Mercurial > repos > astroteam > astropy_fits2bitmap

annotate fits2bitmap.xml @ 3:44dbbc093fd6 draft default tip

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planemo upload for repository https://github.com/esg-epfl-apc/tools-astro/tree/main/tools/astropytools commit 8e0f38a23e84e67d0e199a99ec318d334f928ade
author astroteam
date Fri, 04 Jul 2025 13:18:16 +0000
parents 6b6dc2b5e52d
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44dbbc093fd6 planemo upload for repository https://github.com/esg-epfl-apc/tools-astro/tree/main/tools/astropytools commit 8e0f38a23e84e67d0e199a99ec318d334f928ade
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1 <tool id="astropy_fits2bitmap" name="astropy fits2bitmap" version="0.3.0+galaxy0" profile="24.0">
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2 <requirements>
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3 <requirement type="package" version="6.1.7">astropy</requirement>
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4 <requirement type="package" version="3.10.1">matplotlib</requirement>
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5 </requirements>
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6 <command detect_errors="exit_code"><![CDATA[
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7 #if $reverse_cmap:
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8 #set $cmap = $cmap + "_r"
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9 #else:
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10 #set $cmap = $cmap
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11 #end if
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12 fits2bitmap '$input_fits' --stretch '$stretch' --ext $hdu --cmap $cmap -o out.$out_format && mv out.$out_format out
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13 ]]></command>
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14 <inputs>
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15 <param type="data" name="input_fits" format="fits" label="FITS file containing a sky image"/>
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16 <param type="integer" name="hdu" value="0" min="0" label="Select input HDU number"/>
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17 <param type="select" name="stretch" label="Stretch image scale" help="Type of image scale stretching">
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18 <option value="linear">linear</option>
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19 <option value="sqrt">square root</option>
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20 <option value="power">power law</option>
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21 <option value="log" selected="true">logarithmic</option>
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22 <option value="asinh">asinh</option>
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23 </param>
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24 <param type="select" name="cmap" label="Color map" help="matplotlib color map">
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25 <option value="jet" selected="true">jet</option>
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26 <option value="Accent">Accent</option>
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27 <option value="Blues">Blues</option>
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28 <option value="BrBG">BrBG</option>
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29 <option value="BuGn">BuGn</option>
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30 <option value="BuPu">BuPu</option>
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31 <option value="CMRmap">CMRmap</option>
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32 <option value="Dark2">Dark2</option>
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33 <option value="GnBu">GnBu</option>
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34 <option value="Greens">Greens</option>
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35 <option value="Greys">Greys</option>
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36 <option value="OrRd">OrRd</option>
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37 <option value="Oranges">Oranges</option>
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38 <option value="PRGn">PRGn</option>
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39 <option value="Paired">Paired</option>
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40 <option value="Pastel1">Pastel1</option>
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41 <option value="Pastel2">Pastel2</option>
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42 <option value="PiYG">PiYG</option>
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43 <option value="PuBu">PuBu</option>
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44 <option value="PuBuGn">PuBuGn</option>
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45 <option value="PuOr">PuOr</option>
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46 <option value="PuRd">PuRd</option>
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47 <option value="Purples">Purples</option>
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48 <option value="RdBu">RdBu</option>
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49 <option value="RdGy">RdGy</option>
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50 <option value="RdPu">RdPu</option>
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51 <option value="RdYlBu">RdYlBu</option>
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52 <option value="RdYlGn">RdYlGn</option>
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53 <option value="Reds">Reds</option>
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54 <option value="Set1">Set1</option>
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55 <option value="Set2">Set2</option>
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56 <option value="Set3">Set3</option>
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57 <option value="Spectral">Spectral</option>
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58 <option value="Wistia">Wistia</option>
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59 <option value="YlGn">YlGn</option>
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60 <option value="YlGnBu">YlGnBu</option>
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61 <option value="YlOrBr">YlOrBr</option>
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62 <option value="YlOrRd">YlOrRd</option>
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63 <option value="afmhot">afmhot</option>
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64 <option value="autumn">autumn</option>
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65 <option value="binary">binary</option>
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66 <option value="bone">bone</option>
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67 <option value="brg">brg</option>
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68 <option value="bwr">bwr</option>
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69 <option value="cool">cool</option>
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70 <option value="coolwarm">coolwarm</option>
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71 <option value="copper">copper</option>
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72 <option value="cubehelix">cubehelix</option>
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73 <option value="flag">flag</option>
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74 <option value="gist_earth">gist_earth</option>
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75 <option value="gist_gray">gist_gray</option>
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76 <option value="gist_heat">gist_heat</option>
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77 <option value="gist_ncar">gist_ncar</option>
