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"planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 40b2eeecc9e15be0b710f5e5195ac6f3b3b83c39"
author imgteam
date Fri, 14 Jan 2022 03:07:08 +0000
parents 974cf4357707
children be9a815e2240
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1ffdb07020ee "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 40b2eeecc9e15be0b710f5e5195ac6f3b3b83c39"
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1 <tool id="ip_projective_transformation" name="Projective Transformation" version="0.1.0" profile="20.05">
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2 <description>2D Projective Transformation</description>
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3 <requirements>
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4 <requirement type="package" version="0.18.1">scikit-image</requirement>
1ffdb07020ee "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 40b2eeecc9e15be0b710f5e5195ac6f3b3b83c39"
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5 <requirement type="package" version="1.2.4">pandas</requirement>
1ffdb07020ee "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 40b2eeecc9e15be0b710f5e5195ac6f3b3b83c39"
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6 <requirement type="package" version="1.20.2">numpy</requirement>
1ffdb07020ee "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 40b2eeecc9e15be0b710f5e5195ac6f3b3b83c39"
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7 <requirement type="package" version="1.6.2">scipy</requirement>
1ffdb07020ee "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 40b2eeecc9e15be0b710f5e5195ac6f3b3b83c39"
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8 <requirement type="package" version="2020.10.1">tifffile</requirement>
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17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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9 </requirements>
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974cf4357707 "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
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10 <command detect_errors="aggressive">
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17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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11 <![CDATA[
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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12 python '$__tool_directory__/projective_transformation.py'
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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13 '$fixed_image'
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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14 '$moving_image'
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15 '$warp_matrix'
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16 ./out
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17 ]]>
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18 </command>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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19 <inputs>
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20 <param name="moving_image" type="data" format="tiff,png,jpg" label="Moving image (to be transformed)" />
1ffdb07020ee "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 40b2eeecc9e15be0b710f5e5195ac6f3b3b83c39"
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21 <param name="fixed_image" type="data" format="tiff,png,jpg" label="Fixed image (the reference)" />
1ffdb07020ee "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 40b2eeecc9e15be0b710f5e5195ac6f3b3b83c39"
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22 <param name="warp_matrix" type="data" format="tabular" label="Transformation matrix" />
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23 </inputs>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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24 <outputs>
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25 <data format_source="moving_image" name="warped_image" from_work_dir="out" />
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17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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26 </outputs>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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27 <tests>
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28 <test>
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29 <param name="fixed_image" value="sample1.png"/>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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30 <param name="moving_image" value="sample2.png"/>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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31 <param name="warp_matrix" value="warp_matrix.tsv"/>
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32 <output name="warped_image" value="yam.png" ftype="png" compare="sim_size"/>
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33 </test>
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34 </tests>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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35 <help>
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36 **What it does**
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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37
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38 This tool performs a projective transformation of the moving image so that it fits the fixed image.
1ffdb07020ee "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 40b2eeecc9e15be0b710f5e5195ac6f3b3b83c39"
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39 Multi-channel and RGB images are supported.
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40 </help>
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41 <citations>
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42 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
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43 </citations>
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44 </tool>