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"planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
author imgteam
date Wed, 18 Dec 2019 05:03:09 -0500
parents 17f5d0c3f8a3
children 1ffdb07020ee
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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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1 <tool id="ip_projective_transformation" name="Projective Transformation" version="0.0.4">
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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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2 <description>Projective Transformation</description>
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3 <requirements>
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4 <requirement type="package" version="0.14.2">scikit-image</requirement>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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5 <requirement type="package" version="0.23.4">pandas</requirement>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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6 <requirement type="package" version="1.15.4">numpy</requirement>
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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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7 <requirement type="package" version="1.1.0">scipy</requirement>
974cf4357707 "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
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8 <requirement type="package" version="0.15.1">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 '$moving_image'
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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15 '$warp_matrix'
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16 ./out.png
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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="png" label="Moving Image" />
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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21 <param name="fixed_image" type="data" format="png" label="Fixed Image" />
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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22 <param name="warp_matrix" type= "data" format="tabular" label="Warp Matrix" />
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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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="png" name="out" from_work_dir="out.png" />
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>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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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"/>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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32 <output name="out" value="yam.png" ftype="png" compare="sim_size"/>
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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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**
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37
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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38 This tool performs a projective transformation of the input (moving) image so that it fits the fixed image.
17f5d0c3f8a3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/projective_transformation/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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39 </help>
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40 <citations>
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41 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
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42 </citations>
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43 </tool>