Error building chpldoc with conda #7168

buddha314 · 2017-08-31T20:16:20Z

make chpldoc

Gives this error during compilation

ImportError: dlopen(/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/lib-dynload/_io.so, 2): Symbol not found: __PyCodecInfo_GetIncrementalDecoder
  Referenced from: /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/lib-dynload/_io.so
  Expected in: flat namespace
 in /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/lib-dynload/_io.so
----------------------------------------
...Installing setuptools, pip...done.
Traceback (most recent call last):
  File "install/darwin/py2.7/virtualenv", line 11, in <module>
    load_entry_point('virtualenv==12.0.5', 'console_scripts', 'virtualenv')()
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv.py", line 825, in main
    symlink=options.symlink)
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv.py", line 993, in create_environment
    install_wheel(to_install, py_executable, search_dirs)
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv.py", line 961, in install_wheel
    'PIP_NO_INDEX': '1'
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv.py", line 903, in call_subprocess
    % (cmd_desc, proc.returncode))
OSError: Command /Users/buddha/github...irtualenv/bin/python -c "import sys, pip; sys...d\"] + sys.argv[1:]))" setuptools pip failed with error code 1
make[2]: *** [/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv] Error 1
make[1]: *** [/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-build] Error 2
make: [third-party-chpldoc-venv] Error 2 (ignored)
cd compiler && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[1]: Nothing to be done for `chpldoc'.
cd man && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[2]: Nothing to be done for `chpldoc'.

If you ignore this because you're in a hurry and try to compile something with a math directive, you may get

writing output... [100%] modules/src/NumSuch                                                                                                          
Warning, treated as error:
/var/folders/g5/4zwyfk513hd94tjs1fm5mdq00000gn/T/chpldoc-buddha-78935.deleteme/source/modules/src/NumSuch.rst:20: WARNING: using "math" markup without a Sphinx math extension active, please use one of the math extensions described at http://sphinx-doc.org/ext/math.html

error: building html output from chpldoc sphinx project

chpl --version
chpl Version 1.16.0 pre-release (2ba7d873d9)
Copyright (c) 2004-2017, Cray Inc.  (See LICENSE file for more details)

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

lydia-duncan · 2017-08-31T20:21:28Z

What's your python version? This stackoverflow post seems to indicate that is a python version issue with 2.7

buddha314 · 2017-08-31T20:55:58Z

Python 2.7.13 :: Continuum Analytics, Inc.

lydia-duncan · 2017-08-31T21:07:47Z

Maybe try 2.7.12? The post made it sound like a recurring issue :/

lydia-duncan · 2017-08-31T21:08:34Z

In any case, the problem seems to be with the python stuff chpldoc relies on, so something about your build environment - either python or your version of virtualenv

buddha314 · 2017-08-31T21:09:54Z

I'll try updating and let you know

ben-albrecht · 2017-08-31T23:45:05Z

I believe using conda with virtualenv is the issue (chpldoc relies on a virtualenv). There were some long-standing incompatibility issues between conda and virtualenv, but they have been resolved with the latest virtualenv, if installed via conda.

Unfortunately, our build-system installs virtualenv with easy_install, so there are likely some build changes required to support anaconda...

buddha314 · 2017-09-01T23:51:03Z

Just reporting in, I'm using my system Python, and it's 2.7. Not sure about next steps. Bruce said I should tell an adult about that...

buddha314 · 2017-09-01T23:59:41Z

Small update, at the end of my .bash_profile I had miniconda:

# added by Miniconda2 4.3.14 installer
export PATH="/Users/buddha/miniconda2/bin:$PATH"

Under that, I get

python --version
Python 2.7.13 :: Continuum Analytics, Inc.

