# HG changeset patch
# User bgruening
# Date 1373524642 14400
# Node ID fee0a7b3335e3316896bcf9f415a58baf0be6319
# Parent  4c03eeb47cbb37f76e4add12191435e9ebdd7ba4
Uploaded

diff -r 4c03eeb47cbb -r fee0a7b3335e glimmer3_with_trainingset.ga
--- a/glimmer3_with_trainingset.ga	Thu Jun 13 09:40:37 2013 -0400
+++ b/glimmer3_with_trainingset.ga	Thu Jul 11 02:37:22 2013 -0400
@@ -73,7 +73,7 @@
             }, 
             "post_job_actions": {}, 
             "tool_errors": null, 
-            "tool_id": "testtoolshed.g2.bx.psu.edu/repos/bgruening/glimmer/glimmer_build-icm/0.2", 
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/glimmer/glimmer_build-icm/0.2", 
             "tool_state": "{\"__page__\": 0, \"depth\": \"\\\"7\\\"\", \"period\": \"\\\"3\\\"\", \"width\": \"\\\"12\\\"\", \"stop_codon_opts\": \"{\\\"genbank_gencode\\\": \\\"11\\\", \\\"__current_case__\\\": 0, \\\"stop_codon_opts_selector\\\": \\\"gb\\\"}\", \"no_stops\": \"\\\"False\\\"\", \"chromInfo\": \"\\\"/home/bag/projects/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"infile\": \"null\"}", 
             "tool_version": "0.2", 
             "type": "tool", 
@@ -114,7 +114,7 @@
             }, 
             "post_job_actions": {}, 
             "tool_errors": null, 
-            "tool_id": "testtoolshed.g2.bx.psu.edu/repos/bgruening/glimmer/glimmer_knowlegde-based/0.2", 
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/glimmer/glimmer_knowlegde-based/0.2", 
             "tool_state": "{\"extend\": \"\\\"False\\\"\", \"__page__\": 0, \"linear\": \"\\\"True\\\"\", \"detailed_report\": \"\\\"False\\\"\", \"seq_input\": \"null\", \"gc_percent\": \"\\\"0.0\\\"\", \"start_codons\": \"\\\"atg,gtg,ttg\\\"\", \"threshold\": \"\\\"30\\\"\", \"stop_codon_opts\": \"{\\\"genbank_gencode\\\": \\\"11\\\", \\\"__current_case__\\\": 0, \\\"stop_codon_opts_selector\\\": \\\"gb\\\"}\", \"max_olap\": \"\\\"50\\\"\", \"no_indep\": \"\\\"False\\\"\", \"gene_len\": \"\\\"90\\\"\", \"report\": \"\\\"False\\\"\", \"chromInfo\": \"\\\"/home/bag/projects/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"icm_input\": \"null\"}", 
             "tool_version": "0.2", 
             "type": "tool", 
diff -r 4c03eeb47cbb -r fee0a7b3335e readme.rst
--- a/readme.rst	Thu Jun 13 09:40:37 2013 -0400
+++ b/readme.rst	Thu Jul 11 02:37:22 2013 -0400
@@ -22,7 +22,7 @@
 ************
 
 This workflow is available on the main Galaxy Tool Shed:
-http://testtoolshed.g2.bx.psu.edu/view/bgruening/glimmer_gene_calling_workflow
+http://toolshed.g2.bx.psu.edu/view/bgruening/glimmer_gene_calling_workflow
 
 Development is being done here:
 https://github.com/bgruening/galaxytools/workflows/glimmer3/
diff -r 4c03eeb47cbb -r fee0a7b3335e repository_dependencies.xml
--- a/repository_dependencies.xml	Thu Jun 13 09:40:37 2013 -0400
+++ b/repository_dependencies.xml	Thu Jul 11 02:37:22 2013 -0400
@@ -1,5 +1,5 @@
 <?xml version="1.0"?>
 <repositories description="This requires the glimmer3 repository and the emboss5 tool suite.">
     <repository changeset_revision="ec5cf10b8db7" name="glimmer" owner="bgruening" toolshed="http://testtoolshed.g2.bx.psu.edu" />
-    <repository changeset_revision="8ddad0c9a75a" name="emboss_5" owner="devteam" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="5edd293af092" name="emboss_5" owner="devteam" toolshed="http://testtoolshed.g2.bx.psu.edu" />
 </repositories>