comparison macro_output.xml @ 15:a58f7eb0df2c draft

planemo upload for repository https://github.com/usegalaxy-au/tools-au commit fd45a857a71358e7e5375dcfb5043cdc8560c5a5
author galaxy-australia
date Fri, 10 Mar 2023 02:48:07 +0000
parents
children 6ab1a261520a
comparison
equal deleted inserted replaced
14:d00e15139065 15:a58f7eb0df2c
1 <macros>
2 <xml name="output_pdb_models">
3 <data name="model5" format="pdb" from_work_dir="output/alphafold/ranked_4.pdb" label="${tool.name} on ${on_string}: PDB ranked 4"/>
4 <data name="model4" format="pdb" from_work_dir="output/alphafold/ranked_3.pdb" label="${tool.name} on ${on_string}: PDB ranked 3"/>
5 <data name="model3" format="pdb" from_work_dir="output/alphafold/ranked_2.pdb" label="${tool.name} on ${on_string}: PDB ranked 2"/>
6 <data name="model2" format="pdb" from_work_dir="output/alphafold/ranked_1.pdb" label="${tool.name} on ${on_string}: PDB ranked 1"/>
7 <data name="model1" format="pdb" from_work_dir="output/alphafold/ranked_0.pdb" label="${tool.name} on ${on_string}: PDB ranked 0"/>
8 </xml>
9
10 <xml name="output_pae_csv">
11 <data
12 name="pae_ranked_4"
13 format="csv"
14 from_work_dir="output/alphafold/extra/pae_ranked_4.csv"
15 label="${tool.name} on ${on_string}: pae_ranked_4.csv"
16 >
17 <filter>outputs['pae_csv']</filter>
18 <filter>model_preset != "monomer"</filter>
19 </data>
20 <data
21 name="pae_ranked_3"
22 format="csv"
23 from_work_dir="output/alphafold/extra/pae_ranked_3.csv"
24 label="${tool.name} on ${on_string}: pae_ranked_3.csv"
25 >
26 <filter>outputs['pae_csv']</filter>
27 <filter>model_preset != "monomer"</filter>
28 </data>
29 <data
30 name="pae_ranked_2"
31 format="csv"
32 from_work_dir="output/alphafold/extra/pae_ranked_2.csv"
33 label="${tool.name} on ${on_string}: pae_ranked_2.csv"
34 >
35 <filter>outputs['pae_csv']</filter>
36 <filter>model_preset != "monomer"</filter>
37 </data>
38 <data
39 name="pae_ranked_1"
40 format="csv"
41 from_work_dir="output/alphafold/extra/pae_ranked_1.csv"
42 label="${tool.name} on ${on_string}: pae_ranked_1.csv"
43 >
44 <filter>outputs['pae_csv']</filter>
45 <filter>model_preset != "monomer"</filter>
46 </data>
47 <data
48 name="pae_ranked_0"
49 format="csv"
50 from_work_dir="output/alphafold/extra/pae_ranked_0.csv"
51 label="${tool.name} on ${on_string}: pae_ranked_0.csv"
52 >
53 <filter>outputs['pae_csv']</filter>
54 <filter>model_preset != "monomer"</filter>
55 </data>
56 </xml>
57
58 <xml name="output_pickles">
59 <data
60 name="output_ranked_4_pkl"
61 format="binary"
62 from_work_dir="output/alphafold/extra/ranked_4.pkl"
63 label="${tool.name} on ${on_string}: ranked_4.pkl"
64 >
65 <filter>outputs['model_pkls']</filter>
66 </data>
67 <data
68 name="output_ranked_3_pkl"
69 format="binary"
70 from_work_dir="output/alphafold/extra/ranked_3.pkl"
71 label="${tool.name} on ${on_string}: ranked_3.pkl"
72 >
73 <filter>outputs['model_pkls']</filter>
74 </data>
75 <data
76 name="output_ranked_2_pkl"
77 format="binary"
78 from_work_dir="output/alphafold/extra/ranked_2.pkl"
79 label="${tool.name} on ${on_string}: ranked_2.pkl"
80 >
81 <filter>outputs['model_pkls']</filter>
82 </data>
83 <data
84 name="output_ranked_1_pkl"
85 format="binary"
86 from_work_dir="output/alphafold/extra/ranked_1.pkl"
87 label="${tool.name} on ${on_string}: ranked_1.pkl"
88 >
89 <filter>outputs['model_pkls']</filter>
90 </data>
91 <data
92 name="output_ranked_0_pkl"
93 format="binary"
94 from_work_dir="output/alphafold/extra/ranked_0.pkl"
95 label="${tool.name} on ${on_string}: ranked_0.pkl"
96 >
97 <filter>outputs['model_pkls']</filter>
98 </data>
99 </xml>
100
101 <xml name="output_plots">
102 <data
103 name="plot_ranked_4"
104 format="png"
105 from_work_dir="output/alphafold/extra/ranked_4.png"
106 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 4"
107 >
108 <filter>outputs['plots']</filter>
109 </data>
110 <data
111 name="plot_ranked_3"
112 format="png"
113 from_work_dir="output/alphafold/extra/ranked_3.png"
114 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 3"
115 >
116 <filter>outputs['plots']</filter>
117 </data>
118 <data
119 name="plot_ranked_2"
120 format="png"
121 from_work_dir="output/alphafold/extra/ranked_2.png"
122 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 2"
123 >
124 <filter>outputs['plots']</filter>
125 </data>
126 <data
127 name="plot_ranked_1"
128 format="png"
129 from_work_dir="output/alphafold/extra/ranked_1.png"
130 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 1"
131 >
132 <filter>outputs['plots']</filter>
133 </data>
134 <data
135 name="plot_ranked_0"
136 format="png"
137 from_work_dir="output/alphafold/extra/ranked_0.png"
138 label="${tool.name} on ${on_string}: pLDDT/PAE plot ranked 0"
139 >
140 <filter>outputs['plots']</filter>
141 </data>
142 </xml>
143
144 <xml name="output_confidence_scores">
145 <data
146 name="output_confidence_scores"
147 format="tabular"
148 from_work_dir="output/alphafold/extra/model_confidence_scores.tsv"
149 label="${tool.name} on ${on_string}: Model confidence scores"
150 >
151 <filter>outputs['confidence_scores']</filter>
152 </data>
153 </xml>
154
155 <xml name="output_plddts">
156 <data
157 name="output_plddts"
158 format="tabular"
159 from_work_dir="output/alphafold/extra/plddts.tsv"
160 label="${tool.name} on ${on_string}: Per-residue confidence scores (plddts)"
161 >
162 <filter>outputs['plddts']</filter>
163 </data>
164 </xml>
165
166 <xml name="output_relax_json">
167 <data
168 name="output_relax_json"
169 format="json"
170 from_work_dir="output/alphafold/extra/relax_metrics_ranked.json"
171 label="${tool.name} on ${on_string}: relax_metrics_ranked.json"
172 >
173 <filter>outputs['relax_json']</filter>
174 </data>
175 </xml>
176 </macros>