view imagej2_create_image.xml @ 1:1a7c29d5fc11 draft default tip

"planemo upload for repository commit 2afb24f3c81d625312186750a714d702363012b5"
author imgteam
date Mon, 28 Sep 2020 16:43:06 +0000
parents dc3935a0165a
line wrap: on
line source

<tool id="imagej2_create_image" name="Create new image" version="@WRAPPER_VERSION@.0">
    <expand macro="fiji_requirements"/>
    <command detect_errors="exit_code"><![CDATA[
#set output_log = '$output_log.txt'
#set output_name = '.'.join(['new_image', str($output_datatype)])
ImageJ --ij2 --headless --debug
--jython '$__tool_directory__/'
if [[ $? -ne 0 ]]; then
    cat '$output_log' >&2;
    mv '$output_name' '$output';
        <expand macro="image_type"/>
        <param name="image_title" type="text" label="Image title" help="Leave blank for no title"/>
        <param name="width" type="integer" value="512" min="1" label="Image width in pixels"/>
        <param name="height" type="integer" value="512" min="1" label="Image height in pixels"/>
        <param name="depth" type="integer" value="1" min="1" label="Image depth" help="Specifies the number of stack slices"/>
        <param name="output_datatype" type="select" label="Save as format">
            <expand macro="image_datatypes"/>
        <data name="output" format="jpg">
                <action type="format">
                    <option type="from_param" name="output_datatype"/>
            <param name="image_type" value="8-bit_ramp"/>
            <param name="image_title" value="MyTitle"/>
            <param name="width" value="256"/>
            <param name="height" value="256"/>
            <param name="depth" value="1"/>
            <param name="output_datatype" value="jpg"/>
            <output name="output" file="create_image1.jpg" ftype="jpg"/>
**What it does**

Creates a new image based on the following entries.

- **Type** specifies the image type "8-bit", "16-bit", "32-bit" or "RGB" with options
- **Title** is associated with the image, but not displayed in the image
- **Width** specifies the width of the image in pixels
- **Height** specifies the height of the image in pixels
- **Depth** specifies the number of stack slices
- **Format** specifies the image format "jpg", "png", etc

    <expand macro="fiji_headless_citations"/>