Without it

Python 2.7.10

then

macbuddha:chapel buddha$ make chpldoc
cd compiler && /Applications/Xcode.app/Contents/Developer/usr/bin/make
/Applications/Xcode.app/Contents/Developer/usr/bin/make -C /Users/buddha/github/chapel/third-party/llvm none
make[2]: Nothing to be done for `none'.
***** adt/ *****
***** AST/ *****
***** backend/ *****
***** codegen/ *****
***** ifa/ *****
***** ipe/ *****
***** main/ *****
***** optimizations/ *****
***** parser/ *****
***** passes/ *****
***** resolution/ *****
***** util/ *****
***** ./ *****
cd chpl-venv && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc-venv
export PYTHONPATH=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7:$PYTHONPATH && \
	/usr/local/bin/easy_install --install-dir=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7 virtualenv==12.0.5
Searching for virtualenv==12.0.5
Best match: virtualenv 12.0.5
Processing virtualenv-12.0.5-py2.7.egg
virtualenv 12.0.5 is already the active version in easy-install.pth
Installing virtualenv script to /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7
Installing virtualenv-2.7 script to /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7

Using /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg
Processing dependencies for virtualenv==12.0.5
Finished processing dependencies for virtualenv==12.0.5
install/darwin/py2.7/virtualenv --python=/usr/bin/python /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv
Running virtualenv with interpreter /usr/bin/python
New python executable in /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/python
Installing setuptools, pip...
  Complete output from command /Users/buddha/github...irtualenv/bin/python -c "import sys, pip; sys...d\"] + sys.argv[1:]))" setuptools pip:
  Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv_support/pip-6.0.6-py2.py3-none-any.whl/pip/__init__.py", line 13, in <module>
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv_support/pip-6.0.6-py2.py3-none-any.whl/pip/utils/__init__.py", line 14, in <module>
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/zipfile.py", line 6, in <module>
    import io
  File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/io.py", line 51, in <module>
    import _io
ImportError: dlopen(/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/lib-dynload/_io.so, 2): Symbol not found: __PyCodecInfo_GetIncrementalDecoder
  Referenced from: /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/lib-dynload/_io.so
  Expected in: flat namespace
 in /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/lib-dynload/_io.so
----------------------------------------
...Installing setuptools, pip...done.
Traceback (most recent call last):
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv.py", line 2352, in <module>
    main()
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv.py", line 825, in main
    symlink=options.symlink)
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv.py", line 993, in create_environment
    install_wheel(to_install, py_executable, search_dirs)
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv.py", line 961, in install_wheel
    'PIP_NO_INDEX': '1'
  File "/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg/virtualenv.py", line 903, in call_subprocess
    % (cmd_desc, proc.returncode))
OSError: Command /Users/buddha/github...irtualenv/bin/python -c "import sys, pip; sys...d\"] + sys.argv[1:]))" setuptools pip failed with error code 1
make[2]: *** [/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv] Error 1
make[1]: *** [/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-build] Error 2
make: [third-party-chpldoc-venv] Error 2 (ignored)
cd compiler && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[1]: Nothing to be done for `chpldoc'.
cd man && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[2]: Nothing to be done for `chpldoc'.

buddha314 · 2017-09-02T00:06:43Z

Blame Bruce for this one:

macbuddha:chapel buddha$ python --version
Python 2.7.9 :: Continuum Analytics, Inc.
macbuddha:chapel buddha$ make chpldoc
cd compiler && /Applications/Xcode.app/Contents/Developer/usr/bin/make
/Applications/Xcode.app/Contents/Developer/usr/bin/make -C /Users/buddha/github/chapel/third-party/llvm none
make[2]: Nothing to be done for `none'.
***** adt/ *****
***** AST/ *****
***** backend/ *****
***** codegen/ *****
***** ifa/ *****
***** ipe/ *****
***** main/ *****
***** optimizations/ *****
***** parser/ *****
***** passes/ *****
***** resolution/ *****
***** util/ *****
***** ./ *****
cd chpl-venv && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc-venv
export PYTHONPATH=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7:$PYTHONPATH && \
	/Users/buddha/miniconda2/bin/easy_install --install-dir=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7 virtualenv==12.0.5
Searching for virtualenv==12.0.5
Best match: virtualenv 12.0.5
Processing virtualenv-12.0.5-py2.7.egg
virtualenv 12.0.5 is already the active version in easy-install.pth
Installing virtualenv script to /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7
Installing virtualenv-2.7 script to /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7

