          |    r35hcdcec82_1          76 KB  conda-forge
    r-base64enc-0.1_3          | r35hcdcec82_1003          43 KB  conda-forge
    r-brew-1.0_6               | r35h6115d3f_1002          92 KB  conda-forge
    r-callr-3.4.3              |    r35h6115d3f_0         391 KB  conda-forge
    r-commonmark-1.7           | r35hcdcec82_1001         151 KB  conda-forge
    r-data.table-1.12.8        |    r35hcdcec82_0         1.8 MB  conda-forge
    r-desc-1.2.0               | r35h6115d3f_1002         286 KB  conda-forge
    r-evaluate-0.14            |    r35h6115d3f_1          79 KB  conda-forge
    r-fansi-0.4.1              |    r35hcdcec82_0         195 KB  conda-forge
    r-fs-1.4.1                 |    r35h0357c0b_0         483 KB  conda-forge
    r-glue-1.4.0               |    r35hcdcec82_0         143 KB  conda-forge
    r-highlight-0.5.0          |    r35h0357c0b_0         566 KB  conda-forge
    r-highr-0.8                |    r35h6115d3f_1          47 KB  conda-forge
    r-htmltools-0.4.0          |    r35h0357c0b_0         213 KB  conda-forge
    r-knitr-1.28               |    r35h6115d3f_0         1.3 MB  conda-forge
    r-markdown-1.1             |    r35hcdcec82_0         143 KB  conda-forge
    r-mass-7.3_51.6            |    r35hcdcec82_1         1.1 MB  conda-forge
    r-packrat-0.5.0            | r35h6115d3f_1001         455 KB  conda-forge
    r-pillar-1.3.0             |   r351h6115d3f_0         152 KB
    r-pkgbuild-1.0.7           |    r35h6115d3f_0         151 KB  conda-forge
    r-pkgdown-1.3.0            | r35h6115d3f_1001         505 KB  conda-forge
    r-pkgload-1.0.2            | r35h0357c0b_1001         159 KB  conda-forge
    r-prettyunits-1.1.1        |    r35h6115d3f_0          40 KB  conda-forge
    r-processx-3.4.2           |    r35hcdcec82_0         269 KB  conda-forge
    r-ps-1.3.2                 |    r35hcdcec82_0         224 KB  conda-forge
    r-purrr-0.2.5              |r351h96ca727_1002         283 KB  conda-forge
    r-rcpp-1.0.4.6             |    r35h0357c0b_0         1.9 MB  conda-forge
    r-rematch2-2.1.2           |    r35h6115d3f_0          52 KB  conda-forge
    r-rmarkdown-2.1            |    r35h6115d3f_0         3.0 MB  conda-forge
    r-roxygen2-6.1.1           | r35h0357c0b_1001         508 KB  conda-forge
    r-rprojroot-1.3_2          | r35h6115d3f_1002          93 KB  conda-forge
    r-rsconnect-0.8.16         |    r35h6115d3f_0         670 KB  conda-forge
    r-stringi-1.4.3            |    r35h0357c0b_2         766 KB  conda-forge
    r-stringr-1.4.0            |    r35h6115d3f_1         207 KB  conda-forge
    r-tibble-1.4.2             |r351h96ca727_1002         229 KB  conda-forge
    r-tinytex-0.22             |    r35h6115d3f_0         110 KB  conda-forge
    r-utf8-1.1.4               | r35hcdcec82_1002         160 KB  conda-forge
    r-xfun-0.13                |    r35h6115d3f_0         194 KB  conda-forge
    r-xml2-1.3.2               |    r35h0357c0b_0         249 KB  conda-forge
    r-yaml-2.2.1               |    r35hcdcec82_0         116 KB  conda-forge
    ------------------------------------------------------------
                                           Total:        38.3 MB

The following NEW packages will be INSTALLED:

