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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/projective_transformation_points/ commit c045f067a57e8308308cf6329060c7ccd3fc372f
author imgteam
date Thu, 04 Apr 2024 15:26:12 +0000
parents 65e95d0b8838
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6:65e95d0b8838 7:499ad4d9aa13
1 <tool id="ip_projective_transformation_points" name="Performs projective transformation" license="MIT" version="0.1.1-2" profile="20.05"> 1 <tool id="ip_projective_transformation_points" name="Perform projective transformation of point coordinates" license="MIT" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.05">
2 <description></description> 2 <description></description>
3 <macros>
4 <import>creators.xml</import>
5 <token name="@TOOL_VERSION@">0.1.1</token>
6 <token name="@VERSION_SUFFIX@">3</token>
7 </macros>
8 <creator>
9 <expand macro="creators/bmcv"/>
10 </creator>
3 <edam_operations> 11 <edam_operations>
4 <edam_operation>operation_3443</edam_operation> 12 <edam_operation>operation_3443</edam_operation>
5 </edam_operations> 13 </edam_operations>
6 <xrefs> 14 <xrefs>
7 <xref type="bio.tools">galaxy_image_analysis</xref> 15 <xref type="bio.tools">galaxy_image_analysis</xref>
20 '$tmat' 28 '$tmat'
21 '$output' 29 '$output'
22 ]]> 30 ]]>
23 </command> 31 </command>
24 <inputs> 32 <inputs>
25 <param name="input" type="data" format="tabular" label="ROIs (pixel coordinates) to be transformed (TSV file)" /> 33 <param name="input" type="data" format="tabular" label="Point coordinates to be transformed" help="Must be a TSV file." />
26 <param name="tmat" type= "data" format="tabular" label="Transformation matrix (TSV file)" /> 34 <param name="tmat" type= "data" format="tabular" label="Transformation matrix" help="Homogeneous transformation matrix (3⨉3)." />
27 </inputs> 35 </inputs>
28 <outputs> 36 <outputs>
29 <data format="tabular" name="output" /> 37 <data format="tabular" name="output" />
30 </outputs> 38 </outputs>
31 <tests> 39 <tests>
34 <param name="tmat" value="tmat.tabular" /> 42 <param name="tmat" value="tmat.tabular" />
35 <output name="output" value="out.tabular" ftype="tabular" compare="diff" /> 43 <output name="output" value="out.tabular" ftype="tabular" compare="diff" />
36 </test> 44 </test>
37 </tests> 45 </tests>
38 <help> 46 <help>
39 **What it does**
40 47
41 This tool performs a projective transformation of regions of interest (ROIs) defined by pixel (point) coordinates with/without labels. 48 **Performs projective transformation of point coordinates.**
42 49
43 About the format of point coordinates (and labels) in the input TSV table: 50 This tool performs a projective transformation of point coordinates with/without labels.
44 1st column: x-coordinate; 51
45 2nd column: y-coordinate; 52 The input point coordinates to be transformed must be in the following format:
46 (optional) more column(s): point label(s) (numerical or categorical). 53
47 The top row of the table will be regarded as column headers. 54 **Column 1:** The horizontal coordinate.
55
56 **Column 2:** The vertical coordinate.
57
58 **Further columns:** Point labels (numerical or categorical, optional).
59
60 The frist row of the table will be regarded as column headers.
48 61
49 </help> 62 </help>
50 <citations> 63 <citations>
51 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation> 64 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
52 </citations> 65 </citations>