Using /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg
Processing dependencies for virtualenv==12.0.5
Finished processing dependencies for virtualenv==12.0.5
install/darwin/py2.7/virtualenv --python=/Users/buddha/miniconda2/bin/python /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv
Already using interpreter /Users/buddha/miniconda2/bin/python
New python executable in /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/python
Installing setuptools, pip...done.
export PATH=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin:$PATH && \
	export VIRTUAL_ENV=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv && \
	python /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pip install \
	-U --force-reinstall -r chpldoc-requirements.txt && \
	install/darwin/py2.7/virtualenv --relocatable /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv
You are using pip version 6.0.6, however version 9.0.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
Collecting Jinja2==2.8 (from -r chpldoc-requirements.txt (line 1))
  Downloading Jinja2-2.8-py2.py3-none-any.whl (263kB)
    100% |################################| 266kB 9.6MB/s 
Collecting MarkupSafe==0.23 (from -r chpldoc-requirements.txt (line 2))
  Downloading MarkupSafe-0.23.tar.gz
Collecting Pygments<3,>=2 (from -r chpldoc-requirements.txt (line 3))
  Downloading Pygments-2.2.0-py2.py3-none-any.whl (841kB)
    100% |################################| 843kB 6.4MB/s 
Collecting Sphinx==1.3.3 (from -r chpldoc-requirements.txt (line 4))
  Downloading Sphinx-1.3.3-py2.py3-none-any.whl (1.5MB)
    100% |################################| 1.5MB 4.5MB/s 
Collecting docutils==0.12 (from -r chpldoc-requirements.txt (line 5))
  Downloading docutils-0.12.tar.gz (1.6MB)
    100% |################################| 1.6MB 3.4MB/s 
Collecting argparse==1.3.0 (from -r chpldoc-requirements.txt (line 6))
  Downloading argparse-1.3.0-py2.py3-none-any.whl
Collecting sphinx-rtd-theme==0.1.9 (from -r chpldoc-requirements.txt (line 7))
  Downloading sphinx_rtd_theme-0.1.9-py2-none-any.whl (693kB)
    100% |################################| 696kB 6.6MB/s 
Collecting sphinxcontrib-chapeldomain>=0.0.10 (from -r chpldoc-requirements.txt (line 8))
  Downloading sphinxcontrib-chapeldomain-0.0.14.tar.gz
Collecting babel!=2.0,>=1.3 (from Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading Babel-2.5.0-py2.py3-none-any.whl (6.8MB)
    100% |################################| 6.8MB 898kB/s 
Collecting snowballstemmer>=1.1 (from Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading snowballstemmer-1.2.1-py2.py3-none-any.whl (64kB)
    100% |################################| 65kB 2.6MB/s 
Collecting six>=1.4 (from Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading six-1.10.0-py2.py3-none-any.whl
Collecting alabaster<0.8,>=0.7 (from Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading alabaster-0.7.10-py2.py3-none-any.whl
Collecting pytz>=0a (from babel!=2.0,>=1.3->Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading pytz-2017.2-py2.py3-none-any.whl (484kB)
    100% |################################| 487kB 5.7MB/s 
Installing collected packages: pytz, alabaster, six, snowballstemmer, babel, sphinxcontrib-chapeldomain, sphinx-rtd-theme, argparse, docutils, Sphinx, Pygments, MarkupSafe, Jinja2





  Running setup.py install for sphinxcontrib-chapeldomain
    Skipping installation of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/site-packages/sphinxcontrib/__init__.py (namespace package)
    Installing /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/site-packages/sphinxcontrib_chapeldomain-0.0.14-py2.7-nspkg.pth


