Mercurial > repos > bgruening > get_online_data
comparison get_online_data.xml @ 0:deb08c131d50 draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/chemicaltoolbox/data_source/get_online_data commit aed18d7d09e332efe57d00b33c2b8249abefaedb
| author | bgruening |
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| date | Wed, 22 May 2019 07:42:51 -0400 |
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| -1:000000000000 | 0:deb08c131d50 |
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| 1 <tool id="ctb_online_data_fetch" name="Online data" version="0.4"> | |
| 2 <description>fetching</description> | |
| 3 <requirements> | |
| 4 <requirement type="package" version="3">python</requirement> | |
| 5 </requirements> | |
| 6 <command> | |
| 7 <![CDATA[ | |
| 8 python '$__tool_directory__/get_online_data.py' | |
| 9 --url '$url_paste' | |
| 10 --out '$output' | |
| 11 --whitelist '$whitelist' | |
| 12 ]]> | |
| 13 </command> | |
| 14 <inputs> | |
| 15 <param name="url_paste" type="text" area="true" size="5x55" label="URLs" help="List of URLs (one per line)."/> | |
| 16 <param name="whitelist" type="text" area="true" size="10x20" | |
| 17 label="Whitelist of filename extensions" | |
| 18 help="Specify a list of file extensions which should be extracted (default: sdf, mol, smi, inchi). Each extension should be placed on a new line."/> | |
| 19 </inputs> | |
| 20 <outputs> | |
| 21 <data format="txt" name="output" /> | |
| 22 </outputs> | |
| 23 <tests> | |
| 24 <test> | |
| 25 <param name="url_paste" value="https://github.com/simonbray/test-files/blob/master/get_online_data/1AKI.pdb.gz?raw=true" /> | |
| 26 <param name="whitelist" value=".pdb"/> | |
| 27 <output name="output" file="gztest.txt" /> | |
| 28 </test> | |
| 29 <test> | |
| 30 <param name="url_paste" value="https://github.com/simonbray/test-files/blob/master/get_online_data/sdfs.zip?raw=true" /> | |
| 31 <output name="output" file="ziptest.txt" /> | |
| 32 </test> | |
| 33 </tests> | |
| 34 <help> | |
| 35 <![CDATA[ | |
| 36 | |
| 37 .. class:: infomark | |
| 38 | |
| 39 **What this tool does** | |
| 40 | |
| 41 Fetch data via FTP or HTTP and store them in your history. Supply one or more URLs; all files with the chosen file extensions will be extracted. Caution: all files are concatenated together. | |
| 42 | |
| 43 ----- | |
| 44 | |
| 45 .. class:: infomark | |
| 46 | |
| 47 **Input** | |
| 48 | |
| 49 Supported filetypes are: | |
| 50 - gz/gzip | |
| 51 - ZIP (with recursive extracting of specific filetypes) | |
| 52 | |
| 53 | |
| 54 ]]> | |
| 55 </help> | |
| 56 <citations> | |
| 57 </citations> | |
| 58 </tool> |