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comparison output.json @ 0:1a766d8d3883 draft

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planemo upload for repository https://github.com/brsynth commit fa4c85dd6ad48d404a28e21667f18b628bbdc702-dirty
author tduigou
date Fri, 11 Jul 2025 10:10:16 +0000
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children 34135dac85b0
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-1:000000000000 0:1a766d8d3883
1 {
2 "summary": {
3 "num_errors": 0,
4 "num_failures": 0,
5 "num_skips": 0,
6 "num_tests": 2
7 },
8 "tests": [
9 {
10 "data": {
11 "inputs": {
12 "distribute_json": false,
13 "json_from_workflow": [
14 {
15 "id": "051ed7ff50845d8c",
16 "src": "hda"
17 },
18 {
19 "id": "25656ddfec77a3b3",
20 "src": "hda"
21 }
22 ]
23 },
24 "job": {
25 "command_line": "python '/home/rkhaled/galaxytools/tools/parameters_maystro/maystro.py' --distribute_json 'false' --json_from_workflow \"/tmp/tmpfpd6tei1/files/2/f/4/dataset_2f4ca6ae-77d6-4bfe-8e39-0051c294e4f6.dat\" \"/tmp/tmpfpd6tei1/files/9/6/0/dataset_960eac8e-fb66-4982-8009-4896c9e57b38.dat\" --json_from_user 'None' --json_name_mapping /tmp/tmpfpd6tei1/files/2/f/4/dataset_2f4ca6ae-77d6-4bfe-8e39-0051c294e4f6.dat:seq_from_db_param.json,/tmp/tmpfpd6tei1/files/9/6/0/dataset_960eac8e-fb66-4982-8009-4896c9e57b38.dat:seq_to_db_param.json --output_workflow '/tmp/tmpfpd6tei1/job_working_directory/000/3/outputs/dataset_d100f4ee-f845-4a68-be68-004c7af9679d.dat' --output_user '/tmp/tmpfpd6tei1/job_working_directory/000/3/outputs/dataset_1e2a9024-ad29-4d18-b95d-645817393383.dat' && echo 'DEBUB' && cat '/tmp/tmpfpd6tei1/job_working_directory/000/3/outputs/dataset_1e2a9024-ad29-4d18-b95d-645817393383.dat'",
26 "command_version": "",
27 "copied_from_job_id": null,
28 "create_time": "2025-07-11T09:42:39.854743",
29 "dependencies": [],
30 "exit_code": 0,
31 "external_id": "79277",
32 "galaxy_version": "25.0",
33 "handler": null,
34 "history_id": "051ed7ff50845d8c",
35 "id": "d66447d427a79ce4",
36 "inputs": {
37 "json_from_workflow": {
38 "id": "051ed7ff50845d8c",
39 "src": "hda",
40 "uuid": "2f4ca6ae-77d6-4bfe-8e39-0051c294e4f6"
41 },
42 "json_from_workflow1": {
43 "id": "051ed7ff50845d8c",
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46 },
47 "json_from_workflow2": {
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50 "uuid": "960eac8e-fb66-4982-8009-4896c9e57b38"
51 }
52 },
53 "job_messages": [],
54 "job_metrics": [],
55 "job_runner_name": null,
56 "job_stderr": "",
57 "job_stdout": "",
58 "model_class": "Job",
59 "output_collections": {},
60 "outputs": {
61 "output_user": {
62 "id": "39496c7f8d685f43",
63 "src": "hda",
64 "uuid": "1e2a9024-ad29-4d18-b95d-645817393383"
65 },
66 "output_workflow": {
67 "id": "d66447d427a79ce4",
68 "src": "hda",
69 "uuid": "d100f4ee-f845-4a68-be68-004c7af9679d"
70 }
71 },
72 "params": {
73 "__input_ext": "\"input\"",
74 "chromInfo": "\"/tmp/tmpfpd6tei1/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"",
75 "dbkey": "\"?\"",
76 "distribute_json": "false",
