Mercurial > repos > mnhn65mo > rdata_handler
comparison rdata_extractor.xml @ 0:10212598b005 draft
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| author | mnhn65mo |
|---|---|
| date | Tue, 07 Aug 2018 06:02:29 -0400 |
| parents | |
| children | 5184899fd06e |
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| -1:000000000000 | 0:10212598b005 |
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| 1 <tool id="Rdata_exctract" name="Rdata parser" version="0.1"> | |
| 2 <requirements> | |
| 3 <requirement type="package" version="1.20.0">r-getopt</requirement> | |
| 4 <requirement type="package" version="7.0">readline</requirement> | |
| 5 </requirements> | |
| 6 <command detect_errors="exit_code"><![CDATA[ | |
| 7 mkdir outputs && | |
| 8 Rscript '$__tool_directory__/rdata_extractor.R' '$rdata' $selectedattributes '$summary' '$other' '$bind_dataframe' | |
| 9 ]]> | |
| 10 </command> | |
| 11 <inputs> | |
| 12 <param name="rdata" type="data" label="Rdata file to explore" format="rdata"/> | |
| 13 <param name="rdata_attributes" type="data" label="File with .Rdata content details" format="tabular"/> | |
| 14 | |
| 15 <param name="selectedattributes" label="Select which attribute(s) you want to extract" type="select" display="checkboxes" multiple="true"> | |
| 16 <options from_dataset="rdata_attributes"> | |
| 17 <column name="value" index="0"/> | |
| 18 </options> | |
| 19 </param> | |
| 20 <param name="bind_dataframe" label="Bind variables in a single tabular when its possible" type="boolean" truevalue="bind" falsevalue="nobind" checked="true"/> | |
| 21 </inputs> | |
| 22 <outputs> | |
| 23 <data name="summary" from_work_dir="summary.tabular" format="tabular" label="Summary"/> | |
| 24 <data name="other"> | |
| 25 <discover_datasets pattern="__designation_and_ext__" visible="true" directory="outputs"/> | |
| 26 </data> | |
| 27 </outputs> | |
| 28 <help><![CDATA[ | |
| 29 | |
| 30 .. class:: infomark | |
| 31 | |
| 32 ========================== | |
| 33 Rdata parser | |
| 34 ========================== | |
| 35 **What it does** | |
| 36 | |
| 37 | |
| 38 The Rdata parser tool allows to extract informations from a binary R file in .RData format. | |
| 39 | |
| 40 | |
| 41 It produces a summary file and extract the selected dimensions. | |
| 42 | |
| 43 More informations concerning R Data format and save / load functions can be found here: http://www.sthda.com/english/wiki/saving-data-into-r-data-format-rds-and-rdata>. | |
| 44 | |
| 45 More informations concerning R Data format and save / load functions can be found here: http://www.sthda.com/english/wiki/saving-data-into-r-data-format-rds-and-rdata>. | |
| 46 | |
| 47 | |
| 48 | | |
| 49 | |
| 50 **How to use it** | |
| 51 | |
| 52 First use the Rdata reader tool to get the list of dimensions available in the binary file. | |
| 53 | |
| 54 Use the reader tool output to select the dimension(s) you want to extract. | |
| 55 | |
| 56 ]]></help> | |
| 57 </tool> |