  pandoc             conda-forge/linux-64::pandoc-2.9.2.1-0
  r-backports        conda-forge/linux-64::r-backports-1.1.6-r35hcdcec82_1
  r-base64enc        conda-forge/linux-64::r-base64enc-0.1_3-r35hcdcec82_1003
  r-brew             conda-forge/noarch::r-brew-1.0_6-r35h6115d3f_1002
  r-callr            conda-forge/noarch::r-callr-3.4.3-r35h6115d3f_0
  r-commonmark       conda-forge/linux-64::r-commonmark-1.7-r35hcdcec82_1001
  r-data.table       conda-forge/linux-64::r-data.table-1.12.8-r35hcdcec82_0
  r-desc             conda-forge/noarch::r-desc-1.2.0-r35h6115d3f_1002
  r-evaluate         conda-forge/noarch::r-evaluate-0.14-r35h6115d3f_1
  r-fansi            conda-forge/linux-64::r-fansi-0.4.1-r35hcdcec82_0
  r-fs               conda-forge/linux-64::r-fs-1.4.1-r35h0357c0b_0
  r-glue             conda-forge/linux-64::r-glue-1.4.0-r35hcdcec82_0
  r-highlight        conda-forge/linux-64::r-highlight-0.5.0-r35h0357c0b_0
  r-highr            conda-forge/noarch::r-highr-0.8-r35h6115d3f_1
  r-htmltools        conda-forge/linux-64::r-htmltools-0.4.0-r35h0357c0b_0
  r-knitr            conda-forge/noarch::r-knitr-1.28-r35h6115d3f_0
  r-markdown         conda-forge/linux-64::r-markdown-1.1-r35hcdcec82_0
  r-mass             conda-forge/linux-64::r-mass-7.3_51.6-r35hcdcec82_1
  r-packrat          conda-forge/noarch::r-packrat-0.5.0-r35h6115d3f_1001
  r-pillar           pkgs/r/linux-64::r-pillar-1.3.0-r351h6115d3f_0
  r-pkgbuild         conda-forge/noarch::r-pkgbuild-1.0.7-r35h6115d3f_0
  r-pkgdown          conda-forge/noarch::r-pkgdown-1.3.0-r35h6115d3f_1001
  r-pkgload          conda-forge/linux-64::r-pkgload-1.0.2-r35h0357c0b_1001
  r-prettyunits      conda-forge/noarch::r-prettyunits-1.1.1-r35h6115d3f_0
  r-processx         conda-forge/linux-64::r-processx-3.4.2-r35hcdcec82_0
  r-ps               conda-forge/linux-64::r-ps-1.3.2-r35hcdcec82_0
  r-purrr            conda-forge/linux-64::r-purrr-0.2.5-r351h96ca727_1002
  r-rcpp             conda-forge/linux-64::r-rcpp-1.0.4.6-r35h0357c0b_0
  r-rematch2         conda-forge/noarch::r-rematch2-2.1.2-r35h6115d3f_0
  r-rmarkdown        conda-forge/noarch::r-rmarkdown-2.1-r35h6115d3f_0
  r-roxygen2         conda-forge/linux-64::r-roxygen2-6.1.1-r35h0357c0b_1001
  r-rprojroot        conda-forge/noarch::r-rprojroot-1.3_2-r35h6115d3f_1002
  r-rsconnect        conda-forge/noarch::r-rsconnect-0.8.16-r35h6115d3f_0
  r-stringi          conda-forge/linux-64::r-stringi-1.4.3-r35h0357c0b_2
  r-stringr          conda-forge/noarch::r-stringr-1.4.0-r35h6115d3f_1
  r-tibble           conda-forge/linux-64::r-tibble-1.4.2-r351h96ca727_1002
  r-tinytex          conda-forge/noarch::r-tinytex-0.22-r35h6115d3f_0
  r-utf8             conda-forge/linux-64::r-utf8-1.1.4-r35hcdcec82_1002
  r-xfun             conda-forge/noarch::r-xfun-0.13-r35h6115d3f_0
  r-xml2             conda-forge/linux-64::r-xml2-1.3.2-r35h0357c0b_0
  r-yaml             conda-forge/linux-64::r-yaml-2.2.1-r35hcdcec82_0

The following packages will be UPDATED:

  ca-certificates    pkgs/main::ca-certificates-2019.11.27~ --> conda-forge::ca-certificates-2020.4.5.1-hecc5488_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl              pkgs/main::openssl-1.1.1g-h7b6447c_0 --> conda-forge::openssl-1.1.1g-h516909a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
-- The C compiler identification is GNU 7.3.0
-- The CXX compiler identification is GNU 7.3.0
-- Check for working C compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-cc
-- Check for working C compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-c++
-- Check for working CXX compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring incomplete, errors occurred!
See also "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/lightgbm_r/src/build/CMakeFiles/CMakeOutput.log".

Updating lightgbm documentation
Loading lightgbm
Re-compiling lightgbm
'/home/docs/.conda/envs/r_env/lib/R/bin/R' --no-site-file --no-environ  \
  --no-save --no-restore --quiet CMD INSTALL  \
  '/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/lightgbm_r'  \
  --library='/tmp/RtmpT7BLvD/devtools_install_be97189381e' --no-R --no-data  \
  --no-help --no-demo --no-inst --no-docs --no-exec --no-multiarch  \
  --no-test-load --preclean 

