Mercurial > repos > iuc > gemini
annotate data_manager/data_manager_gemini_download.xml @ 20:b5207530f991 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
| author | iuc |
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| date | Tue, 29 Dec 2015 10:19:47 -0500 |
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| rev | line source |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
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1 <tool id="data_manager_gemini_download" name="GEMINI Download" version="0.18.1" tool_type="manage_data"> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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2 <description>Download a new database</description> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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3 <requirements> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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4 <requirement type="package" version="0.18.1">gemini</requirement> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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5 </requirements> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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6 <stdio> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
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7 <exit_code range=":-1" level="fatal" description="Error: Cannot open file" /> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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8 <exit_code range="1:" level="fatal" description="Error" /> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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9 </stdio> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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10 <command interpreter="python"> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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changeset
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11 data_manager_gemini_download.py "$out_file" |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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12 </command> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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13 <inputs> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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14 <param name="cadd" type="boolean" truevalue="--extra cadd_score" falsevalue="" checked="True" |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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15 label="Download CADD scores for GEMINI database annotation" help="(--extra cadd_score)"/> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
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16 <param name="gerp_bp" type="boolean" truevalue="--extra gerp_bp" falsevalue="" checked="True" |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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17 label="Download GERP for GEMINI database annotation" help="(--extra gerp_bp)"/> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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18 </inputs> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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19 <outputs> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
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20 <data name="out_file" format="data_manager_json" label="${tool.name}"/> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
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21 </outputs> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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22 <tests> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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23 </tests> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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24 <help> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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25 |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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26 This tool downloads the GEMINI databases. |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
changeset
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27 |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
diff
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28 For details about this tool, please go to http://gemini.readthedocs.org |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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29 |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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changeset
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30 </help> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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31 <citations> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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32 <citation type="doi">10.1371/journal.pcbi.1003153</citation> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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33 <yield /> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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34 </citations> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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35 </tool> |
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b5207530f991
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_downloader commit e88029bb12e5262687267293f9d2a694eb00d3f0-dirty
iuc
parents:
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36 |