Mercurial > repos > galaxy-australia > alphafold2

annotate macro_output.xml @ 20:6ab1a261520a draft default tip

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planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
author galaxy-australia
date Sun, 28 Jul 2024 20:09:55 +0000
parents a58f7eb0df2c
children
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15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
1 <macros>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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2 <xml name="output_pdb_models">
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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3 <data name="model5" format="pdb" from_work_dir="output/alphafold/ranked_4.pdb" label="${tool.name} on ${on_string}: PDB ranked 4">
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
diff changeset
4 <filter>advanced['limit_model_outputs'] > 4</filter>
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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5 </data>
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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6 <data name="model4" format="pdb" from_work_dir="output/alphafold/ranked_3.pdb" label="${tool.name} on ${on_string}: PDB ranked 3">
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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7 <filter>advanced['limit_model_outputs'] > 3</filter>
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
diff changeset
8 </data>
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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9 <data name="model3" format="pdb" from_work_dir="output/alphafold/ranked_2.pdb" label="${tool.name} on ${on_string}: PDB ranked 2">
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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10 <filter>advanced['limit_model_outputs'] > 2</filter>
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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11 </data>
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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12 <data name="model2" format="pdb" from_work_dir="output/alphafold/ranked_1.pdb" label="${tool.name} on ${on_string}: PDB ranked 1">
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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13 <filter>advanced['limit_model_outputs'] > 1</filter>
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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14 </data>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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15 <data name="model1" format="pdb" from_work_dir="output/alphafold/ranked_0.pdb" label="${tool.name} on ${on_string}: PDB ranked 0"/>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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16 </xml>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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17
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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18 <xml name="output_pae_csv">
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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19 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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20 name="pae_ranked_4"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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21 format="csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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22 from_work_dir="output/alphafold/extra/pae_ranked_4.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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23 label="${tool.name} on ${on_string}: pae_ranked_4.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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24 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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25 <filter>outputs['pae_csv']</filter>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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26 <filter>model_preset != "monomer"</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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27 <filter>advanced['limit_model_outputs'] > 4</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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28 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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29 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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30 name="pae_ranked_3"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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31 format="csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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32 from_work_dir="output/alphafold/extra/pae_ranked_3.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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33 label="${tool.name} on ${on_string}: pae_ranked_3.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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34 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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35 <filter>outputs['pae_csv']</filter>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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36 <filter>model_preset != "monomer"</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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37 <filter>advanced['limit_model_outputs'] > 3</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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38 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
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39 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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40 name="pae_ranked_2"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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41 format="csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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42 from_work_dir="output/alphafold/extra/pae_ranked_2.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
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43 label="${tool.name} on ${on_string}: pae_ranked_2.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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44 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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45 <filter>outputs['pae_csv']</filter>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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46 <filter>model_preset != "monomer"</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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47 <filter>advanced['limit_model_outputs'] > 2</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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48 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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49 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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50 name="pae_ranked_1"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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51 format="csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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52 from_work_dir="output/alphafold/extra/pae_ranked_1.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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53 label="${tool.name} on ${on_string}: pae_ranked_1.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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54 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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55 <filter>outputs['pae_csv']</filter>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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56 <filter>model_preset != "monomer"</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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57 <filter>advanced['limit_model_outputs'] > 1</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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58 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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59 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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60 name="pae_ranked_0"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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61 format="csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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62 from_work_dir="output/alphafold/extra/pae_ranked_0.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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63 label="${tool.name} on ${on_string}: pae_ranked_0.csv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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64 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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65 <filter>outputs['pae_csv']</filter>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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66 <filter>model_preset != "monomer"</filter>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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67 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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68 </xml>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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69
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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70 <xml name="output_pickles">
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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71 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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72 name="output_ranked_4_pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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73 format="binary"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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74 from_work_dir="output/alphafold/extra/ranked_4.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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75 label="${tool.name} on ${on_string}: ranked_4.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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76 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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77 <filter>outputs['model_pkls']</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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78 <filter>advanced['limit_model_outputs'] > 4</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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79 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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80 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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81 name="output_ranked_3_pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
