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Published 20 hours ago • verified publisher icon IQSS

mention `xcode-select --install` in readme

Open pdurbin opened this issue 10 years ago • 1 comments

http://stackoverflow.com/questions/19548011/cannot-install-lxml-on-mac-os-x-10-9 clued me in that I need to run xcode-select --install for installation. Before I did this I was getting the following:

murphy:dataverse-client-python pdurbin$ cd dataverse/test
murphy:test pdurbin$ mkvirtualenv dataverse-client-python
New python executable in dataverse-client-python/bin/python
Installing setuptools, pip...done.
(dataverse-client-python)murphy:test pdurbin$ pip install -e git+https://github.com/IQSS/dataverse-client-python.git#egg=dataverse
Obtaining dataverse from git+https://github.com/IQSS/dataverse-client-python.git#egg=dataverse
  Cloning https://github.com/IQSS/dataverse-client-python.git to /Users/pdurbin/.virtualenvs/dataverse-client-python/src/dataverse
  Running setup.py (path:/Users/pdurbin/.virtualenvs/dataverse-client-python/src/dataverse/setup.py) egg_info for package dataverse

  Installing extra requirements: 'egg'
Downloading/unpacking bleach>=1.2.2 (from dataverse)
  Downloading bleach-1.4.1.tar.gz
  Running setup.py (path:/Users/pdurbin/.virtualenvs/dataverse-client-python/build/bleach/setup.py) egg_info for package bleach

Downloading/unpacking requests>=2.2.1 (from dataverse)
  Downloading requests-2.6.0-py2.py3-none-any.whl (469kB): 469kB downloaded
Downloading/unpacking lxml>=3.2.5 (from dataverse)
  Downloading lxml-3.4.2.tar.gz (3.5MB): 3.5MB downloaded
  Running setup.py (path:/Users/pdurbin/.virtualenvs/dataverse-client-python/build/lxml/setup.py) egg_info for package lxml
    /System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'bugtrack_url'
      warnings.warn(msg)
    Building lxml version 3.4.2.
    Building without Cython.
    Using build configuration of libxslt 1.1.28

    warning: no previously-included files found matching '*.py'
Downloading/unpacking six (from bleach>=1.2.2->dataverse)
  Downloading six-1.9.0-py2.py3-none-any.whl
Downloading/unpacking html5lib>=0.999 (from bleach>=1.2.2->dataverse)
  Downloading html5lib-0.999.tar.gz (885kB): 885kB downloaded
  Running setup.py (path:/Users/pdurbin/.virtualenvs/dataverse-client-python/build/html5lib/setup.py) egg_info for package html5lib

Installing collected packages: dataverse, bleach, requests, lxml, six, html5lib
  Running setup.py develop for dataverse

    Creating /Users/pdurbin/.virtualenvs/dataverse-client-python/lib/python2.7/site-packages/dataverse.egg-link (link to .)
    Adding dataverse 0.1.1 to easy-install.pth file

    Installed /Users/pdurbin/.virtualenvs/dataverse-client-python/src/dataverse
  Running setup.py install for bleach

  Running setup.py install for lxml
    /System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'bugtrack_url'
      warnings.warn(msg)
    Building lxml version 3.4.2.
    Building without Cython.
    Using build configuration of libxslt 1.1.28
    building 'lxml.etree' extension
    cc -fno-strict-aliasing -fno-common -dynamic -arch x86_64 -arch i386 -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -fwrapv -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch x86_64 -arch i386 -pipe -I/usr/include/libxml2 -I/Users/pdurbin/.virtualenvs/dataverse-client-python/build/lxml/src/lxml/includes -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c src/lxml/lxml.etree.c -o build/temp.macosx-10.10-intel-2.7/src/lxml/lxml.etree.o -w -flat_namespace
    In file included from src/lxml/lxml.etree.c:239:
    /Users/pdurbin/.virtualenvs/dataverse-client-python/build/lxml/src/lxml/includes/etree_defs.h:14:10: fatal error: 'libxml/xmlversion.h' file not found
    #include "libxml/xmlversion.h"
             ^
    1 error generated.
    error: command 'cc' failed with exit status 1
    Complete output from command /Users/pdurbin/.virtualenvs/dataverse-client-python/bin/python -c "import setuptools, tokenize;__file__='/Users/pdurbin/.virtualenvs/dataverse-client-python/build/lxml/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /var/folders/b1/ljf2sy_10bb4vr047b8jpgzm0000gn/T/pip-aE_YTw-record/install-record.txt --single-version-externally-managed --compile --install-headers /Users/pdurbin/.virtualenvs/dataverse-client-python/include/site/python2.7:
    /System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'bugtrack_url'

  warnings.warn(msg)

Building lxml version 3.4.2.

Building without Cython.

