details: http://www.bx.psu.edu/hg/galaxy/rev/9abb83ad372d changeset: 1721:9abb83ad372d user: Nate Coraor nate@bx.psu.edu date: Sat Jan 24 12:13:47 2009 -0500 description: Apparently I only committed these fixes to security. Recommit of changeset 2015:7a447128f2cd from security, Make UCSC build update scripts find elementtree properly

3 file(s) affected in this change:

cron/parse_builds.py cron/parse_builds_3_sites.py cron/updateucsc.sh.sample

diffs (55 lines):

diff -r f27a815ae734 -r 9abb83ad372d cron/parse_builds.py --- a/cron/parse_builds.py Fri Jan 23 14:12:52 2009 -0500 +++ b/cron/parse_builds.py Sat Jan 24 12:13:47 2009 -0500 @@ -8,8 +8,12 @@

import sys import urllib -import pkg_resources; pkg_resources.require( "elementtree" ) -from elementtree import ElementTree +if sys.version_info[:2] >= ( 2, 5 ): + import xml.etree.ElementTree as ElementTree +else: + from galaxy import eggs + import pkg_resources; pkg_resources.require( "elementtree" ) + from elementtree import ElementTree

URL = "http://genome-test.cse.ucsc.edu/cgi-bin/das/dsn"

diff -r f27a815ae734 -r 9abb83ad372d cron/parse_builds_3_sites.py --- a/cron/parse_builds_3_sites.py Fri Jan 23 14:12:52 2009 -0500 +++ b/cron/parse_builds_3_sites.py Sat Jan 24 12:13:47 2009 -0500 @@ -5,8 +5,12 @@

import sys import urllib -import pkg_resources; pkg_resources.require( "elementtree" ) -from elementtree import ElementTree +if sys.version_info[:2] >= ( 2, 5 ): + import xml.etree.ElementTree as ElementTree +else: + from galaxy import eggs + import pkg_resources; pkg_resources.require( "elementtree" ) + from elementtree import ElementTree

sites = ['http://genome.ucsc.edu/cgi-bin/', 'http://archaea.ucsc.edu/cgi-bin/', diff -r f27a815ae734 -r 9abb83ad372d cron/updateucsc.sh.sample --- a/cron/updateucsc.sh.sample Fri Jan 23 14:12:52 2009 -0500 +++ b/cron/updateucsc.sh.sample Sat Jan 24 12:13:47 2009 -0500 @@ -6,7 +6,7 @@

# Edit this line to refer to galaxy's path: GALAXY=/galaxy/path -export PYTHONPATH=${GALAXY}/modules:${GALAXY}/eggs:${GALAXY}/lib +export PYTHONPATH=${GALAXY}/lib

# setup directories mkdir ${GALAXY}/tool-data/shared/ucsc/new @@ -57,4 +57,4 @@ echo "Manual addition was successful." else echo "Manual addition failed" >&2 -fi \ No newline at end of file +fi