* installing *source* package ‘lightgbm’ ...
** libs
installing via 'install.libs.R' to /tmp/RtmpT7BLvD/devtools_install_be97189381e/lightgbm
R version passed into FindLibR.cmake: 3.5.1
CMake Error at /home/docs/.conda/envs/r_env/share/cmake-3.14/Modules/FindPackageHandleStandardArgs.cmake:137 (message):
  Could NOT find LibR (missing: LIBR_CORE_LIBRARY)
Call Stack (most recent call first):
  /home/docs/.conda/envs/r_env/share/cmake-3.14/Modules/FindPackageHandleStandardArgs.cmake:378 (_FPHSA_FAILURE_MESSAGE)
  cmake/modules/FindLibR.cmake:221 (find_package_handle_standard_args)
  CMakeLists.txt:76 (find_package)


make: *** No rule to make target '_lightgbm'.  Stop.
Error in eval(ei, envir) : Cannot find lib_lightgbm.so
* removing ‘/tmp/RtmpT7BLvD/devtools_install_be97189381e/lightgbm’
Error: Command failed (1)
Execution halted


Exception occurred:
  File "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/docs/conf.py", line 262, in generate_r_docs
    raise Exception("An error has occurred while generating documentation for R-package\n" + str(e))
Exception: An error has occurred while generating documentation for R-package
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /home/docs/.conda/envs/r_env

  added / updated specs:
    - ca-certificates==2019.11.27=0
    - cmake==3.14.0=h52cb24c_0
    - r-base==3.5.1=h1e0a451_2
    - r-devtools==1.13.6=r351h6115d3f_0
    - r-jsonlite==1.5=r351h96ca727_0
    - r-matrix==1.2_14=r351h96ca727_0
    - r-testthat==2.0.0=r351h29659fb_0


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    _r-mutex-1.0.0             |      anacondar_1           3 KB
    binutils_impl_linux-64-2.33.1|       he6710b0_7         3.7 MB
    binutils_linux-64-2.33.1   |      h9595d00_15          26 KB
    bwidget-1.9.11             |                1         116 KB
    bzip2-1.0.8                |       h7b6447c_0          78 KB
    ca-certificates-2019.11.27 |                0         124 KB
    cairo-1.14.12              |       h8948797_3         906 KB
    cmake-3.14.0               |       h52cb24c_0         5.5 MB
    curl-7.67.0                |       hbc83047_0         134 KB
    expat-2.2.6                |       he6710b0_0         146 KB
    fontconfig-2.13.0          |       h9420a91_0         227 KB
    freetype-2.9.1             |       h8a8886c_1         550 KB
    fribidi-1.0.5              |       h7b6447c_0         101 KB
    gcc_impl_linux-64-7.3.0    |       habb00fd_1        41.9 MB
    gcc_linux-64-7.3.0         |      h553295d_15          27 KB
    gfortran_impl_linux-64-7.3.0|       hdf63c60_1         7.8 MB
    gfortran_linux-64-7.3.0    |      h553295d_15          27 KB
    glib-2.63.1                |       h5a9c865_0         2.9 MB
    graphite2-1.3.13           |       h23475e2_0          98 KB
    gsl-2.4                    |       h14c3975_4         1.8 MB
    gxx_impl_linux-64-7.3.0    |       hdf63c60_1        15.0 MB
    gxx_linux-64-7.3.0         |      h553295d_15          26 KB
    harfbuzz-1.8.8             |       hffaf4a1_0         507 KB
    icu-58.2                   |       he6710b0_3        10.5 MB
    jpeg-9b                    |       h024ee3a_2         214 KB
    krb5-1.16.4                |       h173b8e3_0         1.2 MB
    ld_impl_linux-64-2.33.1    |       h53a641e_7         568 KB
    libcurl-7.67.0             |       h20c2e04_0         426 KB
    libgfortran-ng-7.3.0       |       hdf63c60_0        1006 KB
    libpng-1.6.37              |       hbc83047_0         278 KB
    libssh2-1.9.0              |       h1ba5d50_1         269 KB
    libtiff-4.1.0              |       h2733197_0         447 KB
    libuuid-1.0.3              |       h1bed415_2          15 KB
    libxcb-1.13                |       h1bed415_1         421 KB
    libxml2-2.9.9              |       hea5a465_1         1.6 MB
    make-4.2.1                 |       h1bed415_1         415 KB
    ncurses-6.2                |       he6710b0_1         817 KB
    openssl-1.1.1g             |       h7b6447c_0         2.5 MB
    pango-1.42.4               |       h049681c_0         464 KB
    pcre-8.43                  |       he6710b0_0         209 KB
    pixman-0.38.0              |       h7b6447c_0         364 KB
    r-assertthat-0.2.0         |   r351h6115d3f_0          55 KB
    r-base-3.5.1               |       h1e0a451_2        26.5 MB
    r-cli-1.0.0                |   r351h6115d3f_1         310 KB
    r-crayon-1.3.4             |   r351h6115d3f_0         729 KB
    r-curl-3.2                 |   r351hadc6856_1         374 KB
    r-devtools-1.13.6          |   r351h6115d3f_0         665 KB
    r-digest-0.6.15            |   r351h96ca727_0         138 KB
    r-git2r-0.23.0             |   r351h96ca727_1         804 KB
    r-httr-1.3.1               |   r351h6115d3f_1         421 KB
    r-jsonlite-1.5             |   r351h96ca727_0         632 KB
    r-lattice-0.20_35          |   r351h96ca727_0         1.1 MB
    r-magrittr-1.5             |   r351h6115d3f_4         157 KB
    r-matrix-1.2_14            |   r351h96ca727_0         3.3 MB
    r-memoise-1.1.0            |   r351h6115d3f_0          38 KB
    r-mime-0.5                 |   r351h96ca727_0          37 KB
    r-openssl-1.0.2            |   r351h96ca727_1         588 KB
    r-praise-1.0.0             |   r351h6115d3f_4          21 KB
    r-r6-2.2.2                 |   r351h6115d3f_0         245 KB
    r-rlang-0.2.1              |   r351h96ca727_0         744 KB
    r-rstudioapi-0.7           |   r351h6115d3f_0         126 KB
    r-testthat-2.0.0           |   r351h29659fb_0         879 KB
    r-whisker-0.3_2            |   r351hf348343_4          63 KB
    r-withr-2.1.2              |   r351h6115d3f_0         149 KB
    rhash-1.3.8                |       h1ba5d50_0         188 KB
    tktable-2.10               |       h14c3975_0          86 KB
    xz-5.2.5                   |       h7b6447c_0         438 KB
    zstd-1.3.7                 |       h0b5b093_0         401 KB
    ------------------------------------------------------------
                                           Total:       142.0 MB

