Mercurial > repos > guerler > ffindex_dbkit_extract

annotate macros.xml @ 0:ad4b7db26523 draft

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"planemo upload commit b68cb41b1884703c4f1574b65a6408d7d0cca321"
author guerler
date Tue, 23 Mar 2021 23:06:45 +0000
parents
children 1d9fcf2157e0
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1 <macros>
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2 <xml name="requirements">
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3 <requirements>
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4 <requirement type="package" version="0.1">ffindex-dbkit</requirement>
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5 <yield />
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6 </requirements>
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7 </xml>
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8 <xml name="ffindex_single_inputs">
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9 <param name="ffdata" type="data" format="ffdata" label="PDB Database" help="Database Data file." />
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10 <param name="ffindex" type="data" format="ffindex" label="PDB Database Index" help="Database Index file." />
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11 </xml>
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12
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13 <xml name="citations">
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14 <citations>
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15 <!--citation type="doi">10.1021/ci300579r</citation-->
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16 </citations>
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17 </xml>
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18 <xml name="logfile">
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19 <param name="logfile" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Output log file" />
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20 </xml>
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21
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22 <xml name="db_source">
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23 <conditional name="db_source">
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24 <param name="db_source_selector" type="select" label="Custom or built-in ffindex" help="Built-ins have been indexed using ffindex">
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25 <option value="indexed" selected="true">Use a built-in index</option>
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26 <option value="history">Use a ffindex from history</option>
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27 </param>
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28 <when value="indexed">
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29 <param name="ffindex" type="select" label="Select ffindex" help="">
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30 <options from_data_table="ffindex_indices">
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31 <filter type="sort_by" column="0" />
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32 <validator type="no_options" message="No indices are available" />
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33 </options>
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34 </param>
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35 </when>
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36 <when value="history">
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37 <expand macro="ffindex_single_inputs" />
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38 </when>
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39 </conditional>
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40 </xml>
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41 <xml name="db_source2">
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42 <conditional name="db_source2">
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43 <param name="db_source_selector" type="select" label="Custom or built-in ffindex" help="Built-ins have been indexed using ffindex">
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44 <option value="indexed" selected="true">Use a built-in index</option>
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45 <option value="history">Use a ffindex from history</option>
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46 </param>
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47 <when value="indexed">
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48 <param name="ffindex" type="select" label="Select ffindex" help="">
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49 <options from_data_table="ffindex_indices">
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50 <filter type="sort_by" column="0" />
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51 <validator type="no_options" message="No indices are available" />
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52 </options>
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53 </param>
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54 </when>
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55 <when value="history">
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56 <expand macro="ffindex_single_inputs" />
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57 </when>
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58 </conditional>
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59 </xml>
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60
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61 <token name="@db_source@">
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62 #if $db_source.db_source_selector == 'indexed':
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63 -d '${db_source.ffindex.fields.path}.ffdata'
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64 -i '${db_source.ffindex.fields.path}.ffindex'
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65 #else
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66 -d '$db_source.ffdata'
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67 -i '$db_source.ffindex'
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68 #end if
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69 </token>
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70 <token name="@db_source2@">
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71 #if $db_source.db_source_selector == 'indexed':
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72 -sd '${db_source.ffindex.fields.path}.ffdata'
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73 -si '${db_source.ffindex.fields.path}.ffindex'
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74 #else
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75 -sd '$db_source.ffdata'
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76 -si '$db_source.ffindex'
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77 #end if
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78 </token>
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79 </macros>