Using build configuration of libxslt 1.1.28

running install

running build

running build_py

creating build

creating build/lib.macosx-10.10-intel-2.7

creating build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/__init__.py -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/_elementpath.py -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/builder.py -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/cssselect.py -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/doctestcompare.py -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/ElementInclude.py -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/pyclasslookup.py -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/sax.py -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/usedoctest.py -> build/lib.macosx-10.10-intel-2.7/lxml

creating build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/__init__.py -> build/lib.macosx-10.10-intel-2.7/lxml/includes

creating build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/__init__.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/_diffcommand.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/_html5builder.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/_setmixin.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/builder.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/clean.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/defs.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/diff.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/ElementSoup.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/formfill.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/html5parser.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/soupparser.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

copying src/lxml/html/usedoctest.py -> build/lib.macosx-10.10-intel-2.7/lxml/html

creating build/lib.macosx-10.10-intel-2.7/lxml/isoschematron

copying src/lxml/isoschematron/__init__.py -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron

copying src/lxml/lxml.etree.h -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/lxml.etree_api.h -> build/lib.macosx-10.10-intel-2.7/lxml

copying src/lxml/includes/c14n.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/config.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/dtdvalid.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/etreepublic.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/htmlparser.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/relaxng.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/schematron.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/tree.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/uri.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/xinclude.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/xmlerror.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/xmlparser.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/xmlschema.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/xpath.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/xslt.pxd -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/etree_defs.h -> build/lib.macosx-10.10-intel-2.7/lxml/includes

copying src/lxml/includes/lxml-version.h -> build/lib.macosx-10.10-intel-2.7/lxml/includes

creating build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources

creating build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/rng

copying src/lxml/isoschematron/resources/rng/iso-schematron.rng -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/rng

creating build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl

copying src/lxml/isoschematron/resources/xsl/RNG2Schtrn.xsl -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl

copying src/lxml/isoschematron/resources/xsl/XSD2Schtrn.xsl -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl

creating build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl/iso-schematron-xslt1

copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_abstract_expand.xsl -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl/iso-schematron-xslt1

copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_dsdl_include.xsl -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl/iso-schematron-xslt1

copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_schematron_message.xsl -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl/iso-schematron-xslt1

copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_schematron_skeleton_for_xslt1.xsl -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl/iso-schematron-xslt1

copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_svrl_for_xslt1.xsl -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl/iso-schematron-xslt1

copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/readme.txt -> build/lib.macosx-10.10-intel-2.7/lxml/isoschematron/resources/xsl/iso-schematron-xslt1

running build_ext

building 'lxml.etree' extension

creating build/temp.macosx-10.10-intel-2.7

creating build/temp.macosx-10.10-intel-2.7/src

creating build/temp.macosx-10.10-intel-2.7/src/lxml

cc -fno-strict-aliasing -fno-common -dynamic -arch x86_64 -arch i386 -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -fwrapv -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch x86_64 -arch i386 -pipe -I/usr/include/libxml2 -I/Users/pdurbin/.virtualenvs/dataverse-client-python/build/lxml/src/lxml/includes -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c src/lxml/lxml.etree.c -o build/temp.macosx-10.10-intel-2.7/src/lxml/lxml.etree.o -w -flat_namespace

In file included from src/lxml/lxml.etree.c:239:

/Users/pdurbin/.virtualenvs/dataverse-client-python/build/lxml/src/lxml/includes/etree_defs.h:14:10: fatal error: 'libxml/xmlversion.h' file not found

#include "libxml/xmlversion.h"

         ^

1 error generated.

error: command 'cc' failed with exit status 1

----------------------------------------
Cleaning up...
Command /Users/pdurbin/.virtualenvs/dataverse-client-python/bin/python -c "import setuptools, tokenize;__file__='/Users/pdurbin/.virtualenvs/dataverse-client-python/build/lxml/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /var/folders/b1/ljf2sy_10bb4vr047b8jpgzm0000gn/T/pip-aE_YTw-record/install-record.txt --single-version-externally-managed --compile --install-headers /Users/pdurbin/.virtualenvs/dataverse-client-python/include/site/python2.7 failed with error code 1 in /Users/pdurbin/.virtualenvs/dataverse-client-python/build/lxml
Storing debug log for failure in /Users/pdurbin/.pip/pip.log
(dataverse-client-python)murphy:test pdurbin$ 
(dataverse-client-python)murphy:test pdurbin$ sw_vers 
ProductName:    Mac OS X
ProductVersion: 10.10.3
BuildVersion:   14D131
murphy:~ pdurbin$

pdurbin avatar Apr 15 '15 17:04 pdurbin

I'm not convinced that this belongs in a readme—it's a platform-specific lxml issue and not necessarily part of the installation process. I do think this poses the bigger issue of needing documentation outside the readme that includes these kinds of issues, maybe at https://readthedocs.org/.

rliebz avatar Apr 16 '15 14:04 rliebz