The following NEW packages will be INSTALLED:

  _libgcc_mutex      pkgs/main/linux-64::_libgcc_mutex-0.1-main
  _r-mutex           pkgs/r/linux-64::_r-mutex-1.0.0-anacondar_1
  binutils_impl_lin~ pkgs/main/linux-64::binutils_impl_linux-64-2.33.1-he6710b0_7
  binutils_linux-64  pkgs/main/linux-64::binutils_linux-64-2.33.1-h9595d00_15
  bwidget            pkgs/main/linux-64::bwidget-1.9.11-1
  bzip2              pkgs/main/linux-64::bzip2-1.0.8-h7b6447c_0
  ca-certificates    pkgs/main/linux-64::ca-certificates-2019.11.27-0
  cairo              pkgs/main/linux-64::cairo-1.14.12-h8948797_3
  cmake              pkgs/main/linux-64::cmake-3.14.0-h52cb24c_0
  curl               pkgs/main/linux-64::curl-7.67.0-hbc83047_0
  expat              pkgs/main/linux-64::expat-2.2.6-he6710b0_0
  fontconfig         pkgs/main/linux-64::fontconfig-2.13.0-h9420a91_0
  freetype           pkgs/main/linux-64::freetype-2.9.1-h8a8886c_1
  fribidi            pkgs/main/linux-64::fribidi-1.0.5-h7b6447c_0
  gcc_impl_linux-64  pkgs/main/linux-64::gcc_impl_linux-64-7.3.0-habb00fd_1
  gcc_linux-64       pkgs/main/linux-64::gcc_linux-64-7.3.0-h553295d_15
  gfortran_impl_lin~ pkgs/main/linux-64::gfortran_impl_linux-64-7.3.0-hdf63c60_1
  gfortran_linux-64  pkgs/main/linux-64::gfortran_linux-64-7.3.0-h553295d_15
  glib               pkgs/main/linux-64::glib-2.63.1-h5a9c865_0
  graphite2          pkgs/main/linux-64::graphite2-1.3.13-h23475e2_0
  gsl                pkgs/main/linux-64::gsl-2.4-h14c3975_4
  gxx_impl_linux-64  pkgs/main/linux-64::gxx_impl_linux-64-7.3.0-hdf63c60_1
  gxx_linux-64       pkgs/main/linux-64::gxx_linux-64-7.3.0-h553295d_15
  harfbuzz           pkgs/main/linux-64::harfbuzz-1.8.8-hffaf4a1_0
  icu                pkgs/main/linux-64::icu-58.2-he6710b0_3
  jpeg               pkgs/main/linux-64::jpeg-9b-h024ee3a_2
  krb5               pkgs/main/linux-64::krb5-1.16.4-h173b8e3_0
  ld_impl_linux-64   pkgs/main/linux-64::ld_impl_linux-64-2.33.1-h53a641e_7
  libcurl            pkgs/main/linux-64::libcurl-7.67.0-h20c2e04_0
  libedit            pkgs/main/linux-64::libedit-3.1.20181209-hc058e9b_0
  libffi             pkgs/main/linux-64::libffi-3.2.1-hd88cf55_4
  libgcc-ng          pkgs/main/linux-64::libgcc-ng-9.1.0-hdf63c60_0
  libgfortran-ng     pkgs/main/linux-64::libgfortran-ng-7.3.0-hdf63c60_0
  libpng             pkgs/main/linux-64::libpng-1.6.37-hbc83047_0
  libssh2            pkgs/main/linux-64::libssh2-1.9.0-h1ba5d50_1
  libstdcxx-ng       pkgs/main/linux-64::libstdcxx-ng-9.1.0-hdf63c60_0
  libtiff            pkgs/main/linux-64::libtiff-4.1.0-h2733197_0
  libuuid            pkgs/main/linux-64::libuuid-1.0.3-h1bed415_2
  libxcb             pkgs/main/linux-64::libxcb-1.13-h1bed415_1