  Running setup.py install for docutils
    changing mode of build/scripts-2.7/rst2html.py from 644 to 755
    changing mode of build/scripts-2.7/rst2s5.py from 644 to 755
    changing mode of build/scripts-2.7/rst2latex.py from 644 to 755
    changing mode of build/scripts-2.7/rst2xetex.py from 644 to 755
    changing mode of build/scripts-2.7/rst2man.py from 644 to 755
    changing mode of build/scripts-2.7/rst2xml.py from 644 to 755
    changing mode of build/scripts-2.7/rst2pseudoxml.py from 644 to 755
    changing mode of build/scripts-2.7/rstpep2html.py from 644 to 755
    changing mode of build/scripts-2.7/rst2odt.py from 644 to 755
    changing mode of build/scripts-2.7/rst2odt_prepstyles.py from 644 to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2html.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2latex.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2man.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2odt.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2odt_prepstyles.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2pseudoxml.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2s5.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2xetex.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2xml.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rstpep2html.py to 755


  Running setup.py install for MarkupSafe
    building 'markupsafe._speedups' extension
    gcc -fno-strict-aliasing -I/Users/buddha/miniconda2/include -arch x86_64 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/Users/buddha/miniconda2/include/python2.7 -c markupsafe/_speedups.c -o build/temp.macosx-10.5-x86_64-2.7/markupsafe/_speedups.o
    gcc -bundle -undefined dynamic_lookup -L/Users/buddha/miniconda2/lib -arch x86_64 -arch x86_64 build/temp.macosx-10.5-x86_64-2.7/markupsafe/_speedups.o -L/Users/buddha/miniconda2/lib -o build/lib.macosx-10.5-x86_64-2.7/markupsafe/_speedups.so

Successfully installed Jinja2-2.8 MarkupSafe-0.23 Pygments-2.2.0 Sphinx-1.3.3 alabaster-0.7.10 argparse-1.3.0 babel-2.5.0 docutils-0.12 pytz-2017.2 six-1.10.0 snowballstemmer-1.2.1 sphinx-rtd-theme-0.1.9 sphinxcontrib-chapeldomain-0.0.14
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/easy_install relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/easy_install-2.7 relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pip relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pip2 relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pip2.7 relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pybabel relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pygmentize relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2html.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2latex.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2man.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2odt.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2odt_prepstyles.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2pseudoxml.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2s5.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2xetex.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2xml.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rstpep2html.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-apidoc relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-autogen relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-build relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-quickstart relative
cd compiler && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[1]: Nothing to be done for `chpldoc'.
cd man && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[2]: Nothing to be done for `chpldoc'.

buddha314 · 2017-09-02T00:10:25Z

Blame him for this one, too. Upgraded to most current Conda

macbuddha:chapel buddha$ python --version
Python 2.7.9 :: Continuum Analytics, Inc.
macbuddha:chapel buddha$ make chpldoc
cd compiler && /Applications/Xcode.app/Contents/Developer/usr/bin/make
/Applications/Xcode.app/Contents/Developer/usr/bin/make -C /Users/buddha/github/chapel/third-party/llvm none
make[2]: Nothing to be done for `none'.
***** adt/ *****
***** AST/ *****
***** backend/ *****
***** codegen/ *****
***** ifa/ *****
***** ipe/ *****
***** main/ *****
***** optimizations/ *****
***** parser/ *****
***** passes/ *****
***** resolution/ *****
***** util/ *****
***** ./ *****
cd chpl-venv && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc-venv
export PYTHONPATH=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7:$PYTHONPATH && \
	/Users/buddha/miniconda2/bin/easy_install --install-dir=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7 virtualenv==12.0.5
Searching for virtualenv==12.0.5
Best match: virtualenv 12.0.5
Processing virtualenv-12.0.5-py2.7.egg
virtualenv 12.0.5 is already the active version in easy-install.pth
Installing virtualenv script to /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7
Installing virtualenv-2.7 script to /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7

