Mercurial > repos > gga > apollo_iframe

annotate json2iframe.xml @ 12:46f973ab5831 draft

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planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 49fe23e3fb330234900946352fbc3a86deeeb639
author gga
date Mon, 29 Jul 2019 10:04:28 -0400
parents d7c23d4336b6
children 3e1554929ff5
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ff2b57ecf5e9 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit f745b23c84a615bf434d717c8c0e553a012f0268
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1 <?xml version="1.0"?>
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46f973ab5831 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 49fe23e3fb330234900946352fbc3a86deeeb639
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2 <tool id="iframe" name="Annotate" version="@WRAPPER_VERSION@">
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3 <description>opens an IFrame to Apollo</description>
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4 <macros>
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5 <import>macros.xml</import>
ff2b57ecf5e9 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit f745b23c84a615bf434d717c8c0e553a012f0268
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6 </macros>
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7 <expand macro="requirements"/>
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8 <command detect_errors="aggressive"><![CDATA[
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9 python $__tool_directory__/json2iframe.py
ff2b57ecf5e9 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit f745b23c84a615bf434d717c8c0e553a012f0268
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10 @URL@
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11 '$json_file'
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12 @EXT_URL@
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13 $tracklist
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14 > $output]]></command>
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15 <inputs>
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16 <param name="json_file" type="data" format="json" label="Apollo Organism Listing" />
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17 <param name="tracklist" type="boolean" truevalue="--tracklist" falsevalue="" label="Force the tracklist on in JBrowse"/>
46f973ab5831 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 49fe23e3fb330234900946352fbc3a86deeeb639
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18
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19 </inputs>
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20 <outputs>
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21 <data format="html" name="output"/>
ff2b57ecf5e9 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit f745b23c84a615bf434d717c8c0e553a012f0268
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22 </outputs>
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23 <tests>
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24 <test>
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25 <param name="json_file" value="fake.json"/>
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26 <output name="output">
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27 <assert_contents>
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28 <has_text text="Embedded Apollo Access" />
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29 </assert_contents>
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30 </output>
ff2b57ecf5e9 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit f745b23c84a615bf434d717c8c0e553a012f0268
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31 </test>
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32 </tests>
ff2b57ecf5e9 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit f745b23c84a615bf434d717c8c0e553a012f0268
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33 <help><![CDATA[
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34 **What it does**
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35
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36 Given a json file that's output by the Galaxy<->Apollo bridge, this
ff2b57ecf5e9 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit f745b23c84a615bf434d717c8c0e553a012f0268
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37 generates a nice little IFrame that you can use to access Apollo
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38
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39 @REFERENCES@
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40 ]]></help>
ff2b57ecf5e9 planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit f745b23c84a615bf434d717c8c0e553a012f0268
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41 <expand macro="citations"/>
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42 </tool>