Installing lxml with pip in virtualenv Ubuntu 12.10 error: command 'gcc' failed with exit status 4


Question

I'm having the following error when trying to run "pip install lxml" into a virtualenv in Ubuntu 12.10 x64. I have Python 2.7.

I have seen other related questions here about the same problem and tried installing python-dev, libxml2-dev and libxslt1-dev.

Please take a look of the traceback from the moment I tip the command to the moment when the error occurs.

Downloading/unpacking lxml
  Running setup.py egg_info for package lxml
    /usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'bugtrack_url'
      warnings.warn(msg)
    Building lxml version 3.1.2.
    Building without Cython.
    Using build configuration of libxslt 1.1.26
    Building against libxml2/libxslt in the following directory: /usr/lib

    warning: no files found matching '*.txt' under directory 'src/lxml/tests'
Installing collected packages: lxml
  Running setup.py install for lxml
    /usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'bugtrack_url'
      warnings.warn(msg)
    Building lxml version 3.1.2.
    Building without Cython.
    Using build configuration of libxslt 1.1.26
    Building against libxml2/libxslt in the following directory: /usr/lib
    building 'lxml.etree' extension
    gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/include/libxml2 -I/home/admin/.virtualenvs/dev.actualito.com/build/lxml/src/lxml/includes -I/usr/include/python2.7 -c src/lxml/lxml.etree.c -o build/temp.linux-x86_64-2.7/src/lxml/lxml.etree.o
    src/lxml/lxml.etree.c: In function '__pyx_f_4lxml_5etree__getFilenameForFile':
    src/lxml/lxml.etree.c:26851:7: warning: variable '__pyx_clineno' set but not used [-Wunused-but-set-variable]
    src/lxml/lxml.etree.c:26850:15: warning: variable '__pyx_filename' set but not used [-Wunused-but-set-variable]
    src/lxml/lxml.etree.c:26849:7: warning: variable '__pyx_lineno' set but not used [-Wunused-but-set-variable]
    src/lxml/lxml.etree.c: In function '__pyx_pf_4lxml_5etree_4XSLT_18__call__':
    src/lxml/lxml.etree.c:138273:81: warning: passing argument 1 of '__pyx_f_4lxml_5etree_12_XSLTContext__copy' from incompatible pointer type [enabled by default]
    src/lxml/lxml.etree.c:136229:52: note: expected 'struct __pyx_obj_4lxml_5etree__XSLTContext *' but argument is of type 'struct __pyx_obj_4lxml_5etree__BaseContext *'
    src/lxml/lxml.etree.c: In function '__pyx_f_4lxml_5etree__copyXSLT':
    src/lxml/lxml.etree.c:139667:79: warning: passing argument 1 of '__pyx_f_4lxml_5etree_12_XSLTContext__copy' from incompatible pointer type [enabled by default]
    src/lxml/lxml.etree.c:136229:52: note: expected 'struct __pyx_obj_4lxml_5etree__XSLTContext *' but argument is of type 'struct __pyx_obj_4lxml_5etree__BaseContext *'
    src/lxml/lxml.etree.c: At top level:
    src/lxml/lxml.etree.c:12384:13: warning: '__pyx_f_4lxml_5etree_displayNode' defined but not used [-Wunused-function]
    gcc: internal compiler error: Killed (program cc1)
    Please submit a full bug report,
    with preprocessed source if appropriate.
    See  for instructions.
    error: command 'gcc' failed with exit status 4
    Complete output from command /home/admin/.virtualenvs/dev.actualito.com/bin/python -c "import setuptools;__file__='/home/admin/.virtualenvs/dev.actualito.com/build/lxml/setup.py';exec(compile(open(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-asDtN5-record/install-record.txt --single-version-externally-managed --install-headers /home/admin/.virtualenvs/dev.actualito.com/include/site/python2.7:
    /usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'bugtrack_url'

  warnings.warn(msg)

Building lxml version 3.1.2.

