Mercurial > repos > imgteam > imagecoordinates_flipaxis

annotate imagecoordinates_flipaxis.xml @ 2:f8f1100d0701 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
author imgteam
date Wed, 18 Dec 2019 05:02:25 -0500
parents d0960e1b25a8
children 984b342d03a6
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
1 <tool id="imagecoordinates_flipaxis" name="Switch axis coordinates" version="0.1">
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
2 <description>Switches the axes of an image and flips the y axis.</description>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
3 <requirements>
2
f8f1100d0701 "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
imgteam
parents: 1
diff changeset
4 <requirement type="package" version="0.23.4" >pandas</requirement>
0
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
5 </requirements>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
6 <command detect_errors="aggressive">
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
7 <![CDATA[
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
8 python "$__tool_directory__/imagecoordinates_flipaxis.py" '$input' '$output' $img_height
1
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
9 $offset_x $offset_y
0
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
10 ]]>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
11 </command>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
12 <inputs>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
13 <param name="input" type="data" format="tabular" label="File with image coordinates"/>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
14 <param name="img_height" type="integer" value="100" label="Height of the corresponding image"/>
1
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
15 <param name="offset_x" type="integer" value="0" label="Added offset in x direction (=width direction)" />
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
16 <param name="offset_y" type="integer" value="0" label="Added offset in y direction (=height direction)" />
2
f8f1100d0701 "planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
imgteam
parents: 1
diff changeset
17 </inputs>
0
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
18 <outputs>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
19 <data name="output" format="tabular"/>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
20 </outputs>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
21 <tests>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
22 <test>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
23 <param name="input" value="table.tsv" />
1
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
24 <output name="output" value="out.tsv" ftype="tabular" />
0
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
25 <param name="img_height" value="500"/>
1
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
26 </test>
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
27 <test>
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
28 <param name="input" value="table.tsv" />
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
29 <output name="output" value="out_offset.tsv" ftype="tabular" />
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
30 <param name="img_height" value="500"/>
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
31 <param name="offset_x" value="1"/>
d0960e1b25a8 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit da043bdec956714abb0fa82f278931bbe1a6d41d
imgteam
parents: 0
diff changeset
32 <param name="offset_y" value="2"/>
0
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
33 </test>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
34 </tests>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
35 <help>Makes x the horizontal axis (left to right) and y the vertical axis (bottom to top),
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
36 like in a coordinate system.</help>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
37 <citations>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
38 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
39 </citations>
5a210baa2ff1 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/imagecoordinates_flipaxis/ commit 67eaf2b9a9ee1bfed14afba33007ef595890400c
imgteam
parents:
diff changeset
40 </tool>