Mercurial > repos > guerler > spring_cross
annotate spring_cross.xml @ 2:db9f846c70bb draft default tip
"planemo upload commit fe7295ad48151648562b06d5b075a68d77747326"
author | guerler |
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date | Thu, 08 Apr 2021 18:21:38 +0000 |
parents | 3175a61346e8 |
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1 <tool id="spring_cross" name="SPRING Cross" license="MIT" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01"> |
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2 <description>reference builder</description> |
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3 <macros> |
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4 <import>macros.xml</import> |
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5 </macros> |
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6 <expand macro="requirements" /> |
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7 <command detect_errors="exit_code"><![CDATA[ |
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8 spring_cross.py |
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9 @pdb_source@ |
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10 -o '$output' |
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11 -g '$log' |
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12 ]]></command> |
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13 <inputs> |
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14 <expand macro="pdb_source" /> |
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15 <expand macro="logfile" /> |
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16 </inputs> |
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17 <outputs> |
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18 <data format="tabular" name="output" label="SPRING Cross Reference" /> |
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19 <data format="txt" name="log" label="SPRING Cross Log"> |
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20 <filter>logfile</filter> |
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21 </data> |
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22 </outputs> |
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23 <tests> |
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24 <test expect_num_outputs="1"> |
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25 <conditional name="pdb_source"> |
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26 <param name="pdb_source_selector" value="history" /> |
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27 <param name="ffindex" value="cross/pdb.ffindex" /> |
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28 <param name="ffdata" value="cross/pdb.ffdata" /> |
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29 </conditional> |
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30 <param name="logfile" value="false" /> |
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31 <output name="output" file="cross/reference.tabular" /> |
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32 </test> |
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33 <test expect_num_outputs="1"> |
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34 <conditional name="pdb_source"> |
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35 <param name="pdb_source_selector" value="indexed" /> |
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36 <param name="pdb" value="pdb02_cross" /> |
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37 <param name="zipped" value="gz" /> |
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38 </conditional> |
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39 <param name="logfile" value="false" /> |
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40 <output name="output" file="cross/reference.tabular" /> |
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41 </test> |
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42 <test expect_num_outputs="2"> |
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43 <conditional name="pdb_source"> |
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44 <param name="pdb_source_selector" value="indexed" /> |
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45 <param name="pdb" value="pdb01_cross" /> |
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46 </conditional> |
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47 <param name="logfile" value="true" /> |
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48 <output name="output" file="cross/reference.tabular" /> |
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49 </test> |
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50 </tests> |
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51 <help><![CDATA[ |
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52 |
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53 **What it does** |
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54 |
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55 Creates a 2-column cross reference between a list of input chains and all interacting chains found in the provided PDB database. |
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56 This reference is required as input for the SPRING min-Z calculator. |
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57 |
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58 ]]></help> |
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59 <expand macro="citations" /> |
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60 </tool> |