Building without Cython.

Using build configuration of libxslt 1.1.26

Building against libxml2/libxslt in the following directory: /usr/lib

running install

running build

running build_py

copying src/lxml/includes/lxml-version.h -> build/lib.linux-x86_64-2.7/lxml/includes

running build_ext

building 'lxml.etree' extension

gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/include/libxml2 -I/home/admin/.virtualenvs/dev.actualito.com/build/lxml/src/lxml/includes -I/usr/include/python2.7 -c src/lxml/lxml.etree.c -o build/temp.linux-x86_64-2.7/src/lxml/lxml.etree.o

src/lxml/lxml.etree.c: In function '__pyx_f_4lxml_5etree__getFilenameForFile':

src/lxml/lxml.etree.c:26851:7: warning: variable '__pyx_clineno' set but not used [-Wunused-but-set-variable]

src/lxml/lxml.etree.c:26850:15: warning: variable '__pyx_filename' set but not used [-Wunused-but-set-variable]

src/lxml/lxml.etree.c:26849:7: warning: variable '__pyx_lineno' set but not used [-Wunused-but-set-variable]

src/lxml/lxml.etree.c: In function '__pyx_pf_4lxml_5etree_4XSLT_18__call__':

src/lxml/lxml.etree.c:138273:81: warning: passing argument 1 of '__pyx_f_4lxml_5etree_12_XSLTContext__copy' from incompatible pointer type [enabled by default]

src/lxml/lxml.etree.c:136229:52: note: expected 'struct __pyx_obj_4lxml_5etree__XSLTContext *' but argument is of type 'struct __pyx_obj_4lxml_5etree__BaseContext *'

src/lxml/lxml.etree.c: In function '__pyx_f_4lxml_5etree__copyXSLT':

src/lxml/lxml.etree.c:139667:79: warning: passing argument 1 of '__pyx_f_4lxml_5etree_12_XSLTContext__copy' from incompatible pointer type [enabled by default]

src/lxml/lxml.etree.c:136229:52: note: expected 'struct __pyx_obj_4lxml_5etree__XSLTContext *' but argument is of type 'struct __pyx_obj_4lxml_5etree__BaseContext *'

src/lxml/lxml.etree.c: At top level:

src/lxml/lxml.etree.c:12384:13: warning: '__pyx_f_4lxml_5etree_displayNode' defined but not used [-Wunused-function]

gcc: internal compiler error: Killed (program cc1)

Please submit a full bug report,

with preprocessed source if appropriate.

See  for instructions.

error: command 'gcc' failed with exit status 4

----------------------------------------
Command /home/admin/.virtualenvs/dev.actualito.com/bin/python -c "import setuptools;__file__='/home/admin/.virtualenvs/dev.actualito.com/build/lxml/setup.py';exec(compile(open(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-asDtN5-record/install-record.txt --single-version-externally-managed --install-headers /home/admin/.virtualenvs/dev.actualito.com/include/site/python2.7 failed with error code 1 in /home/admin/.virtualenvs/dev.actualito.com/build/lxml
Storing complete log in /home/admin/.pip/pip.log
1
35
4/22/2013 3:17:58 PM

Accepted Answer

Here is the my saved note.

sudo apt-get install libxml2
sudo apt-get install libxslt1.1
sudo apt-get install libxml2-dev
sudo apt-get install libxslt1-dev
sudo apt-get install python-libxml2
sudo apt-get install python-libxslt1
sudo apt-get install python-dev
sudo apt-get install python-setuptools

easy_install lxml

It has worked for my ubuntu 12.10

25
4/22/2013 3:14:33 PM

Make sure you have enough memory. Try dmesg | tail to see if it outputs something like:

...
[3778136.277570] Out of memory: Kill process 21267 (cc1) score 557 or sacrifice child
[3778136.277587] Killed process 21267 (cc1) total-vm:365836kB, anon-rss:336228kB, file-rss:0kB

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