Hi Ross,
Did you install pysqlite and sqlite in /usr/local yourself? This definitely looks like a linking problem.
Longer story: that symbol appears to be in that _sqlite.so according to grep: [root@godzilla pysqlite-2.3.2]# grep _enable_shared_cache /usr/local/lib/python2.4/site-packages/pysqlite2/_sqlite.so Binary file /usr/local/lib/python2.4/site-packages/pysqlite2/ _sqlite.so matches
It appears in the python module, but the python module is trying to load that symbol from the sqlite library. Is that library being found? Try something like:
james% ldd /usr/lib/python2.4/site-packages/_sqlite.so libsqlite.so.0 => /usr/lib/libsqlite.so.0 (0x00002aaaaabc2000) libpthread.so.0 => /lib/libpthread.so.0 (0x00002aaaaad1c000) libc.so.6 => /lib/libc.so.6 (0x00002aaaaae31000) /lib64/ld-linux-x86-64.so.2 (0x0000555555554000)
Does it find a target for libsqlite.so? "sqlite3_enable_shared_cache" is only defined in sqlite 3.3.3 and later.
BUT, I get the same error if I use the python2.4 shell to try the same from..import.
Any suggestions welcomed...
Full install log in case it helps follows below
[root@godzilla galaxy_dist]# sh run.sh Architecture appears to be linux-x86_64 python path: /home/rerla/src/galaxy_dist/modules:/home/rerla/src/galaxy_dist/ eggs:/home/rerla/src/galaxy_dist/arch/linux-x86_64/lib/python Traceback (most recent call last): File "paster.py", line 7, in ? command.run() File "/home/rerla/src/galaxy_dist/eggs/PasteScript-1.0-py2.4.egg/paste/ script/command.py", line 76, in run File "/home/rerla/src/galaxy_dist/eggs/PasteScript-1.0-py2.4.egg/paste/ script/command.py", line 115, in invoke File "/home/rerla/src/galaxy_dist/eggs/PasteScript-1.0-py2.4.egg/paste/ script/command.py", line 210, in run File "/home/rerla/src/galaxy_dist/eggs/PasteScript-1.0-py2.4.egg/paste/ script/serve.py", line 184, in command File "/home/rerla/src/galaxy_dist/eggs/PasteScript-1.0-py2.4.egg/paste/ script/serve.py", line 204, in loadapp File "/home/rerla/src/galaxy_dist/eggs/PasteDeploy-1.0-py2.4.egg/paste/ deploy/loadwsgi.py", line 193, in loadapp File "/home/rerla/src/galaxy_dist/eggs/PasteDeploy-1.0-py2.4.egg/paste/ deploy/loadwsgi.py", line 214, in loadobj File "/home/rerla/src/galaxy_dist/eggs/PasteDeploy-1.0-py2.4.egg/paste/ deploy/loadwsgi.py", line 596, in create File "/home/rerla/src/galaxy_dist/eggs/PasteDeploy-1.0-py2.4.egg/paste/ deploy/loadwsgi.py", line 96, in invoke File "/home/rerla/src/galaxy_dist/eggs/PasteDeploy-1.0-py2.4.egg/paste/ deploy/util/fixtypeerror.py", line 57, in fix_call File "/home/rerla/src/galaxy_dist/eggs/Paste-1.0-py2.4.egg/paste/ urlmap.py", line 24, in urlmap_factory File "/home/rerla/src/galaxy_dist/eggs/PasteDeploy-1.0-py2.4.egg/paste/ deploy/loadwsgi.py", line 281, in get_app File "/home/rerla/src/galaxy_dist/eggs/PasteDeploy-1.0-py2.4.egg/paste/ deploy/loadwsgi.py", line 596, in create File "/home/rerla/src/galaxy_dist/eggs/PasteDeploy-1.0-py2.4.egg/paste/ deploy/loadwsgi.py", line 99, in invoke File "/home/rerla/src/galaxy_dist/eggs/PasteDeploy-1.0-py2.4.egg/paste/ deploy/util/fixtypeerror.py", line 57, in fix_call File "/home/rerla/src/galaxy_dist/universe_wsgi.py", line 17, in app_factory app = UniverseApplication( **kwargs ) File "/home/rerla/src/galaxy_dist/galaxy/app.py", line 19, in __init__ create_tables = True ) File "/home/rerla/src/galaxy_dist/galaxy/model/mapping.py", line 81, in init from pysqlite2 import dbapi2 as sqlite File "/usr/local/lib/python2.4/site-packages/pysqlite2/ dbapi2.py", line 27, in ? from pysqlite2._sqlite import * ImportError: /usr/local/lib/python2.4/site-packages/pysqlite2/ _sqlite.so: undefined symbol: sqlite3_enable_shared_cache
-- Ross Lazarus MBBS MPH, Director of Bioinformatics Channing Laboratory, 181 Longwood Ave., Boston MA 02115, USA. Voice: +617 525 2730 Fax: +617 525 0958 _______________________________________________ Galaxy-user mailing list Galaxy-user@bx.psu.edu http://mail.bx.psu.edu/cgi-bin/mailman/listinfo/galaxy-user