details: http://www.bx.psu.edu/hg/galaxy/rev/c8bf73ed4594 changeset: 1743:c8bf73ed4594 user: Greg Von Kuster greg@bx.psu.edu date: Thu Mar 26 09:34:05 2009 -0400 description: i18n fix: dataset.info should not be translated since it will generally not have an entry in the catalog. Wormbase fixes: URL to main site corrected, and all supported builds added to gbrowse_build_sites.txt.
4 file(s) affected in this change:
templates/root/history_common.mako tool-data/shared/gbrowse/gbrowse_build_sites.txt tools/data_source/wormbase.xml universe_wsgi.ini.sample
diffs (58 lines):
diff -r 02843f56b812 -r c8bf73ed4594 templates/root/history_common.mako --- a/templates/root/history_common.mako Wed Mar 25 11:51:30 2009 -0400 +++ b/templates/root/history_common.mako Thu Mar 26 09:34:05 2009 -0400 @@ -51,7 +51,7 @@ The job creating this dataset was cancelled before completion. </div> %elif data_state == "empty": - <div>${_('No data: ')}<i>${_(data.display_info())}</i></div> + <div>${_('No data: ')}<i>${data.display_info()}</i></div> %elif data_state == "ok": <div> ${data.blurb}, @@ -63,7 +63,7 @@ <span class="${data.dbkey}">${_(data.dbkey)}</span> %endif </div> - <div class="info">${_('Info: ')}${_(data.display_info())} </div> + <div class="info">${_('Info: ')}${data.display_info()}</div> <div> %if data.has_data: <a href="${h.url_for( action='display', id=data.id, tofile='yes', toext=data.ext )}" target="_blank">save</a> diff -r 02843f56b812 -r c8bf73ed4594 tool-data/shared/gbrowse/gbrowse_build_sites.txt --- a/tool-data/shared/gbrowse/gbrowse_build_sites.txt Wed Mar 25 11:51:30 2009 -0400 +++ b/tool-data/shared/gbrowse/gbrowse_build_sites.txt Thu Mar 26 09:34:05 2009 -0400 @@ -1,5 +1,3 @@ -#Harvested from http://www.wormbase.org/db/seq/gbrowse/wormbase/ -#wormbase http://gvk.bx.psu.edu/cgi-bin/gbrowse/volvox? briggsae,briggsae_cb25,brugia,elegans,elegans_gmap,elegans_pmap,fly,fly31,nGASP,nGASP_submissions,remanei,wormbase,ws77,yeast_chr1 -#Harvested from http://flybase.bio.indiana.edu/cgi-bin/gbrowse/dmel/ -#flybase http://flybase.bio.indiana.edu/cgi-bin/gbrowse/dmel/ dana,dere,dgri,dmel,dmoj,dper,dpse,dsec,dsim,dvir,dwil,dyak,dmelstocks -elegans http://brie3.cshl.edu:9000/db/seq/gbrowse/elegans/ cb1,cb2,cb3,ce1,ce2,ce3,ce4 \ No newline at end of file +# wormbase sites / supported genomes +main http://www.wormbase.org/db/seq/gbgff/c_elegans/ c_elegans,c_briggsae,c_remanei,c_brenneri,c_japonica,p_pristionchus,b_malayi +test http://dev.wormbase.org/db/seq/gbrowse/c_elegans/ c_elegans,c_briggsae,c_remanei,c_brenneri,c_japonica,p_pristionchus,b_malayi diff -r 02843f56b812 -r c8bf73ed4594 tools/data_source/wormbase.xml --- a/tools/data_source/wormbase.xml Wed Mar 25 11:51:30 2009 -0400 +++ b/tools/data_source/wormbase.xml Thu Mar 26 09:34:05 2009 -0400 @@ -2,7 +2,7 @@ <tool name="Wormbase" id="wormbase" tool_type="data_source" URL_method="post"> <description>server</description> <command interpreter="python">data_source.py $output</command> - <inputs action="http://www.wormbase.org/db/seq/gbrowse/c_elegans/" check_values="false" target="_top"> + <inputs action="http://www.wormbase.org/db/seq/gbgff/c_elegans/" check_values="false" target="_top"> <display>go to Wormbase server $GALAXY_URL</display> <param name="GALAXY_URL" type="baseurl" value="/tool_runner?tool_id=wormbase" /> </inputs> diff -r 02843f56b812 -r c8bf73ed4594 universe_wsgi.ini.sample --- a/universe_wsgi.ini.sample Wed Mar 25 11:51:30 2009 -0400 +++ b/universe_wsgi.ini.sample Thu Mar 26 09:34:05 2009 -0400 @@ -115,7 +115,7 @@
# Comma separated list of UCSC / gbrowse browsers to use for viewing ucsc_display_sites = main,test,archaea -gbrowse_display_sites = c_elegans,c_briggsae,c_remanei,c_brenneri,c_japonica,p_pristionchus,b_malayi +gbrowse_display_sites = main,test
# Serving static files (needed if running standalone) static_enabled = True