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82 format="binary"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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83 from_work_dir="output/alphafold/extra/ranked_3.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
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84 label="${tool.name} on ${on_string}: ranked_3.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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85 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
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86 <filter>outputs['model_pkls']</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
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87 <filter>advanced['limit_model_outputs'] > 3</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
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diff changeset
88 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
89 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
90 name="output_ranked_2_pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
91 format="binary"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
92 from_work_dir="output/alphafold/extra/ranked_2.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
93 label="${tool.name} on ${on_string}: ranked_2.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
94 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
95 <filter>outputs['model_pkls']</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
diff changeset
96 <filter>advanced['limit_model_outputs'] > 2</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
97 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
98 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
99 name="output_ranked_1_pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
100 format="binary"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
101 from_work_dir="output/alphafold/extra/ranked_1.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
102 label="${tool.name} on ${on_string}: ranked_1.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
103 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
104 <filter>outputs['model_pkls']</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
diff changeset
105 <filter>advanced['limit_model_outputs'] > 1</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
106 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
107 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
108 name="output_ranked_0_pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
109 format="binary"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
110 from_work_dir="output/alphafold/extra/ranked_0.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
111 label="${tool.name} on ${on_string}: ranked_0.pkl"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
112 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
113 <filter>outputs['model_pkls']</filter>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
114 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
115 </xml>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
116
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
117 <xml name="output_plots">
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
118 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
119 name="plot_ranked_4"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
120 format="png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
121 from_work_dir="output/alphafold/extra/ranked_4.png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
122 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 4"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
123 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
124 <filter>outputs['plots']</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
diff changeset
125 <filter>advanced['limit_model_outputs'] > 4</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
126 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
127 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
128 name="plot_ranked_3"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
129 format="png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
130 from_work_dir="output/alphafold/extra/ranked_3.png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
131 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 3"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
132 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
133 <filter>outputs['plots']</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
diff changeset
134 <filter>advanced['limit_model_outputs'] > 3</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
135 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
136 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
137 name="plot_ranked_2"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
138 format="png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
139 from_work_dir="output/alphafold/extra/ranked_2.png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
140 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 2"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
141 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
142 <filter>outputs['plots']</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
diff changeset
143 <filter>advanced['limit_model_outputs'] > 2</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
144 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
145 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
146 name="plot_ranked_1"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
147 format="png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
148 from_work_dir="output/alphafold/extra/ranked_1.png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
149 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 1"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
150 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
151 <filter>outputs['plots']</filter>
20
6ab1a261520a planemo upload for repository https://github.com/usegalaxy-au/tools-au commit c3a90eb12ada44d477541baa4dd6182be29cd554-dirty
galaxy-australia
parents: 15
diff changeset
152 <filter>advanced['limit_model_outputs'] > 1</filter>
15
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
153 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
154 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
155 name="plot_ranked_0"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
156 format="png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
157 from_work_dir="output/alphafold/extra/ranked_0.png"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
158 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 0"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
159 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
160 <filter>outputs['plots']</filter>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
161 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
162 </xml>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
163
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
164 <xml name="output_confidence_scores">
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
165 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
166 name="output_confidence_scores"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
167 format="tabular"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
168 from_work_dir="output/alphafold/extra/model_confidence_scores.tsv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
169 label="${tool.name} on ${on_string}: Model confidence scores"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
170 >
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
171 <filter>outputs['confidence_scores']</filter>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
172 </data>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
173 </xml>
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
174
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
175 <xml name="output_plddts">
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
176 <data
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
177 name="output_plddts"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
178 format="tabular"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
179 from_work_dir="output/alphafold/extra/plddts.tsv"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
diff changeset
180 label="${tool.name} on ${on_string}: Per-residue confidence scores (plddts)"
a58f7eb0df2c planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
galaxy-australia
parents:
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181 >
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182 <filter>outputs['plddts']</filter>
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183 </data>
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184 </xml>
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185
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186 <xml name="output_relax_json">
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187 <data
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188 name="output_relax_json"
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189 format="json"
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190 from_work_dir="output/alphafold/extra/relax_metrics_ranked.json"
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191 label="${tool.name} on ${on_string}: relax_metrics_ranked.json"
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193 <filter>outputs['relax_json']</filter>
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194 </data>
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195 </xml>
20
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197 <xml name="output_timings_json">
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198 <data
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199 name="output_timings_json"
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200 format="json"
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201 from_work_dir="output/alphafold/timings.json"
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202 label="${tool.name} on ${on_string}: timings.json"
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203 >
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204 <filter>outputs['timings_json']</filter>
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205 </data>
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206 </xml>
15
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207 </macros>