Mercurial > repos > mvdbeek > concatenate_multiple_datasets
changeset 0:1e06fa2771f9 draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/concatenate_multiple_datasets commit 1542edc9d7c2b1e9649c52532a5630e23ac5ceda
| author | mvdbeek |
|---|---|
| date | Fri, 25 Sep 2015 11:09:17 -0400 |
| parents | |
| children | 201c568972c3 |
| files | catWrapper.xml test-data/1.bed test-data/2.bed test-data/cat_wrapper_out1.bed |
| diffstat | 4 files changed, 336 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/catWrapper.xml Fri Sep 25 11:09:17 2015 -0400 @@ -0,0 +1,70 @@ +<tool id="cat_multiple" name="Concatenate multiple datasets" version="0.2"> + <description>tail-to-head</description> + <command><![CDATA[ + cat + #for $file in $input + "$file" + #end for + > "$out_file1" + ]]> + </command> + <inputs> + <param name="input" type="data" label="Concatenate Dataset" multiple="True"/> + </inputs> + <outputs> + <data name="out_file1" format_source="input" metadata_source="input"/> + </outputs> + <tests> + <test> + <param name="input" value="1.bed,2.bed"/> + <output name="out_file1" file="cat_wrapper_out1.bed"/> + </test> + </tests> + <help> + + .. class:: warningmark + + **WARNING:** Be careful not to concatenate datasets of different kinds (e.g., sequences with intervals). This + tool does not check if the datasets being concatenated are in the same format. + + ----- + + **What it does** + + Concatenates datasets + + ----- + + **Example** + + Concatenating Dataset:: + + chrX 151087187 151087355 A 0 - + chrX 151572400 151572481 B 0 + + + with Dataset1:: + + chr1 151242630 151242955 X 0 + + chr1 151271715 151271999 Y 0 + + chr1 151278832 151279227 Z 0 - + + and with Dataset2:: + + chr2 100000030 200000955 P 0 + + chr2 100000015 200000999 Q 0 + + + will result in the following:: + + chrX 151087187 151087355 A 0 - + chrX 151572400 151572481 B 0 + + chr1 151242630 151242955 X 0 + + chr1 151271715 151271999 Y 0 + + chr1 151278832 151279227 Z 0 - + chr2 100000030 200000955 P 0 + + chr2 100000015 200000999 Q 0 + + + ----- + + Adapted from the concatenate tool that comes with galaxy. + </help> +</tool>
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