Using /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/virtualenv-12.0.5-py2.7.egg
Processing dependencies for virtualenv==12.0.5
Finished processing dependencies for virtualenv==12.0.5
install/darwin/py2.7/virtualenv --python=/Users/buddha/miniconda2/bin/python /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv
Already using interpreter /Users/buddha/miniconda2/bin/python
New python executable in /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/python
Installing setuptools, pip...done.
export PATH=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin:$PATH && \
	export VIRTUAL_ENV=/Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv && \
	python /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pip install \
	-U --force-reinstall -r chpldoc-requirements.txt && \
	install/darwin/py2.7/virtualenv --relocatable /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv
You are using pip version 6.0.6, however version 9.0.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
Collecting Jinja2==2.8 (from -r chpldoc-requirements.txt (line 1))
  Downloading Jinja2-2.8-py2.py3-none-any.whl (263kB)
    100% |################################| 266kB 9.6MB/s 
Collecting MarkupSafe==0.23 (from -r chpldoc-requirements.txt (line 2))
  Downloading MarkupSafe-0.23.tar.gz
Collecting Pygments<3,>=2 (from -r chpldoc-requirements.txt (line 3))
  Downloading Pygments-2.2.0-py2.py3-none-any.whl (841kB)
    100% |################################| 843kB 6.4MB/s 
Collecting Sphinx==1.3.3 (from -r chpldoc-requirements.txt (line 4))
  Downloading Sphinx-1.3.3-py2.py3-none-any.whl (1.5MB)
    100% |################################| 1.5MB 4.5MB/s 
Collecting docutils==0.12 (from -r chpldoc-requirements.txt (line 5))
  Downloading docutils-0.12.tar.gz (1.6MB)
    100% |################################| 1.6MB 3.4MB/s 
Collecting argparse==1.3.0 (from -r chpldoc-requirements.txt (line 6))
  Downloading argparse-1.3.0-py2.py3-none-any.whl
Collecting sphinx-rtd-theme==0.1.9 (from -r chpldoc-requirements.txt (line 7))
  Downloading sphinx_rtd_theme-0.1.9-py2-none-any.whl (693kB)
    100% |################################| 696kB 6.6MB/s 
Collecting sphinxcontrib-chapeldomain>=0.0.10 (from -r chpldoc-requirements.txt (line 8))
  Downloading sphinxcontrib-chapeldomain-0.0.14.tar.gz
Collecting babel!=2.0,>=1.3 (from Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading Babel-2.5.0-py2.py3-none-any.whl (6.8MB)
    100% |################################| 6.8MB 898kB/s 
Collecting snowballstemmer>=1.1 (from Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading snowballstemmer-1.2.1-py2.py3-none-any.whl (64kB)
    100% |################################| 65kB 2.6MB/s 
Collecting six>=1.4 (from Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading six-1.10.0-py2.py3-none-any.whl
Collecting alabaster<0.8,>=0.7 (from Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading alabaster-0.7.10-py2.py3-none-any.whl
Collecting pytz>=0a (from babel!=2.0,>=1.3->Sphinx==1.3.3->-r chpldoc-requirements.txt (line 4))
  Downloading pytz-2017.2-py2.py3-none-any.whl (484kB)
    100% |################################| 487kB 5.7MB/s 
Installing collected packages: pytz, alabaster, six, snowballstemmer, babel, sphinxcontrib-chapeldomain, sphinx-rtd-theme, argparse, docutils, Sphinx, Pygments, MarkupSafe, Jinja2





  Running setup.py install for sphinxcontrib-chapeldomain
    Skipping installation of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/site-packages/sphinxcontrib/__init__.py (namespace package)
    Installing /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/lib/python2.7/site-packages/sphinxcontrib_chapeldomain-0.0.14-py2.7-nspkg.pth


  Running setup.py install for docutils
    changing mode of build/scripts-2.7/rst2html.py from 644 to 755
    changing mode of build/scripts-2.7/rst2s5.py from 644 to 755
    changing mode of build/scripts-2.7/rst2latex.py from 644 to 755
    changing mode of build/scripts-2.7/rst2xetex.py from 644 to 755
    changing mode of build/scripts-2.7/rst2man.py from 644 to 755
    changing mode of build/scripts-2.7/rst2xml.py from 644 to 755
    changing mode of build/scripts-2.7/rst2pseudoxml.py from 644 to 755
    changing mode of build/scripts-2.7/rstpep2html.py from 644 to 755
    changing mode of build/scripts-2.7/rst2odt.py from 644 to 755
    changing mode of build/scripts-2.7/rst2odt_prepstyles.py from 644 to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2html.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2latex.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2man.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2odt.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2odt_prepstyles.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2pseudoxml.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2s5.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2xetex.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2xml.py to 755
    changing mode of /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rstpep2html.py to 755


