| Next changeset 1:65703c06c1f6 (2025-10-30) |
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Commit message:
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/image_processing/imagemagick commit 76bec0462c7a1702a95af31d1fa3ce00bd106c93 |
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macros.xml montage.xml test-data/Mirror Donald.png test-data/donald-colors-2.jpg test-data/donald-palette.jpg test-data/donald.jpg test-data/outputs/tmp_00.jpg test-data/outputs/tmp_01.jpg test-data/result_image_compare01.log test-data/result_image_compare01.png test-data/result_image_compare02.log test-data/result_image_compare02.png test-data/result_image_compare03.log test-data/result_image_compare03.png test-data/result_image_composite01.png test-data/result_image_composite01_norm.png test-data/result_image_composite01_stats.txt test-data/result_image_convert_1.png test-data/result_image_montage_1.png test-data/result_image_montage_2.png test-data/result_image_montage_3.png test-data/test.pdf |
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| diff -r 000000000000 -r 506a90ab5581 macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Mon Sep 01 15:51:11 2025 +0000 |
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| b'@@ -0,0 +1,181 @@\n+<macros>\n+ <token name="@TOOL_VERSION@">7.1.2-2</token>\n+ <token name="@VERSION_SUFFIX@">0</token>\n+ <xml name="requirements">\n+ <requirements>\n+ <requirement type="package" version="@TOOL_VERSION@">imagemagick</requirement>\n+ <requirement type="package" version="2.13.3">freetype</requirement>\n+ <yield/>\n+ </requirements>\n+ </xml>\n+ <xml name="citations">\n+ <citations>\n+ <citation type="bibtex">\n+ @software{imagemagick,\n+ author = {{ImageMagick Studio LLC}},\n+ title = {ImageMagick},\n+ url = {https://imagemagick.org},\n+ version = {7.1.1},\n+ date = {2024-01-04},\n+ }\n+ </citation>\n+ </citations>\n+ </xml>\n+ <xml name="color">\n+ <param name="color" type="select" label="Highlight color">\n+ <option value="default" selected="true" >Default</option>\n+ <option value="AliceBlue">AliceBlue</option>\n+ <option value="AntiqueWhite">AntiqueWhite</option>\n+ <option value="aqua">aqua</option>\n+ <option value="aquamarine">aquamarine</option>\n+ <option value="azure">azure</option>\n+ <option value="beige">beige</option>\n+ <option value="bisque">bisque</option>\n+ <option value="black">black</option>\n+ <option value="BlanchedAlmond">BlanchedAlmond</option>\n+ <option value="blue">blue</option>\n+ <option value="BlueViolet">BlueViolet</option>\n+ <option value="brown">brown</option>\n+ <option value="burlywood">burlywood</option>\n+ <option value="cadet">cadet</option>\n+ <option value="CadetBlue">CadetBlue</option>\n+ <option value="chartreuse">chartreuse</option>\n+ <option value="chocolate">chocolate</option>\n+ <option value="coral">coral</option>\n+ <option value="CornflowerBlue">CornflowerBlue</option>\n+ <option value="cornsilk">cornsilk</option>\n+ <option value="crimson">crimson</option>\n+ <option value="cyan">cyan</option>\n+ <option value="dark">dark</option>\n+ <option value="DarkBlue">DarkBlue</option>\n+ <option value="DarkCyan">DarkCyan</option>\n+ <option value="DarkGoldenrod">DarkGoldenrod</option>\n+ <option value="DarkGray">DarkGray</option>\n+ <option value="DarkGreen">DarkGreen</option>\n+ <option value="DarkKhaki">DarkKhaki</option>\n+ <option value="DarkMagenta">DarkMagenta</option>\n+ <option value="DarkOliveGreen">DarkOliveGreen</option>\n+ <option value="DarkOrange">DarkOrange</option>\n+ <option value="DarkOrchid">DarkOrchid</option>\n+ <option