  libxml2            pkgs/main/linux-64::libxml2-2.9.9-hea5a465_1
  make               pkgs/main/linux-64::make-4.2.1-h1bed415_1
  ncurses            pkgs/main/linux-64::ncurses-6.2-he6710b0_1
  openssl            pkgs/main/linux-64::openssl-1.1.1g-h7b6447c_0
  pango              pkgs/main/linux-64::pango-1.42.4-h049681c_0
  pcre               pkgs/main/linux-64::pcre-8.43-he6710b0_0
  pixman             pkgs/main/linux-64::pixman-0.38.0-h7b6447c_0
  r-assertthat       pkgs/r/linux-64::r-assertthat-0.2.0-r351h6115d3f_0
  r-base             pkgs/r/linux-64::r-base-3.5.1-h1e0a451_2
  r-cli              pkgs/r/linux-64::r-cli-1.0.0-r351h6115d3f_1
  r-crayon           pkgs/r/linux-64::r-crayon-1.3.4-r351h6115d3f_0
  r-curl             pkgs/r/linux-64::r-curl-3.2-r351hadc6856_1
  r-devtools         pkgs/r/linux-64::r-devtools-1.13.6-r351h6115d3f_0
  r-digest           pkgs/r/linux-64::r-digest-0.6.15-r351h96ca727_0
  r-git2r            pkgs/r/linux-64::r-git2r-0.23.0-r351h96ca727_1
  r-httr             pkgs/r/linux-64::r-httr-1.3.1-r351h6115d3f_1
  r-jsonlite         pkgs/r/linux-64::r-jsonlite-1.5-r351h96ca727_0
  r-lattice          pkgs/r/linux-64::r-lattice-0.20_35-r351h96ca727_0
  r-magrittr         pkgs/r/linux-64::r-magrittr-1.5-r351h6115d3f_4
  r-matrix           pkgs/r/linux-64::r-matrix-1.2_14-r351h96ca727_0
  r-memoise          pkgs/r/linux-64::r-memoise-1.1.0-r351h6115d3f_0
  r-mime             pkgs/r/linux-64::r-mime-0.5-r351h96ca727_0
  r-openssl          pkgs/r/linux-64::r-openssl-1.0.2-r351h96ca727_1
  r-praise           pkgs/r/linux-64::r-praise-1.0.0-r351h6115d3f_4
  r-r6               pkgs/r/linux-64::r-r6-2.2.2-r351h6115d3f_0
  r-rlang            pkgs/r/linux-64::r-rlang-0.2.1-r351h96ca727_0
  r-rstudioapi       pkgs/r/linux-64::r-rstudioapi-0.7-r351h6115d3f_0
  r-testthat         pkgs/r/linux-64::r-testthat-2.0.0-r351h29659fb_0
  r-whisker          pkgs/r/linux-64::r-whisker-0.3_2-r351hf348343_4
  r-withr            pkgs/r/linux-64::r-withr-2.1.2-r351h6115d3f_0
  readline           pkgs/main/linux-64::readline-7.0-h7b6447c_5
  rhash              pkgs/main/linux-64::rhash-1.3.8-h1ba5d50_0
  tk                 pkgs/main/linux-64::tk-8.6.8-hbc83047_0
  tktable            pkgs/main/linux-64::tktable-2.10-h14c3975_0
  xz                 pkgs/main/linux-64::xz-5.2.5-h7b6447c_0
  zlib               pkgs/main/linux-64::zlib-1.2.11-h7b6447c_3
  zstd               pkgs/main/linux-64::zstd-1.3.7-h0b5b093_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /home/docs/.conda/envs/r_env

  added / updated specs:
    - r-data.table==1.12.8=r35hcdcec82_0
    - r-pkgdown==1.3.0=r35h6115d3f_1001
    - r-roxygen2==6.1.1=r35h0357c0b_1001


