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1 <tool id="bg_eden_nearest_neighbor" name="EDeN Nearest Neighbors" version="0.1">
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2 <description></description>
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3 <requirements>
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4 </requirements>
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5 <command>
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6 EDeN --action NEAREST_NEIGHBOR
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7
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8 --input_data_file_name $infile
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9 --file_type "SPARSE_VECTOR"
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10 --binary_file_type
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11
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12 --target_file_name $target_infile
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13 ##--model_file_name [model] ????????????????????
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14
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15 --kernel_type $kernel_type
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16 --graph_type $graph_type
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17
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18 </command>
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19 <inputs>
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20
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21 <param format="eden_sparse_vector" name="infile" type="data" label="Input Graph" help=""/>
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22 <param format="txt" name="target_infile" type="data" label="Target file" help=""/>
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23
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24 <param name="kernel_type" type="select" display="radio" label="Type of the Kernel">
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25 <option value="NSPDK">NSPDK</option>
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26 <option value="WDK">WDK</option>
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27 <option value="PBK">PBK</option>
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28 <option value="USPK">USPK</option>
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29 <option value="DDK">DDK</option>
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30 <option value="NSDDK">ANSDDK</option>
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31 <option value="SK">SK [NSPDK]</option>
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32 </param>
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33
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34 <param name="graph_type" type="select" display="radio" label="Type of Graph">
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35 <option value="DIRECTED">directed</option>
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36 <option value="UNDIRECTED">undirected</option>
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37 </param>
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38
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39 </inputs>
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40 <outputs>
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41 <data format="gspan" name="outfile" label="gSpan from ${on_string}"/>
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42 </outputs>
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43 <tests>
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44 <test>
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45 <param name="infile" value="3_molceuls.sdf" />
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46 <output name="outfile" file="3_molecules.gspan" />
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47 </test>
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48 </tests>
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49 <help>
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50
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51 .. class:: infomark
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52
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53 **What it does**
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54
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55 Nearest neighbors are efficiently identified with a locality sensitive hashing technique.
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56
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57 This tool is part of the EDeN (Explicit Decomposition with Neighborhoods) suite, developed by Fabrizio Costa.
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58
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59 </help>
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60 </tool>
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