value="DarkRed">DarkRed</option>\n+ <option value="DarkSalmon">DarkSalmon</option>\n+ <option value="DarkSeaGreen">DarkSeaGreen</option>\n+ <option value="DarkSlateBlue">DarkSlateBlue</option>\n+ <option value="DarkSlateGray">DarkSlateGray</option>\n+ <option value="DarkTurquoise">DarkTurquoise</option>\n+ <option value="DarkViolet">DarkViolet</option>\n+ <option value="DeepPink">DeepPink</option>\n+ <option value="DeepSkyBlue">DeepSkyBlue</option>\n+ <option value="DimGray">DimGray</option>\n+ <option value="DodgerBlue">DodgerBlue</option>\n+ <option value="firebrick">firebrick</option>\n+ <option value="FloralWhite">FloralWhite</option>\n+ <option value="ForestGreen">ForestGreen</option>\n+ <option value="fractal">fractal</option>\n+ <option value="fuchsia">fuchsia</option>\n+ <option value="gainsboro">gainsboro</option>\n+ <option value="GhostWhite">GhostWhite</option>\n+ <option value="gold">g'..b' <option value="linen">linen</option>\n+ <option value="magenta">magenta</option>\n+ <option value="maroon">maroon</option>\n+ <option value="MediumAquamarine">MediumAquamarine</option>\n+ <option value="MediumBlue">MediumBlue</option>\n+ <option value="MediumForestGreen">MediumForestGreen</option>\n+ <option value="MediumGoldenRod">MediumGoldenRod</option>\n+ <option value="MediumOrchid">MediumOrchid</option>\n+ <option value="MediumPurple">MediumPurple</option>\n+ <option value="MediumSeaGreen">MediumSeaGreen</option>\n+ <option value="MediumSlateBlue">MediumSlateBlue</option>\n+ <option value="MediumSpringGreen">MediumSpringGreen</option>\n+ <option value="MediumTurquoise">MediumTurquoise</option>\n+ <option value="MediumVioletRed">MediumVioletRed</option>\n+ <option value="MidnightBlue">MidnightBlue</option>\n+ <option value="MintCream">MintCream</option>\n+ <option value="MistyRose">MistyRose</option>\n+ <option value="moccasin">moccasin</option>\n+ <option value="NavajoWhite">NavajoWhite</option>\n+ <option value="navy">navy</option>\n+ <option value="NavyBlue">NavyBlue</option>\n+ <option value="none">none</option>\n+ <option value="OldLace">OldLace</option>\n+ <option value="olive">olive</option>\n+ <option value="OliveDrab">OliveDrab</option>\n+ <option value="opaque">opaque</option>\n+ <option value="orange">orange</option>\n+ <option value="OrangeRed">OrangeRed</option>\n+ <option value="orchid">orchid</option>\n+ <option value="PaleGoldenrod">PaleGoldenrod</option>\n+ <option value="PaleGreen">PaleGreen</option>\n+ <option value="PaleTurquoise">PaleTurquoise</option>\n+ <option value="PaleVioletRed">PaleVioletRed</option>\n+ <option value="PapayaWhip">PapayaWhip</option>\n+ <option value="PeachPuff">PeachPuff</option>\n+ <option value="peru">peru</option>\n+ <option value="pink">pink</option>\n+ <option value="plum">plum</option>\n+ <option value="PowderBlue">PowderBlue</option>\n+ <option value="purple">purple</option>\n+ <option value="red">red</option>\n+ <option value="RosyBrown">RosyBrown</option>\n+ <option value="RoyalBlue">RoyalBlue</option>\n+ <option value="SaddleBrown">SaddleBrown</option>\n+ <option value="salmon">salmon</option>\n+ <option value="SandyBrown">SandyBrown</option>\n+ <option value="SeaGreen">SeaGreen</option>\n+ <option value="seashell">seashell</option>\n+ <option value="sienna">sienna</option>\n+ <option value="silver">silver</option>\n+ <option value="SkyBlue">SkyBlue</option>\n+ <option value="SlateBlue">SlateBlue</option>\n+ <option value="SlateGray">SlateGray</option>\n+ <option value="snow">snow</option>\n+ <option value="SpringGreen">SpringGreen</option>\n+ <option value="SteelBlue">SteelBlue</option>\n+ <option value="tan">tan</option>\n+ <option value="teal">teal</option>\n+ <option value="thistle">thistle</option>\n+ <option value="tomato">tomato</option>\n+ <option value="transparent">transparent</option>\n+ <option value="turquoise">turquoise</option>\n+ <option value="violet">violet</option>\n+ <option value="VioletRed">VioletRed</option>\n+ <option value="wheat">wheat</option>\n+ <option value="white">white</option>\n+ <option value="WhiteSmoke">WhiteSmoke</option>\n+ <option value="yellow">yellow</option>\n+ <option value="YellowGreen">YellowGreen</option>\n+ </param>\n+ </xml>\n+</macros>\n' |
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| diff -r 000000000000 -r 506a90ab5581 montage.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/montage.xml Mon Sep 01 15:51:11 2025 +0000 |
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| @@ -0,0 +1,140 @@ +<tool id="imagemagick_image_montage" name="Image Montage" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="23.1"> + <description>with ImageMagick</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command detect_errors="aggressive"> +<![CDATA[ + + #set $list_inputs = [] + #if $label_options.label=="true" and $label_options.label_indexes=="false" : + #for $idx, $data in enumerate($images): + #set $file=$data.input + ln -s $file "${file.element_identifier}.${file.ext}" && + $list_inputs.append("%s.%s" % ($file.element_identifier, $file.ext)) + #end for + #else: + #for $idx, $data in enumerate($images): + #set $file=$data.input + #set $prefix=str($idx+1) + ln -s $file "${prefix}.${file.element_identifier}.${file.ext}" && + $list_inputs.append("%s.%s.%s" % ($prefix, $file.element_identifier, $file.ext)) + #end for + #end if + + fontfile=\$(fc-list | grep DejaVuSans.ttf | head -n 1 | cut -d: -f1) && + + magick montage + -geometry +0+0 + -background white + -font \$fontfile + -pointsize $pointsize + -tile ${width}x + -resize ${resize}% + #if $label_options.label == "true": + -label "%t" + #end if + #if $title: + -title '$title' + #end if + #for $i in $list_inputs: + "$i" + #end for + output.png +]]> + </command> + + <inputs> + <repeat name="images" title="Dataset"> + <param name="input" type="data" format="jpg,png,bmp,gif,svg,eps,tiff" label="Image"/> + </repeat> + <param name="width" type="integer" value="4" label="# of images wide"/> + <param name="resize" type="integer" value="100" label="Resize the image (in percent of the original size)"/> + <param name="title" type="text" optional="true" label="Add a Title to the image"/> + + <conditional name="label_options"> + <param name="label" type="select" label="Add the name of the files as image labels."> + <option value="false" selected="true">No</option> + <option value="true">Yes</option> + </param> + <when value="true"> + <param name="label_indexes" type="boolean" value="false" label="Add the dataset index to the label. (Necessary if you have duplicate names among the images)."/> + </when> + <when value="false" /> + </conditional> + + <param name="pointsize" type="integer" value="14" optional="true" label="Point size of the labels and/or title."