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    ca-certificates-2020.4.5.1 |       hecc5488_0         146 KB  conda-forge
    openssl-1.1.1g             |       h516909a_0         2.1 MB  conda-forge
    pandoc-2.9.2.1             |                0        18.7 MB  conda-forge
    r-backports-1.1.6          |    r35hcdcec82_1          76 KB  conda-forge
    r-base64enc-0.1_3          | r35hcdcec82_1003          43 KB  conda-forge
    r-brew-1.0_6               | r35h6115d3f_1002          92 KB  conda-forge
    r-callr-3.4.3              |    r35h6115d3f_0         391 KB  conda-forge
    r-commonmark-1.7           | r35hcdcec82_1001         151 KB  conda-forge
    r-data.table-1.12.8        |    r35hcdcec82_0         1.8 MB  conda-forge
    r-desc-1.2.0               | r35h6115d3f_1002         286 KB  conda-forge
    r-evaluate-0.14            |    r35h6115d3f_1          79 KB  conda-forge
    r-fansi-0.4.1              |    r35hcdcec82_0         195 KB  conda-forge
    r-fs-1.4.1                 |    r35h0357c0b_0         483 KB  conda-forge
    r-glue-1.4.0               |    r35hcdcec82_0         143 KB  conda-forge
    r-highlight-0.5.0          |    r35h0357c0b_0         566 KB  conda-forge
    r-highr-0.8                |    r35h6115d3f_1          47 KB  conda-forge
    r-htmltools-0.4.0          |    r35h0357c0b_0         213 KB  conda-forge
    r-knitr-1.28               |    r35h6115d3f_0         1.3 MB  conda-forge
    r-markdown-1.1             |    r35hcdcec82_0         143 KB  conda-forge
    r-mass-7.3_51.6            |    r35hcdcec82_1         1.1 MB  conda-forge
    r-packrat-0.5.0            | r35h6115d3f_1001         455 KB  conda-forge
    r-pillar-1.3.0             |   r351h6115d3f_0         152 KB
    r-pkgbuild-1.0.7           |    r35h6115d3f_0         151 KB  conda-forge
    r-pkgdown-1.3.0            | r35h6115d3f_1001         505 KB  conda-forge
    r-pkgload-1.0.2            | r35h0357c0b_1001         159 KB  conda-forge
    r-prettyunits-1.1.1        |    r35h6115d3f_0          40 KB  conda-forge
    r-processx-3.4.2           |    r35hcdcec82_0         269 KB  conda-forge
    r-ps-1.3.2                 |    r35hcdcec82_0         224 KB  conda-forge
    r-purrr-0.2.5              |r351h96ca727_1002         283 KB  conda-forge
    r-rcpp-1.0.4.6             |    r35h0357c0b_0         1.9 MB  conda-forge
    r-rematch2-2.1.2           |    r35h6115d3f_0          52 KB  conda-forge
    r-rmarkdown-2.1            |    r35h6115d3f_0         3.0 MB  conda-forge
    r-roxygen2-6.1.1           | r35h0357c0b_1001         508 KB  conda-forge
    r-rprojroot-1.3_2          | r35h6115d3f_1002          93 KB  conda-forge
    r-rsconnect-0.8.16         |    r35h6115d3f_0         670 KB  conda-forge
    r-stringi-1.4.3            |    r35h0357c0b_2         766 KB  conda-forge
    r-stringr-1.4.0            |    r35h6115d3f_1         207 KB  conda-forge
    r-tibble-1.4.2             |r351h96ca727_1002         229 KB  conda-forge
    r-tinytex-0.22             |    r35h6115d3f_0         110 KB  conda-forge
    r-utf8-1.1.4               | r35hcdcec82_1002         160 KB  conda-forge
    r-xfun-0.13                |    r35h6115d3f_0         194 KB  conda-forge
    r-xml2-1.3.2               |    r35h0357c0b_0         249 KB  conda-forge
    r-yaml-2.2.1               |    r35hcdcec82_0         116 KB  conda-forge
    ------------------------------------------------------------
                                           Total:        38.3 MB

The following NEW packages will be INSTALLED:

