Mercurial > repos > blankenberglab > gpca
comparison r-gpca.xml @ 4:ceaa4d404115 draft default tip
planemo upload for repository https://github.com/blankenberglab/galaxy-tools-blankenberg/tree/master/tools/r-gpca commit 9ad682131963a72c88a5af1cfc99f90ea9d42a08
| author | blankenberglab |
|---|---|
| date | Mon, 03 Dec 2018 15:07:32 -0500 |
| parents | 8def7dda3bee |
| children |
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| 3:8def7dda3bee | 4:ceaa4d404115 |
|---|---|
| 2 <description>Batch Effect Detection via Guided Principal Components Analysis</description> | 2 <description>Batch Effect Detection via Guided Principal Components Analysis</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="1.0">r-gpca</requirement> | 4 <requirement type="package" version="1.0">r-gpca</requirement> |
| 5 <requirement type="package" version="1.6.0">r-optparse</requirement> | 5 <requirement type="package" version="1.6.0">r-optparse</requirement> |
| 6 </requirements> | 6 </requirements> |
| 7 <version_command><![CDATA['$__tool_directory__/r-gpca.R' --version]]></version_command> | 7 <version_command><![CDATA[Rscript '$__tool_directory__/r-gpca.R' --version]]></version_command> |
| 8 <command detect_errors="exit_code"> | 8 <command detect_errors="exit_code"> |
| 9 <![CDATA[ | 9 <![CDATA[ |
| 10 | 10 |
| 11 Rscript '$__tool_directory__/r-gpca.R' | 11 Rscript '$__tool_directory__/r-gpca.R' |
| 12 -i '${batch}' | 12 -i '${batch}' |
| 63 compare="sim_size"/> | 63 compare="sim_size"/> |
| 64 <extra_files type="file" name="guided_var_1.png" value="html_outfile_1/guided_var_1.png" compare="sim_size"/> | 64 <extra_files type="file" name="guided_var_1.png" value="html_outfile_1/guided_var_1.png" compare="sim_size"/> |
| 65 <extra_files type="file" name="unguided_var_1.png" value="html_outfile_1/unguided_var_1.png" | 65 <extra_files type="file" name="unguided_var_1.png" value="html_outfile_1/unguided_var_1.png" |
| 66 compare="sim_size"/> | 66 compare="sim_size"/> |
| 67 </output> | 67 </output> |
| 68 <output name="numbers_outfile_1.tabular" ftype="tabular" file="numbers_outfile_1.tabular"/> | 68 <output name="numbers_outfile" ftype="tabular" file="numbers_outfile_1.tabular"/> |
| 69 </test> | 69 </test> |
| 70 <test> | 70 <test> |
| 71 <param name="batch" ftype="tabular" value="batch_in_multiple_1.tabular" /> | 71 <param name="batch" ftype="tabular" value="batch_in_multiple_1.tabular" /> |
| 72 <param name="data" ftype="tabular" value="data_in_1.tabular" /> | 72 <param name="data" ftype="tabular" value="data_in_1.tabular" /> |
| 73 <param name="nperm" value="1000" /> | 73 <param name="nperm" value="1000" /> |
| 94 <extra_files type="file" name="unguided_var_1.png" value="html_outfile_2/unguided_var_1.png" | 94 <extra_files type="file" name="unguided_var_1.png" value="html_outfile_2/unguided_var_1.png" |
| 95 compare="sim_size"/> | 95 compare="sim_size"/> |
| 96 <extra_files type="file" name="unguided_var_2.png" value="html_outfile_2/unguided_var_2.png" | 96 <extra_files type="file" name="unguided_var_2.png" value="html_outfile_2/unguided_var_2.png" |
| 97 compare="sim_size"/> | 97 compare="sim_size"/> |
| 98 </output> | 98 </output> |
| 99 <output name="numbers_outfile_2.tabular" ftype="tabular" file="numbers_outfile_2.tabular"/> | 99 <output name="numbers_outfile" ftype="tabular" file="numbers_outfile_2.tabular"/> |
| 100 </test> | 100 </test> |
| 101 </tests> | 101 </tests> |
| 102 | 102 |
| 103 <help> | 103 <help> |
| 104 <![CDATA[ | 104 <![CDATA[ |