Mercurial > repos > nick > dna_visualizer
changeset 1:717a4009675c
literal.xml: adding custom color support
| author | Nick Stoler <nstoler@psu.edu> |
|---|---|
| date | Sun, 02 Mar 2014 14:20:33 -0500 |
| parents | 5257ce9d9184 |
| children | 1695b2153760 |
| files | literal.xml |
| diffstat | 1 files changed, 29 insertions(+), 1 deletions(-) [+] |
line wrap: on
line diff
--- a/literal.xml Sun Mar 02 13:51:03 2014 -0500 +++ b/literal.xml Sun Mar 02 14:20:33 2014 -0500 @@ -1,10 +1,38 @@ <tool id="visualdna" name="DNA visualizer" version="0.1"> <description>Visualize DNA with colored pixels.</description> - <command interpreter="python">literal.py $input -o $output -s ${width}x${height} </command> + <command interpreter="python">literal.py $input -o $output -s ${width}x${height} + #if $colors.custom: + -A $AR,$AG,$AB -T $TR,$TG,$TB -G $GR,$GG,$GB -C $CR,$CG,$CB + #end if + </command> <inputs> <param name="input" type="data" format="fasta" label="Input sequence" /> <param name="width" type="integer" value="512" min="512" label="Output image width" help="in pixels" /> <param name="height" type="integer" value="512" min="512" label="Output image height" help="in pixels" /> + <conditional name="colors"> + <param name="custom" type="select" label="Base colors"> + <option value="" selected="True">Use default colors</option> + <option value="true">Use custom colors</option> + </param> + <when value=""> + <!-- do nothing --> + </when> + <when value="true"> + <!-- 'A':'0,255,0', 'T':'255,0,0', 'G':'255,255,255', 'C':'0,0,255' --> + <param name="AR" type="integer" value="0" label="A red value" /> + <param name="AG" type="integer" value="255" label="A green value" /> + <param name="AB" type="integer" value="0" label="A blue value" /> + <param name="TR" type="integer" value="255" label="T red value" /> + <param name="TG" type="integer" value="0" label="T green value" /> + <param name="TB" type="integer" value="0" label="T blue value" /> + <param name="GR" type="integer" value="255" label="G red value" /> + <param name="GG" type="integer" value="255" label="G green value" /> + <param name="GB" type="integer" value="255" label="G blue value" /> + <param name="CR" type="integer" value="0" label="C red value" /> + <param name="CG" type="integer" value="0" label="C green value" /> + <param name="CB" type="integer" value="255" label="C blue value" /> + </when> + </conditional> </inputs> <outputs> <data name="output" format="png"/>