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A more trustworthy way of generating Galaxy's base path in util/__init__.py.

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This is used to open builds.txt, ucsc_build_sites.txt, and gbrowse_build_sites.txt.

Some tools are importing galaxy.tools.validation which eventually imports util/__init__.py, which was opening files with paths
based upon the working directory.
This commit is contained in:
Daniel Blankenberg
2007-10-16 17:31:46 +00:00
parent 4810f787e9
commit 6171ca401f
1 changed files with 5 additions and 4 deletions
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lib/galaxy/util/__init__.py
+5 -4
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@@ -3,7 +3,7 @@ Utility functions used systemwide.
"""
import logging
import threading, sets, random, string, md5, re, binascii, pickle, time, datetime, math, re
import threading, sets, random, string, md5, re, binascii, pickle, time, datetime, math, re, os
import pkg_resources
@@ -305,9 +305,10 @@ def read_build_sites(filename):
print "ERROR: Unable to read builds for site file %s" %filename
return build_sites
dbnames = read_dbnames("static/ucsc/builds.txt") #this list is used in edit attributes and the upload tool
ucsc_build_sites = read_build_sites("static/ucsc/ucsc_build_sites.txt") #this list is used in history.tmpl
gbrowse_build_sites = read_build_sites("static/gbrowse/gbrowse_build_sites.txt") #this list is used in history.tmpl
galaxy_root_path = os.path.join(__path__[0], "..","..","..")
dbnames = read_dbnames(os.path.join(galaxy_root_path,"static","ucsc","builds.txt")) #this list is used in edit attributes and the upload tool
ucsc_build_sites = read_build_sites(os.path.join(galaxy_root_path,"static","ucsc","ucsc_build_sites.txt")) #this list is used in history.tmpl
gbrowse_build_sites = read_build_sites(os.path.join(galaxy_root_path,"static","gbrowse","gbrowse_build_sites.txt")) #this list is used in history.tmpl
if __name__ == '__main__':
import doctest, sys