Mercurial > repos > rnateam > blockclust_workflow
comparison blockclust_workflow.ga @ 2:e9b2400cc569 draft
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author | bgruening |
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date | Tue, 22 Oct 2013 17:35:13 -0400 |
parents | |
children | adcc8f1b6920 |
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1:d0ae001db6d7 | 2:e9b2400cc569 |
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1 { | |
2 "a_galaxy_workflow": "true", | |
3 "annotation": "", | |
4 "format-version": "0.1", | |
5 "name": "BlockClustWorkflow", | |
6 "steps": { | |
7 "0": { | |
8 "annotation": "", | |
9 "id": 0, | |
10 "input_connections": {}, | |
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13 "outputs": [ | |
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21 }, | |
22 { | |
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24 "type": "bed" | |
25 }, | |
26 { | |
27 "name": "sim_tab_out", | |
28 "type": "tabular" | |
29 }, | |
30 { | |
31 "name": "analysis", | |
32 "type": "tabular" | |
33 }, | |
34 { | |
35 "name": "cluster_dist", | |
36 "type": "pdf" | |
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41 "top": 308 | |
42 }, | |
43 "post_job_actions": {}, | |
44 "tool_errors": null, | |
45 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/0.1", | |
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47 "tool_version": "0.1", | |
48 "type": "tool", | |
49 "user_outputs": [] | |
50 }, | |
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53 "id": 1, | |
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56 "id": 0, | |
57 "output_name": "tags_bed" | |
58 } | |
59 }, | |
60 "inputs": [], | |
61 "name": "Sort", | |
62 "outputs": [ | |
63 { | |
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65 "type": "input" | |
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74 "tool_id": "sort1", | |
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76 "tool_version": "1.0.3", | |
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79 }, | |
80 "2": { | |
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83 "input_connections": { | |
84 "input": { | |
85 "id": 1, | |
86 "output_name": "out_file1" | |
87 } | |
88 }, | |
89 "inputs": [], | |
90 "name": "blockbuster", | |
91 "outputs": [ | |
92 { | |
93 "name": "output", | |
94 "type": "tabular" | |
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97 "position": { | |
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103 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/rnateam/blockbuster/blockbuster/0.1", | |
104 "tool_state": "{\"distance\": \"\\\"30\\\"\", \"scale\": \"\\\"0.4\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"print\": \"\\\"1\\\"\", \"tagFilter\": \"\\\"0\\\"\", \"merge\": \"\\\"0\\\"\", \"minBlockHeight\": \"\\\"2.0\\\"\", \"input\": \"null\", \"minClusterHeight\": \"\\\"10.0\\\"\"}", | |
105 "tool_version": "0.1", | |
106 "type": "tool", | |
107 "user_outputs": [] | |
108 }, | |
109 "3": { | |
110 "annotation": "", | |
111 "id": 3, | |
112 "input_connections": { | |
113 "mode|input_bbo": { | |
114 "id": 2, | |
115 "output_name": "output" | |
116 } | |
117 }, | |
118 "inputs": [ | |
119 { | |
120 "description": "runtime parameter for tool BlockClust", | |
121 "name": "mode" | |
122 } | |
123 ], | |
124 "name": "BlockClust", | |
125 "outputs": [ | |
126 { | |
127 "name": "tags_bed", | |
128 "type": "bed" | |
129 }, | |
130 { | |
131 "name": "hclust_plot", | |
132 "type": "pdf" | |
133 }, | |
134 { | |
135 "name": "clusters", | |
136 "type": "bed" | |
137 }, | |
138 { | |
139 "name": "sim_tab_out", | |
140 "type": "tabular" | |
141 }, | |
142 { | |
143 "name": "analysis", | |
144 "type": "tabular" | |
145 }, | |
146 { | |
147 "name": "cluster_dist", | |
148 "type": "pdf" | |
149 } | |
150 ], | |
151 "position": { | |
152 "left": 922, | |
153 "top": 308 | |
154 }, | |
155 "post_job_actions": {}, | |
156 "tool_errors": null, | |
157 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/0.1", | |
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159 "tool_version": "0.1", | |
160 "type": "tool", | |
161 "user_outputs": [] | |
162 }, | |
163 "4": { | |
164 "annotation": "", | |
165 "id": 4, | |
166 "input_connections": { | |
167 "input": { | |
168 "id": 3, | |
169 "output_name": "clusters" | |
170 } | |
171 }, | |
172 "inputs": [], | |
173 "name": "Extract Genomic DNA", | |
174 "outputs": [ | |
175 { | |
176 "name": "out_file1", | |
177 "type": "input" | |
178 } | |
179 ], | |
180 "position": { | |
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183 }, | |
184 "post_job_actions": {}, | |
185 "tool_errors": null, | |
186 "tool_id": "Extract genomic DNA 1", | |
187 "tool_state": "{\"out_format\": \"\\\"fasta\\\"\", \"__page__\": 0, \"interpret_features\": \"\\\"yes\\\"\", \"__rerun_remap_job_id__\": null, \"seq_source\": \"{\\\"index_source\\\": \\\"cached\\\", \\\"__current_case__\\\": 0}\", \"input\": \"null\"}", | |
188 "tool_version": "2.2.2", | |
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190 "user_outputs": [] | |
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192 "5": { | |
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196 "seqdb": { | |
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198 "output_name": "out_file1" | |
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200 }, | |
201 "inputs": [], | |
202 "name": "Search covariance model(s)", | |
203 "outputs": [ | |
204 { | |
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206 "type": "tabular" | |
207 }, | |
208 { | |
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221 "tool_version": "1.1.0.1", | |
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242 "inputs": [], | |
243 "name": "BlockClust", | |
244 "outputs": [ | |
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263 "type": "tabular" | |
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265 { | |
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278 "tool_version": "0.1", | |
279 "type": "tool", | |
280 "user_outputs": [] | |
281 } | |
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283 } |