  pandoc             conda-forge/linux-64::pandoc-2.9.2.1-0
  r-backports        conda-forge/linux-64::r-backports-1.1.6-r35hcdcec82_1
  r-base64enc        conda-forge/linux-64::r-base64enc-0.1_3-r35hcdcec82_1003
  r-brew             conda-forge/noarch::r-brew-1.0_6-r35h6115d3f_1002
  r-callr            conda-forge/noarch::r-callr-3.4.3-r35h6115d3f_0
  r-commonmark       conda-forge/linux-64::r-commonmark-1.7-r35hcdcec82_1001
  r-data.table       conda-forge/linux-64::r-data.table-1.12.8-r35hcdcec82_0
  r-desc             conda-forge/noarch::r-desc-1.2.0-r35h6115d3f_1002
  r-evaluate         conda-forge/noarch::r-evaluate-0.14-r35h6115d3f_1
  r-fansi            conda-forge/linux-64::r-fansi-0.4.1-r35hcdcec82_0
  r-fs               conda-forge/linux-64::r-fs-1.4.1-r35h0357c0b_0
  r-glue             conda-forge/linux-64::r-glue-1.4.0-r35hcdcec82_0
  r-highlight        conda-forge/linux-64::r-highlight-0.5.0-r35h0357c0b_0
  r-highr            conda-forge/noarch::r-highr-0.8-r35h6115d3f_1
  r-htmltools        conda-forge/linux-64::r-htmltools-0.4.0-r35h0357c0b_0
  r-knitr            conda-forge/noarch::r-knitr-1.28-r35h6115d3f_0
  r-markdown         conda-forge/linux-64::r-markdown-1.1-r35hcdcec82_0
  r-mass             conda-forge/linux-64::r-mass-7.3_51.6-r35hcdcec82_1
  r-packrat          conda-forge/noarch::r-packrat-0.5.0-r35h6115d3f_1001
  r-pillar           pkgs/r/linux-64::r-pillar-1.3.0-r351h6115d3f_0
  r-pkgbuild         conda-forge/noarch::r-pkgbuild-1.0.7-r35h6115d3f_0
  r-pkgdown          conda-forge/noarch::r-pkgdown-1.3.0-r35h6115d3f_1001
  r-pkgload          conda-forge/linux-64::r-pkgload-1.0.2-r35h0357c0b_1001
  r-prettyunits      conda-forge/noarch::r-prettyunits-1.1.1-r35h6115d3f_0
  r-processx         conda-forge/linux-64::r-processx-3.4.2-r35hcdcec82_0
  r-ps               conda-forge/linux-64::r-ps-1.3.2-r35hcdcec82_0
  r-purrr            conda-forge/linux-64::r-purrr-0.2.5-r351h96ca727_1002
  r-rcpp             conda-forge/linux-64::r-rcpp-1.0.4.6-r35h0357c0b_0
  r-rematch2         conda-forge/noarch::r-rematch2-2.1.2-r35h6115d3f_0
  r-rmarkdown        conda-forge/noarch::r-rmarkdown-2.1-r35h6115d3f_0
  r-roxygen2         conda-forge/linux-64::r-roxygen2-6.1.1-r35h0357c0b_1001
  r-rprojroot        conda-forge/noarch::r-rprojroot-1.3_2-r35h6115d3f_1002
  r-rsconnect        conda-forge/noarch::r-rsconnect-0.8.16-r35h6115d3f_0
  r-stringi          conda-forge/linux-64::r-stringi-1.4.3-r35h0357c0b_2
  r-stringr          conda-forge/noarch::r-stringr-1.4.0-r35h6115d3f_1
  r-tibble           conda-forge/linux-64::r-tibble-1.4.2-r351h96ca727_1002
  r-tinytex          conda-forge/noarch::r-tinytex-0.22-r35h6115d3f_0
  r-utf8             conda-forge/linux-64::r-utf8-1.1.4-r35hcdcec82_1002
  r-xfun             conda-forge/noarch::r-xfun-0.13-r35h6115d3f_0
  r-xml2             conda-forge/linux-64::r-xml2-1.3.2-r35h0357c0b_0
  r-yaml             conda-forge/linux-64::r-yaml-2.2.1-r35hcdcec82_0

The following packages will be UPDATED:

  ca-certificates    pkgs/main::ca-certificates-2019.11.27~ --> conda-forge::ca-certificates-2020.4.5.1-hecc5488_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl              pkgs/main::openssl-1.1.1g-h7b6447c_0 --> conda-forge::openssl-1.1.1g-h516909a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
-- The C compiler identification is GNU 7.3.0
-- The CXX compiler identification is GNU 7.3.0
-- Check for working C compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-cc
-- Check for working C compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-c++
-- Check for working CXX compiler: /home/docs/.conda/envs/r_env/bin/x86_64-conda_cos6-linux-gnu-c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring incomplete, errors occurred!
See also "/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/lightgbm_r/src/build/CMakeFiles/CMakeOutput.log".

Updating lightgbm documentation
Loading lightgbm
Re-compiling lightgbm
'/home/docs/.conda/envs/r_env/lib/R/bin/R' --no-site-file --no-environ  \
  --no-save --no-restore --quiet CMD INSTALL  \
  '/home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/lightgbm_r'  \
  --library='/tmp/RtmpT7BLvD/devtools_install_be97189381e' --no-R --no-data  \
  --no-help --no-demo --no-inst --no-docs --no-exec --no-multiarch  \
  --no-test-load --preclean 

