[obspy-users] Problems with lxml (local install)

mgal Martin.Gal at utas.edu.au
Sun Apr 20 15:28:54 CEST 2014


Hi Obspy team,  I want to run Obspy on a machine where I do not have root access and the server is behind a firewall. I am quite limited with the install options and I used easy_install as pip is broken with some SSL error. I can compile all dependencies but when I try to import the obspy package I get the following error:  Python 2.7.5 (default, Apr 17 2014, 09:21:05)  [GCC 4.1.2 20070115 (SUSE Linux)] on linux2 Type "help", "copyright", "credits" or "license" for more information. >>> import lxml >>> import obspy Traceback (most recent call last):   File "<stdin>", line 1, in <module>   File "/u/mgal/local/lib/python2.7/site-packages/obspy-0.9.0-py2.7-linux-x86_64.egg/obspy/__init__.py", line 38, in <module>     from obspy.station import read_inventory # NOQA   File "/u/mgal/local/lib/python2.7/site-packages/obspy-0.9.0-py2.7-linux-x86_64.egg/obspy/station/__init__.py", line 8, in <module>     from obspy.station.inventory import Inventory, read_inventory   File "/u/mgal/local/lib/python2.7/site-packages/obspy-0.9.0-py2.7-linux-x86_64.egg/obspy/station/inventory.py", line 17, in <module>     from obspy.station.stationxml import SOFTWARE_MODULE, SOFTWARE_URI   File "/u/mgal/local/lib/python2.7/site-packages/obspy-0.9.0-py2.7-linux-x86_64.egg/obspy/station/stationxml.py", line 14, in <module>     from lxml import etree ImportError: /u/mgal/local/lib/python2.7/site-packages/lxml-3.3.5-py2.7-linux-x86_64.egg/lxml/etree.so: undefined symbol: clock_gettime  I tracked the error down to be a problem with the recent gcc compiler. Apparently someone wrote a fix for it (https://pypi.python.org/pypi/z3c.recipe.staticlxml). With my unix knowledge I am not able to perform this fix as the documentation is not sufficient for me.  Is there any other way I could solve this issue? I am only using the obspy.core.read function maybe I can install that separately without the need of lxml?  Than you very much, best regards, Martin  
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