I have modified the shed tool conf xml in order to add labels to tool sections and it appears to now be reading the xml in reverse and ordering the tools in the tool panel incorrectly.

Image of issue: https://www.dropbox.com/s/rxbr2tpqkpeeysw/Screen%20Shot%202016-10-12%20at%2010.24.13%20PM.png?dl=0


~~~~

<?xml version="1.0"?>
<toolbox tool_path="../shed_tools">
<section id="hts:_rna_analysis" name="HTS: RNA Analysis" version="">
<label id="mapping" text="Mapping" />
<tool file="toolshed.g2.bx.psu.edu/repos/devteam/tophat2/758594ed0364/tophat2/tophat2_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/tophat2/tophat2/2.1.0">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>tophat2</repository_name>
<repository_owner>devteam</repository_owner>
<installed_changeset_revision>758594ed0364</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/devteam/tophat2/tophat2/2.1.0</id>
<version>2.1.0</version>
</tool>
<tool file="toolshed.g2.bx.psu.edu/repos/iuc/hisat2/1eb21dccc2fa/hisat2/hisat2.xml" guid="toolshed.g2.bx.psu.edu/repos/iuc/hisat2/hisat2/2.0.3">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>hisat2</repository_name>
<repository_owner>iuc</repository_owner>
<installed_changeset_revision>1eb21dccc2fa</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/iuc/hisat2/hisat2/2.0.3</id>
<version>2.0.3</version>
</tool>
<tool file="toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/ace9f5a2b40f/rgrnastar/rg_rnaStar.xml" guid="toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.4.0d-2">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>rgrnastar</repository_name>
<repository_owner>iuc</repository_owner>
<installed_changeset_revision>ace9f5a2b40f</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.4.0d-2</id>
<version>2.4.0d-2</version>
</tool>
<label id="cuf_lnks" text="Cufflinks" />
<tool file="toolshed.g2.bx.psu.edu/repos/devteam/cuffcompare/b77178f66fc3/cuffcompare/cuffcompare_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cuffcompare/cuffcompare/2.2.1.0">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>cuffcompare</repository_name>
<repository_owner>devteam</repository_owner>
<installed_changeset_revision>b77178f66fc3</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/devteam/cuffcompare/cuffcompare/2.2.1.0</id>
<version>2.2.1.0</version>
</tool>
<tool file="toolshed.g2.bx.psu.edu/repos/devteam/cuffquant/986b63735a5e/cuffquant/cuffquant_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cuffquant/cuffquant/2.2.1.0">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>cuffquant</repository_name>
<repository_owner>devteam</repository_owner>
<installed_changeset_revision>986b63735a5e</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/devteam/cuffquant/cuffquant/2.2.1.0</id>
<version>2.2.1.0</version>
</tool>
<tool file="toolshed.g2.bx.psu.edu/repos/devteam/cuffmerge/8160c8ea4eb9/cuffmerge/cuffmerge_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cuffmerge/cuffmerge/2.2.1.0">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>cuffmerge</repository_name>
<repository_owner>devteam</repository_owner>
<installed_changeset_revision>8160c8ea4eb9</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/devteam/cuffmerge/cuffmerge/2.2.1.0</id>
<version>2.2.1.0</version>
</tool>
<tool file="toolshed.g2.bx.psu.edu/repos/devteam/cuffnorm/a26af05ac218/cuffnorm/cuffnorm_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cuffnorm/cuffnorm/2.2.1.0">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>cuffnorm</repository_name>
<repository_owner>devteam</repository_owner>
<installed_changeset_revision>a26af05ac218</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/devteam/cuffnorm/cuffnorm/2.2.1.0</id>
<version>2.2.1.0</version>
</tool>
<tool file="toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/9aab29e159a7/cufflinks/cufflinks_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/0.0.7">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>cufflinks</repository_name>
<repository_owner>devteam</repository_owner>
<installed_changeset_revision>9aab29e159a7</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/0.0.7</id>
<version>0.0.7</version>
</tool>
<tool file="toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/0f32ad418df8/cuffdiff/cuffdiff_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.3">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>cuffdiff</repository_name>
<repository_owner>devteam</repository_owner>
<installed_changeset_revision>0f32ad418df8</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.3</id>
<version>2.2.1.3</version>
</tool>
<tool file="toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/a1ea9af8d5f4/cufflinks/cufflinks_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/2.2.1.0">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>cufflinks</repository_name>
<repository_owner>devteam</repository_owner>
<installed_changeset_revision>a1ea9af8d5f4</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/2.2.1.0</id>
<version>2.2.1.0</version>
</tool>
<tool file="toolshed.g2.bx.psu.edu/repos/devteam/cuffnorm/7d4c2097aac5/cuffnorm/cuffnorm_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cuffnorm/cuffnorm/2.2.1.1">
<tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
<repository_name>cuffnorm</repository_name>
<repository_owner>devteam</repository_owner>
<installed_changeset_revision>7d4c2097aac5</installed_changeset_revision>
<id>toolshed.g2.bx.psu.edu/repos/devteam/cuffnorm/cuffnorm/2.2.1.1</id>
<version>2.2.1.1</version>
</tool>
</section>

~~~~
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