* installing *source* package ‘lightgbm’ ...
** libs
installing via 'install.libs.R' to /tmp/RtmpT7BLvD/devtools_install_be97189381e/lightgbm
R version passed into FindLibR.cmake: 3.5.1
CMake Error at /home/docs/.conda/envs/r_env/share/cmake-3.14/Modules/FindPackageHandleStandardArgs.cmake:137 (message):
  Could NOT find LibR (missing: LIBR_CORE_LIBRARY)
Call Stack (most recent call first):
  /home/docs/.conda/envs/r_env/share/cmake-3.14/Modules/FindPackageHandleStandardArgs.cmake:378 (_FPHSA_FAILURE_MESSAGE)
  cmake/modules/FindLibR.cmake:221 (find_package_handle_standard_args)
  CMakeLists.txt:76 (find_package)


make: *** No rule to make target '_lightgbm'.  Stop.
Error in eval(ei, envir) : Cannot find lib_lightgbm.so
* removing ‘/tmp/RtmpT7BLvD/devtools_install_be97189381e/lightgbm’
Error: Command failed (1)
Execution haltedSearching for include files...
Searching for example files...
Searching for images...
Searching for dot files...
Searching for msc files...
Searching for dia files...
Searching for files to exclude
Searching INPUT for files to process...
Reading and parsing tag files
Parsing files
Preprocessing /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/include/LightGBM/c_api.h...
Parsing file /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/include/LightGBM/c_api.h...
Building group list...
Building directory list...
Building namespace list...
Building file list...
Building class list...
Associating documentation with classes...
Computing nesting relations for classes...
Building example list...
Searching for enumerations...
Searching for documented typedefs...
Searching for members imported via using declarations...
Searching for included using directives...
Searching for documented variables...
Building interface member list...
Building member list...
Searching for friends...
Searching for documented defines...
Computing class inheritance relations...
Computing class usage relations...
Flushing cached template relations that have become invalid...
Computing class relations...
Add enum values to enums...
Searching for member function documentation...
Creating members for template instances...
Building page list...
Search for main page...
Computing page relations...
Determining the scope of groups...
Sorting lists...
Freeing entry tree
Determining which enums are documented
Computing member relations...
Building full member lists recursively...
Adding members to member groups.
Computing member references...
Inheriting documentation...
Generating disk names...
Adding source references...
Adding xrefitems...
Sorting member lists...
Computing dependencies between directories...
Generating citations page...
Counting data structures...
Resolving user defined references...
Finding anchors and sections in the documentation...
Transferring function references...
Combining using relations...
Adding members to index pages...
Generating style sheet...
Generating search indices...
Generating example documentation...
Generating file sources...
Generating code for file /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/include/LightGBM/c_api.h...
Generating file documentation...
Generating docs for file /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/include/LightGBM/c_api.h...
Generating page documentation...
Generating group documentation...
Generating class documentation...
Generating namespace index...
Generating graph info page...
Generating directory documentation...
finalizing index lists...
writing tag file...
Generating XML output...
Generating XML output for file c_api.h
Generate XML output for dir /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/include/
Generate XML output for dir /home/docs/checkouts/readthedocs.org/user_builds/lightgbm/checkouts/latest/include/LightGBM/
Running dot...
lookup cache used 71/65536 hits=591 misses=71
finished...



The full traceback has been saved in /tmp/sphinx-err-tcmutc05.log, if you want to report the issue to the developers.
Please also report this if it was a user error, so that a better error message can be provided next time.
A bug report can be filed in the tracker at <https://github.com/sphinx-doc/sphinx/issues>. Thanks!

The text was updated successfully, but these errors were encountered:

jameslamb · 2020-05-04T00:21:56Z

I created a conda environment with r-base in it on my laptop, and found that conda will use ${LIBR_HOME}/lib as the location for the core library. That path was removed in #2963 because /lib isn't used by any of the standard R installations. I didn't realize that's how conda did it.

github-actions · 2023-08-23T23:56:17Z

This issue has been automatically locked since there has not been any recent activity since it was closed. To start a new related discussion, open a new issue at https://github.com/microsoft/LightGBM/issues including a reference to this.

jameslamb added the bug label May 4, 2020

jameslamb mentioned this issue May 4, 2020

[R-package] CMake fixes to support MSVC #2963

Merged

jameslamb added a commit to jameslamb/LightGBM that referenced this issue May 4, 2020

[R-package] add conda dir for LIBR_CORE_LIBRARY (fixes microsoft#3045)

91b7f7e

jameslamb added a commit that referenced this issue May 4, 2020

[R-package] add conda dir for LIBR_CORE_LIBRARY (fixes #3045)

77d3746

jameslamb mentioned this issue May 4, 2020

[R-package] add conda dir for LIBR_CORE_LIBRARY (fixes #3045) #3046

Merged

StrikerRUS closed this as completed in 5e0958f May 4, 2020

github-actions bot locked as resolved and limited conversation to collaborators Aug 23, 2023

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[ci] [docs] readthedocs build broken: Could not find LibR #3045

[ci] [docs] readthedocs build broken: Could not find LibR #3045

jameslamb commented May 4, 2020

jameslamb commented May 4, 2020

github-actions bot commented Aug 23, 2023

[ci] [docs] readthedocs build broken: Could not find LibR #3045

[ci] [docs] readthedocs build broken: Could not find LibR #3045

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jameslamb commented May 4, 2020

jameslamb commented May 4, 2020

github-actions bot commented Aug 23, 2023