/> + </inputs> + <outputs> + <data format="png" name="output" from_work_dir="output.png" /> + </outputs> + <tests> + <test> + <repeat name="images"> + <param name="input" value="donald.jpg" /> + </repeat> + <repeat name="images"> + <param name="input" value="donald.jpg" /> + </repeat> + <repeat name="images"> + <param name="input" value="Mirror Donald.png" /> + </repeat> + <repeat name="images"> + <param name="input" value="Mirror Donald.png" /> + </repeat> + <param name="width" value="3" /> + <output name="output" file="result_image_montage_1.png" compare="sim_size" /> + </test> + <test> + <repeat name="images"> + <param name="input" value="donald.jpg" /> + </repeat> + <repeat name="images"> + <param name="input" value="Mirror Donald.png" /> + </repeat> + <repeat name="images"> + <param name="input" value="donald.jpg" /> + </repeat> + <repeat name="images"> + <param name="input" value="Mirror Donald.png" /> + </repeat> + <param name="width" value="2" /> + <param name="resize" value="90" /> + <conditional name="label_options"> + <param name="label" value="true" /> + <param name="label_indexes" value="true" /> + </conditional> + <param name="title" value="A bunch of Donalds" /> + <output name="output" file="result_image_montage_2.png" compare="sim_size" /> + </test> + <test> + <repeat name="images"> + <param name="input" value="donald.jpg" /> + </repeat> + <repeat name="images"> + <param name="input" value="Mirror Donald.png" /> + </repeat> + <param name="width" value="2" /> + <conditional name="label_options"> + <param name="label" value="true" /> + <param name="label_indexes" value="false" /> + </conditional> + <param name="title" value="Donald Duo" /> + <output name="output" file="result_image_montage_3.png" compare="sim_size" /> + </test> + </tests> + <help> +<![CDATA[ + +**What it does** + +Montage composites multiple images into a single, larger image. You may need to resize large images before you attempt to montage them. + +The width parameter controls how many images wide the montage will be. With a width of 4, and 8 images selected, you will get 2 rows of 4 images. If you have 6 images selected, the first row will have 4 images, and the second will only have two. + + +]]> + </help> + <expand macro="citations" /> +</tool> |
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| @@ -0,0 +1,5 @@ + Channel distortion: RMSE + red: 803.127 (0.0122549) + green: 714.973 (0.0109098) + blue: 1099.55 (0.016778) + all: 887.919 (0.0135488) \ No newline at end of file |
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| @@ -0,0 +1,5 @@ + Channel distortion: MAE + red: 505.797 (0.00771797) + green: 467.716 (0.00713689) + blue: 633.576 (0.00966776) + all: 535.696 (0.0081742) \ No newline at end of file |
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| @@ -0,0 +1,5 @@ + Channel distortion: AE + red: 0.0143004 + green: 0.00805041 + blue: 0.0330504 + all: 0.0490741 \ No newline at end of file |
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| @@ -0,0 +1,46 @@ + Channel statistics: + Pixels: 38880 + Red: + min: 0 (0) + max: 255 (1) + mean: 94.5722 (0.370871) + median: 79 (0.309804) + standard deviation: 65.8692 (0.258311) + kurtosis: 0.693803 + skewness: 1.2915 + entropy: 0.900321 + Green: + min: 0 (0) + max: 255 (1) + mean: 77.4938 (0.303897) + median: 62 (0.243137) + standard deviation: 61.4691 (0.241055) + kurtosis: 1.97797 + skewness: 1.70225 + entropy: 0.86655 + Blue: + min: 0 (0) + max: 255 (1) + mean: 55.8372 (0.218969) + median: 36 (0.141176) + standard deviation: 57.6943 (0.226252) + kurtosis: 4.89954 + skewness: 2.39017 + entropy: 0.81653 + Image statistics: + Overall: + min: 0 (0) + max: 255 (1) + mean: 75.9677 (0.297913) + median: 59 (0.231373) + standard deviation: 61.6775 (0.241873) + kurtosis: 2.52377 + skewness: 1.79464 + entropy: 0.861134 + Rendering intent: Perceptual + Gamma: 0.454545 + Chromaticity: + red primary: (0.64,0.33,0.03) + green primary: (0.3,0.6,0.1) + blue primary: (0.15,0.06,0.79) + white point: (0.3127,0.329,0.3583) |
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