changeset 7:0d121793d62c draft

Deleted selected files

--- a/data_manager/add_ctat_ref_lib.xml	Tue Dec 12 15:29:45 2017 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,37 +0,0 @@
-<tool id="ctat_genome_ref_lib_data_manager" 
-    name="CTAT Genome Reference Library Data Manager" 
-    version="1.0.0" tool_type="manage_data">
-    <description>Retrieve, and/or Specify the location of, a CTAT Genome Reference Library. 
-    </description>
-    <requirements>
-        <requirement type="package" version="2.7">python</requirement>
-    </requirements>
-    <command detect_errors="default">
-        <![CDATA[
-        echo "Current directory and contents" && $(pwd) && ls -la * &&
-        echo "Tool directory and contents are" && echo "$__tool_directory__" && ls -la "$__tool_directory__/*" &&
-        python add_ctat_ref_lib.py ${download}
-            --ref_genome "${genome_name}"
-            --destination_path "${destination}" 
-            -o "${out_file}"
-        ]]>
-    </command>
-    <inputs>
-        <param name="download" type="boolean" checked="false"
-             truevalue="--download" falsevalue="" label="Need to Download? (yes/no)" />
-        <param name="genome_name" type="text" label="Reference Genome name" />
-        <param name="destination" type="text" label="Local Destination (full path)" />
-    </inputs>
-    <outputs>
-        <data name="out_file" format="data_manager_json" />
-    </outputs>
-    <help>
-        Retrieve, and/or specify the location of, a CTAT Genome Reference Library.
-        When download is true, the file retrieved and processed is https://data.broadinstitute.org/Trinity/CTAT_RESOURCE_LIB/GRCh38_gencode_v26_CTAT_lib_Nov012017.plug-n-play.tar.gz.
-        Specify the Full Path of the location where the CTAT Reference Library should be placed.
-        You will need approximately 30GB of space for this library.
-        If you already have the library, specify the full path of the location where it exists and leave the download box unchecked.
-        The Reference Genome name may be left empty if downloading. The name will be used as the selector text of the entry in the data table.
-        For more information on CTAT Genome Reference Libraries, see <a http="https://github.com/FusionFilter/FusionFilter/wiki">FusionFilter</a>
-    </help>
-</tool>
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