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78 <option value="gist_rainbow">gist_rainbow</option>
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79 <option value="gist_stern">gist_stern</option>
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80 <option value="gist_yarg">gist_yarg</option>
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81 <option value="gnuplot">gnuplot</option>
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82 <option value="gnuplot2">gnuplot2</option>
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83 <option value="gray">gray</option>
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84 <option value="hot">hot</option>
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85 <option value="hsv">hsv</option>
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86 <option value="nipy_spectral">nipy_spectral</option>
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87 <option value="ocean">ocean</option>
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88 <option value="pink">pink</option>
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89 <option value="prism">prism</option>
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90 <option value="rainbow">rainbow</option>
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91 <option value="seismic">seismic</option>
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92 <option value="spring">spring</option>
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93 <option value="summer">summer</option>
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94 <option value="tab10">tab10</option>
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95 <option value="tab20">tab20</option>
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96 <option value="tab20b">tab20b</option>
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97 <option value="tab20c">tab20c</option>
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98 <option value="terrain">terrain</option>
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99 <option value="winter">winter</option>
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100 </param>
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101 <param type="boolean" name="reverse_cmap" checked="false" label="Reverse color map"/>
3
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102 <param type="select" name="out_format" label="Output format">
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103 <option value="png">PNG</option>
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104 <option value="tiff">TIFF</option>
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105 <option value="jpg">JPEG</option>
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106 </param>
0
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107 </inputs>
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108 <outputs>
3
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109 <data name="output_img" format="png" from_work_dir="out">
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110 <change_format>
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111 <when input="out_format" value="tiff" format="tiff"/>
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112 <when input="out_format" value="jpg" format="jpg"/>
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113 </change_format>
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114 </data>
0
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115 </outputs>
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116 <tests>
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117 <test>
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118 <param name="input_fits" value="legacysurvey_image.fits"/>
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119 <param name="stretch" value="log"/>
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120 <param name="cmap" value="jet"/>
3
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121 <param name="out_format" value="png"/>
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122 <output name="output_img" file="legacysurvey_image.png"/>
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123 </test>
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124 <test>
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125 <param name="input_fits" value="legacysurvey_image.fits"/>
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126 <param name="stretch" value="log"/>
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127 <param name="cmap" value="jet"/>
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128 <param name="out_format" value="tiff"/>
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129 <output name="output_img" file="legacysurvey_image.tiff"/>
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130 </test>
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131 <test>
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132 <param name="input_fits" value="legacysurvey_image.fits"/>
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133 <param name="stretch" value="log"/>
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134 <param name="cmap" value="jet"/>
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135 <param name="out_format" value="jpg"/>
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136 <output name="output_img" file="legacysurvey_image.jpg"/>
0
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137 </test>
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138 </tests>
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139 <help><![CDATA[
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140 Creates a bitmap file from a FITS sky image.
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141 The dynamic range of the FITS image is represented in the output bitmap image by applying "stretch" transformation.
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142 Matplotlib colormaps are used to represent resulting intensity.
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143
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144 ---------
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145
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146 **Example:**
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147
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148 Here is an example of converting SDSS LegacySurvey image of NGC4388:
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149
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150 .. image:: legacysurvey_image.png
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151 :width: 70 %
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152 :alt: legacysurvey_image.png
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153
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154
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155 Note that you can also visualize FITS files directly in galaxy with interactive interface based on AladinLite.
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156
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157 This tool represents a script which is part of the Astropy package. See
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158 `astropy help <https://docs.astropy.org/en/latest/visualization/index.html#scripts>`_
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159 for further documentation.
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160 ]]></help>
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161 <citations>
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162 <citation type="doi">
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163 10.3847/1538-4357/ac7c74
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164 </citation>
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165 </citations>
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166 </tool>