  Running setup.py install for MarkupSafe
    building 'markupsafe._speedups' extension
    gcc -fno-strict-aliasing -I/Users/buddha/miniconda2/include -arch x86_64 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/Users/buddha/miniconda2/include/python2.7 -c markupsafe/_speedups.c -o build/temp.macosx-10.5-x86_64-2.7/markupsafe/_speedups.o
    gcc -bundle -undefined dynamic_lookup -L/Users/buddha/miniconda2/lib -arch x86_64 -arch x86_64 build/temp.macosx-10.5-x86_64-2.7/markupsafe/_speedups.o -L/Users/buddha/miniconda2/lib -o build/lib.macosx-10.5-x86_64-2.7/markupsafe/_speedups.so

Successfully installed Jinja2-2.8 MarkupSafe-0.23 Pygments-2.2.0 Sphinx-1.3.3 alabaster-0.7.10 argparse-1.3.0 babel-2.5.0 docutils-0.12 pytz-2017.2 six-1.10.0 snowballstemmer-1.2.1 sphinx-rtd-theme-0.1.9 sphinxcontrib-chapeldomain-0.0.14
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/easy_install relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/easy_install-2.7 relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pip relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pip2 relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pip2.7 relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pybabel relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/pygmentize relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2html.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2latex.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2man.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2odt.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2odt_prepstyles.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2pseudoxml.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2s5.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2xetex.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rst2xml.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/rstpep2html.py relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-apidoc relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-autogen relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-build relative
Making script /Users/buddha/github/chapel/third-party/chpl-venv/install/darwin/py2.7/chpl-virtualenv/bin/sphinx-quickstart relative
cd compiler && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[1]: Nothing to be done for `chpldoc'.
cd man && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[2]: Nothing to be done for `chpldoc'.
macbuddha:chapel buddha$ 
macbuddha:chapel buddha$ 
macbuddha:chapel buddha$ conda upgrade python
/Users/buddha/miniconda2/lib/python2.7/site-packages/cffi/model.py:532: UserWarning: 'point_conversion_form_t' has no values explicitly defined; guessing that it is equivalent to 'unsigned int'
  % self._get_c_name())
Fetching package metadata .......
Solving package specifications: ..........

Package plan for installation in environment /Users/buddha/miniconda2:

The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    openssl-1.0.2l             |                0         3.0 MB
    asn1crypto-0.22.0          |           py27_0         145 KB
    pyparsing-2.2.0            |           py27_0          93 KB
    packaging-16.8             |           py27_0          29 KB
    cryptography-1.8.1         |           py27_0         468 KB
    pyopenssl-17.0.0           |           py27_0          73 KB
    conda-4.3.25               |           py27_0         495 KB
    ------------------------------------------------------------
                                           Total:         4.3 MB

The following NEW packages will be INSTALLED:

    asn1crypto:   0.22.0-py27_0
    packaging:    16.8-py27_0  
    pyparsing:    2.2.0-py27_0 

The following packages will be UPDATED:

    conda:        4.2.13-py27_0 --> 4.3.25-py27_0
    cryptography: 0.5.4-py27_0  --> 1.8.1-py27_0 
    openssl:      1.0.1k-1      --> 1.0.2l-0     
    pyopenssl:    0.15.1-py27_2 --> 17.0.0-py27_0
    python:       2.7.9-1       --> 2.7.13-0     