77 "json_from_user": null
78 },
79 "state": "ok",
80 "stderr": "",
81 "stdout": "[INFO] Watching temp dir for new JSONs: /tmp/tmpfpd6tei1/tmp/maystro_merge_xd06s1et\n[INFO] Initial JSONs from workflow: ['/tmp/tmpfpd6tei1/files/2/f/4/dataset_2f4ca6ae-77d6-4bfe-8e39-0051c294e4f6.dat', '/tmp/tmpfpd6tei1/files/9/6/0/dataset_960eac8e-fb66-4982-8009-4896c9e57b38.dat']\n[INFO] Added data under key: seq_from_db_param\n[INFO] Added data under key: seq_to_db_param\n[INFO] Merged JSON written to: /tmp/tmpfpd6tei1/job_working_directory/000/3/outputs/dataset_1e2a9024-ad29-4d18-b95d-645817393383.dat\n[INFO] Cleaning up: /tmp/tmpfpd6tei1/tmp/maystro_merge_xd06s1et\nDEBUB\n{\n \"seq_from_db_param\": {\n \"db_uri\": \"postgresql://postgres:RK17@localhost:5432/test_fragments_db\",\n \"table\": \"sample\",\n \"fragment_column\": \"fragment\",\n \"sequence_column\": \"sequence\",\n \"annotation_column\": \"annotation\"\n },\n \"seq_to_db_param\": {\n \"execution\": true,\n \"db_uri\": \"postgresql://postgres:RK17@localhost:5432/test_fragments_db\",\n \"table\": \"sample\",\n \"fragment_column\": \"fragment\",\n \"sequence_column\": \"sequence\",\n \"annotation_column\": \"annotation\"\n }\n}",
82 "tool_id": "parameters_maystro",
83 "tool_stderr": "",
84 "tool_stdout": "[INFO] Watching temp dir for new JSONs: /tmp/tmpfpd6tei1/tmp/maystro_merge_xd06s1et\n[INFO] Initial JSONs from workflow: ['/tmp/tmpfpd6tei1/files/2/f/4/dataset_2f4ca6ae-77d6-4bfe-8e39-0051c294e4f6.dat', '/tmp/tmpfpd6tei1/files/9/6/0/dataset_960eac8e-fb66-4982-8009-4896c9e57b38.dat']\n[INFO] Added data under key: seq_from_db_param\n[INFO] Added data under key: seq_to_db_param\n[INFO] Merged JSON written to: /tmp/tmpfpd6tei1/job_working_directory/000/3/outputs/dataset_1e2a9024-ad29-4d18-b95d-645817393383.dat\n[INFO] Cleaning up: /tmp/tmpfpd6tei1/tmp/maystro_merge_xd06s1et\nDEBUB\n{\n \"seq_from_db_param\": {\n \"db_uri\": \"postgresql://postgres:RK17@localhost:5432/test_fragments_db\",\n \"table\": \"sample\",\n \"fragment_column\": \"fragment\",\n \"sequence_column\": \"sequence\",\n \"annotation_column\": \"annotation\"\n },\n \"seq_to_db_param\": {\n \"execution\": true,\n \"db_uri\": \"postgresql://postgres:RK17@localhost:5432/test_fragments_db\",\n \"table\": \"sample\",\n \"fragment_column\": \"fragment\",\n \"sequence_column\": \"sequence\",\n \"annotation_column\": \"annotation\"\n }\n}",
85 "update_time": "2025-07-11T09:42:45.494563",
86 "user_email": "planemo@galaxyproject.org",
87 "user_id": "051ed7ff50845d8c"
88 },
89 "status": "success",
90 "test_index": 0,
91 "time_seconds": 16.301273107528687,
92 "tool_id": "parameters_maystro",
93 "tool_version": "0.1.0+galaxy1"
94 },
95 "has_data": true,
96 "id": "parameters_maystro-0"
97 },
98 {
99 "data": {
100 "inputs": {
101 "distribute_json": true,
102 "json_from_user": {
103 "id": "10ea9be91661a5fd",
104 "src": "hda"
105 },
106 "json_from_workflow": [
107 {
108 "id": "b7e19a053756efb9",
109 "src": "hda"
110 },
111 {
112 "id": "45e8a4dfb17d83f9",
113 "src": "hda"
114 }
115 ]
116 },
117 "job": {
