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Merge pull request #6591 from dannon/ucsc-test-server-domain

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[18.05] Update UCSC genome-test server URLs
This commit is contained in:
John Chilton
2018-08-15 10:05:07 -04:00
committed by GitHub
parent 7e445be502 1cd36e3f81
commit 709e49f104
3 changed files with 5 additions and 5 deletions
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cron/build_chrom_db.py
+2 -2
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@@ -24,7 +24,7 @@ import parse_builds # noqa: I100,I202
def getchrominfo(url, db):
tableURL = "http://genome-test.cse.ucsc.edu/cgi-bin/hgTables?"
tableURL = "http://genome-test.gi.ucsc.edu/cgi-bin/hgTables?"
URL = tableURL + urlencode({
"clade": "",
"org": "",
@@ -75,7 +75,7 @@ if __name__ == "__main__":
outfile_name = dbpath + build + ".len"
try:
with open(outfile_name, "w") as outfile:
for chrominfo in getchrominfo("http://genome-test.cse.ucsc.edu/cgi-bin/hgTables?", build):
for chrominfo in getchrominfo("http://genome-test.gi.ucsc.edu/cgi-bin/hgTables?", build):
print("\t".join(chrominfo), file=outfile)
except Exception as e:
print("Failed to retrieve %s: %s" % (build, e))
cron/parse_builds_3_sites.py
+1 -1
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@@ -10,7 +10,7 @@ import requests
sites = ['http://genome.ucsc.edu/cgi-bin/',
'http://archaea.ucsc.edu/cgi-bin/',
'http://genome-test.cse.ucsc.edu/cgi-bin/']
'http://genome-test.gi.ucsc.edu/cgi-bin/']
names = ['main', 'archaea', 'test']
tools/data_source/ucsc_tablebrowser_test.xml
+2 -2
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@@ -4,10 +4,10 @@
the initial response. If value of 'URL_method' is 'post', any additional params coming back in the
initial response ( in addition to 'URL' ) will be encoded and appended to URL and a post will be performed.
-->
<tool name="UCSC Test" id="ucsc_table_direct_test1" tool_type="data_source" version="1.0.0">
<tool name="UCSC Test" id="ucsc_table_direct_test1" tool_type="data_source" version="1.0.1">
<description>table browser</description>
<command interpreter="python">data_source.py $output $__app__.config.output_size_limit</command>
<inputs action="http://genome-test.cse.ucsc.edu/cgi-bin/hgTables" check_values="false" method="get">
<inputs action="http://genome-test.gi.ucsc.edu/cgi-bin/hgTables" check_values="false" method="get">
<display>go to UCSC Table Browser $GALAXY_URL</display>
<param name="GALAXY_URL" type="baseurl" value="/tool_runner" />
<param name="tool_id" type="hidden" value="ucsc_table_direct_test1" />