Proceed ([y]/n)? y

Fetching packages ...
openssl-1.0.2l 100% |######################################################################################################| Time: 0:00:00  11.05 MB/s
asn1crypto-0.2 100% |######################################################################################################| Time: 0:00:00 721.28 kB/s
pyparsing-2.2. 100% |######################################################################################################| Time: 0:00:00   2.23 MB/s
packaging-16.8 100% |######################################################################################################| Time: 0:00:00   1.43 MB/s
cryptography-1 100% |######################################################################################################| Time: 0:00:00 917.94 kB/s
pyopenssl-17.0 100% |######################################################################################################| Time: 0:00:00   1.67 MB/s
conda-4.3.25-p 100% |######################################################################################################| Time: 0:00:00   5.14 MB/s
Extracting packages ...
[      COMPLETE      ]|#########################################################################################################################| 100%
Unlinking packages ...
[      COMPLETE      ]|#########################################################################################################################| 100%
Linking packages ...
[      COMPLETE      ]|#########################################################################################################################| 100%
macbuddha:chapel buddha$ python --version
Python 2.7.13 :: Continuum Analytics, Inc.
macbuddha:chapel buddha$ ls
ACKNOWLEDGEMENTS.md LICENSE             PERFORMANCE.md      bin                 configured-prefix   make                test
CHANGES.md          LICENSE.chapel      README.devel        build               doc                 man                 third-party
CONTRIBUTORS.md     LICENSE.devel       README.files        chplconfig          examples            modules             tools
COPYRIGHT           Makefile            README.rst          compiler            highlight           runtime             util
GOALS.md            Makefile.devel      STATUS.devel        configure           lib                 spec
macbuddha:chapel buddha$ make chpldoc
cd compiler && /Applications/Xcode.app/Contents/Developer/usr/bin/make
/Applications/Xcode.app/Contents/Developer/usr/bin/make -C /Users/buddha/github/chapel/third-party/llvm none
make[2]: Nothing to be done for `none'.
***** adt/ *****
***** AST/ *****
***** backend/ *****
***** codegen/ *****
***** ifa/ *****
***** ipe/ *****
***** main/ *****
***** optimizations/ *****
***** parser/ *****
***** passes/ *****
***** resolution/ *****
***** util/ *****
***** ./ *****
make[1]: Nothing to be done for `chpldoc-venv'.
cd compiler && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[1]: Nothing to be done for `chpldoc'.
cd man && /Applications/Xcode.app/Contents/Developer/usr/bin/make chpldoc
make[2]: Nothing to be done for `chpldoc'.

buddha314 · 2017-09-04T16:49:06Z

Now compiles under

python --version
Python 2.7.10

I had to remove this line from my .bash_profile to avoid miniconda

 # added by Miniconda2 4.3.14 installer
 export PATH="/Users/buddha/miniconda2/bin:$PATH

However, I get an error running it, which should be a new ticket.

ben-albrecht added area: Makefiles / Scripts area: Third-Party type: Bug user issue labels Aug 31, 2017

ben-albrecht changed the title ~~Error building chpldoc~~ Error building chpldoc with conda Sep 1, 2017

lydia-duncan added the area: Tools label Sep 1, 2017

buddha314 closed this as completed Sep 4, 2017

ben-albrecht mentioned this issue Sep 20, 2017

Support anaconda python distribution(s) #7413

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Error building chpldoc with conda #7168

Error building chpldoc with conda #7168

buddha314 commented Aug 31, 2017 •

edited

lydia-duncan commented Aug 31, 2017

buddha314 commented Aug 31, 2017

lydia-duncan commented Aug 31, 2017

lydia-duncan commented Aug 31, 2017

buddha314 commented Aug 31, 2017

ben-albrecht commented Aug 31, 2017

buddha314 commented Sep 1, 2017

buddha314 commented Sep 1, 2017

buddha314 commented Sep 2, 2017

buddha314 commented Sep 2, 2017

buddha314 commented Sep 4, 2017

Error building chpldoc with conda #7168

Error building chpldoc with conda #7168

Comments

buddha314 commented Aug 31, 2017 • edited

lydia-duncan commented Aug 31, 2017

buddha314 commented Aug 31, 2017

lydia-duncan commented Aug 31, 2017

lydia-duncan commented Aug 31, 2017

buddha314 commented Aug 31, 2017

ben-albrecht commented Aug 31, 2017

buddha314 commented Sep 1, 2017

buddha314 commented Sep 1, 2017

buddha314 commented Sep 2, 2017

buddha314 commented Sep 2, 2017

buddha314 commented Sep 4, 2017

buddha314 commented Aug 31, 2017 •

edited