118 "command_line": "python '/home/rkhaled/galaxytools/tools/parameters_maystro/maystro.py' --distribute_json 'true' --json_from_workflow \"/tmp/tmpfpd6tei1/files/c/1/e/dataset_c1e98b32-965c-4a0d-9c7f-26973a7e0fe6.dat\" \"/tmp/tmpfpd6tei1/files/3/a/5/dataset_3a560c20-0d3f-4aae-abd4-4a460698f28f.dat\" --json_from_user '/tmp/tmpfpd6tei1/files/0/a/b/dataset_0abf65a6-bd5b-47fc-94ba-a6a97fa6d88b.dat' --json_name_mapping /tmp/tmpfpd6tei1/files/c/1/e/dataset_c1e98b32-965c-4a0d-9c7f-26973a7e0fe6.dat:seq_from_db_param.json,/tmp/tmpfpd6tei1/files/3/a/5/dataset_3a560c20-0d3f-4aae-abd4-4a460698f28f.dat:seq_to_db_param.json --output_workflow '/tmp/tmpfpd6tei1/job_working_directory/000/7/outputs/dataset_5254084b-4d71-4098-b933-f73a9e7d5a28.dat' --output_user '/tmp/tmpfpd6tei1/job_working_directory/000/7/outputs/dataset_04c60445-2ff4-4b59-bcbc-75f08b68625a.dat' && echo 'DEBUB' && cat '/tmp/tmpfpd6tei1/job_working_directory/000/7/outputs/dataset_04c60445-2ff4-4b59-bcbc-75f08b68625a.dat'",
119 "command_version": "",
120 "copied_from_job_id": null,
121 "create_time": "2025-07-11T09:42:56.883885",
122 "dependencies": [],
123 "exit_code": 0,
124 "external_id": "79598",
125 "galaxy_version": "25.0",
126 "handler": null,
127 "history_id": "25656ddfec77a3b3",
128 "id": "10ea9be91661a5fd",
129 "inputs": {
130 "json_from_user": {
131 "id": "10ea9be91661a5fd",
132 "src": "hda",
133 "uuid": "0abf65a6-bd5b-47fc-94ba-a6a97fa6d88b"
134 },
135 "json_from_workflow": {
136 "id": "b7e19a053756efb9",
137 "src": "hda",
138 "uuid": "c1e98b32-965c-4a0d-9c7f-26973a7e0fe6"
139 },
140 "json_from_workflow1": {
141 "id": "b7e19a053756efb9",
142 "src": "hda",
143 "uuid": "c1e98b32-965c-4a0d-9c7f-26973a7e0fe6"
144 },
145 "json_from_workflow2": {
146 "id": "45e8a4dfb17d83f9",
147 "src": "hda",
148 "uuid": "3a560c20-0d3f-4aae-abd4-4a460698f28f"
149 }
150 },
151 "job_messages": [],
152 "job_metrics": [],
153 "job_runner_name": null,
154 "job_stderr": "",
155 "job_stdout": "",
156 "model_class": "Job",
157 "output_collections": {},
158 "outputs": {
159 "output_user": {
160 "id": "295d652904818249",
161 "src": "hda",
162 "uuid": "04c60445-2ff4-4b59-bcbc-75f08b68625a"
163 },
164 "output_workflow": {
165 "id": "8c61ed432685cfe0",
166 "src": "hda",
167 "uuid": "5254084b-4d71-4098-b933-f73a9e7d5a28"
168 }
169 },
170 "params": {
171 "__input_ext": "\"input\"",
172 "chromInfo": "\"/tmp/tmpfpd6tei1/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"",
173 "dbkey": "\"?\"",
174 "distribute_json": "true"
175 },
176 "state": "ok",
177 "stderr": "",
178 "stdout": "DEBUB\n",
179 "tool_id": "parameters_maystro",
180 "tool_stderr": "",
181 "tool_stdout": "DEBUB\n",
182 "update_time": "2025-07-11T09:43:02.149865",
183 "user_email": "planemo@galaxyproject.org",
184 "user_id": "051ed7ff50845d8c"
185 },
186 "status": "success",
187 "test_index": 1,
188 "time_seconds": 16.54760479927063,
189 "tool_id": "parameters_maystro",
190 "tool_version": "0.1.0+galaxy1"
191 },
192 "has_data": true,
193 "id": "parameters_maystro-1"
194 }
195 ],
196 "version": "0.1"
197 }