Mercurial > repos > devteam > merge_cols
annotate mergeCols.xml @ 1:f2aac0c5c60d
Added quotes and brackets to appropriate command arguments
| author | greg <greg@bx.psu.edu> |
|---|---|
| date | Mon, 01 Apr 2013 15:13:57 -0400 |
| parents | 28ca7552e884 |
| children | dd40b1e9eebe |
| rev | line source |
|---|---|
| 0 | 1 <tool id="mergeCols1" name="Merge Columns" version="1.0.1"> |
| 2 <description>together</description> | |
| 3 <command interpreter="python"> | |
| 4 mergeCols.py | |
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1
f2aac0c5c60d
Added quotes and brackets to appropriate command arguments
greg <greg@bx.psu.edu>
parents:
0
diff
changeset
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5 "${input1}" |
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f2aac0c5c60d
Added quotes and brackets to appropriate command arguments
greg <greg@bx.psu.edu>
parents:
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diff
changeset
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6 "${out_file1}" |
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f2aac0c5c60d
Added quotes and brackets to appropriate command arguments
greg <greg@bx.psu.edu>
parents:
0
diff
changeset
|
7 "${col1}" |
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f2aac0c5c60d
Added quotes and brackets to appropriate command arguments
greg <greg@bx.psu.edu>
parents:
0
diff
changeset
|
8 "${col2}" |
| 0 | 9 #for $col in $columns |
| 10 ${col.datacol} | |
| 11 #end for | |
| 12 </command> | |
| 13 <inputs> | |
| 14 <param format="tabular" name="input1" type="data" label="Select data" help="Dataset missing? See TIP below."/> | |
| 15 <param name="col1" label="Merge column" type="data_column" data_ref="input1" /> | |
| 16 <param name="col2" label="with column" type="data_column" data_ref="input1" help="Need to add more columns? Use controls below."/> | |
| 17 <repeat name="columns" title="Columns"> | |
| 18 <param name="datacol" label="Add column" type="data_column" data_ref="input1" /> | |
| 19 </repeat> | |
| 20 </inputs> | |
| 21 <outputs> | |
| 22 <data format="tabular" name="out_file1" /> | |
| 23 </outputs> | |
| 24 <tests> | |
| 25 <test> | |
| 26 <param name="input1" value="1.bed"/> | |
| 27 <param name="col1" value="4" /> | |
| 28 <param name="col2" value="1" /> | |
| 29 <param name="datacol" value="6" /> | |
| 30 <output name="out_file1" file="mergeCols.dat"/> | |
| 31 </test> | |
| 32 </tests> | |
| 33 <help> | |
| 34 | |
| 35 .. class:: infomark | |
| 36 | |
| 37 **TIP:** If your data is not TAB delimited, use *Text Manipulation->Convert* | |
| 38 | |
| 39 ----- | |
| 40 | |
| 41 **What it does** | |
| 42 | |
| 43 This tool merges columns together. Any number of valid columns can be merged in any order. | |
| 44 | |
| 45 ----- | |
| 46 | |
| 47 **Example** | |
| 48 | |
| 49 Input dataset (five columns: c1, c2, c3, c4, and c5):: | |
| 50 | |
| 51 1 10 1000 gene1 chr | |
| 52 2 100 1500 gene2 chr | |
| 53 | |
| 54 merging columns "**c5,c1**" will return:: | |
| 55 | |
| 56 1 10 1000 gene1 chr chr1 | |
| 57 2 100 1500 gene2 chr chr2 | |
| 58 | |
| 59 .. class:: warningmark | |
| 60 | |
| 61 Note that all original columns are preserved and the result of merge is added as the rightmost column. | |
| 62 </help> | |
| 63 </tool> |