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changeset 2:b1ad88bbc5fa draft default tip

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author bgruening
date Mon, 12 Aug 2013 11:55:07 -0400
parents ab12adaa5cc2
children
files readme.rst tool_dependencies.xml
diffstat 2 files changed, 5 insertions(+), 5 deletions(-) [+]
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line diff
--- a/readme.rst	Sat Jul 06 10:34:27 2013 -0400
+++ b/readme.rst	Mon Aug 12 11:55:07 2013 -0400
@@ -6,18 +6,18 @@
 
 This is a wrapper for the command line tool of Glimmer3_.
 
-.. _Glimmer: http://www.cbcb.umd.edu/software/glimmer/
+.. _Glimmer3: http://www.cbcb.umd.edu/software/glimmer/
 
 Glimmer is a system for finding genes in microbial DNA, 
 especially the genomes of bacteria, archaea, and viruses. 
 Glimmer (Gene Locator and Interpolated Markov ModelER) uses interpolated 
 Markov models (IMMs) to identify the coding regions and distinguish them from noncoding DNA.
 
-S. Salzberg, A. Delcher, S. Kasif, and O. White. Microbial gene identification using interpolated Markov models, Nucleic Acids Research 26:2 (1998), 544-548.
+| S. Salzberg, A. Delcher, S. Kasif, and O. White. Microbial gene identification using interpolated Markov models, Nucleic Acids Research 26:2 (1998), 544-548.
 
-A.L. Delcher, D. Harmon, S. Kasif, O. White, and S.L. Salzberg. Improved microbial gene identification with GLIMMER, Nucleic Acids Research 27:23 (1999), 4636-4641.
+| A.L. Delcher, D. Harmon, S. Kasif, O. White, and S.L. Salzberg. Improved microbial gene identification with GLIMMER, Nucleic Acids Research 27:23 (1999), 4636-4641.
 
-A.L. Delcher, K.A. Bratke, E.C. Powers, and S.L. Salzberg. Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics (Advance online version) (2007). 
+| A.L. Delcher, K.A. Bratke, E.C. Powers, and S.L. Salzberg. Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics (Advance online version) (2007). 
 
 
 ============
--- a/tool_dependencies.xml	Sat Jul 06 10:34:27 2013 -0400
+++ b/tool_dependencies.xml	Mon Aug 12 11:55:07 2013 -0400
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="biopython" version="1.61">
-        <repository changeset_revision="5d0c54f7fea2" name="package_biopython_1_61" owner="biopython" toolshed="http://toolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="b482933a6de5" name="package_biopython_1_61" owner="biopython" toolshed="http://toolshed.g2.bx.psu.edu" />
     </package>
     <set_environment version="1.0">
         <environment_variable action="set_to" name="GLIMMER_SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable>