annotate deepTools_macros.xml @ 27:bf1b1dcdd67b draft

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author bgruening
date Mon, 17 Mar 2014 16:23:58 -0400
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26
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1 <macros>
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2 <xml name="bamCorrelate_mode_actions">
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3
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4 <expand macro="region_limit_operation" />
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5
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6 <conditional name="advancedOpt">
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7 <param name="showAdvancedOpt" type="select" label="Show advanced options" >
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8 <option value="no" selected="true">no</option>
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9 <option value="yes">yes</option>
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10 </param>
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11 <when value="no" />
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12 <when value="yes">
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13 <param name="doNotExtendPairedEnds" type="boolean" truevalue="--doNotExtendPairedEnds" falsevalue=""
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14 label="Do not extend paired ends"
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15 help="If set, reads are not extended to match the fragment length reported in the BAM file, instead they will be extended to match the fragment length. Default is to extend the reads if paired end information is available."/>
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16
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17 <param name="ignoreDuplicates" type="boolean" truevalue="--ignoreDuplicates" falsevalue=""
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18 label="Ignore duplicates"
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19 help="If set, reads that have the same orientation and start position will be considered only once. If reads are paired, the mate position also has to coincide to ignore a read." />
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20
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21 <param name="minMappingQuality" type="integer" optional="true" value="1" min="1"
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22 label="Minimum mapping quality"
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23 help= "If set, only reads that have a mapping quality score higher than the given value are considered. *Note* Bowtie's Mapping quality is related to uniqueness: the higher the score, the more unique is a read. A mapping quality defined by Bowtie of 10 or less indicates that there is at least a 1 in 10 chance that the read truly originated elsewhere."/>
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24
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25 <param name="includeZeros" type="boolean" truevalue="--includeZeros" falsevalue=""
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26 label ="Include zeros"
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27 help ="If set, then regions with zero counts for *all* BAM files given are included. The default behavior is to ignore those cases." />
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28
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29 <param name="zMin" type="integer" value="" optional="true" label="Minimum value for the heatmap intensities"
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30 help="If not specified the value is set automatically."/>
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31
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32 <param name="zMax" type="integer" value="" optional="true" label="Maximum value for the heatmap intensities"
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33 help="If not specified the value is set automatically."/>
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34
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35 <expand macro="colormap" />
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36 </when>
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37 </conditional>
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38 </xml>
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39
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40 <xml name="region_limit_operation">
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41 <param name="region" type="text" value=""
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42 label="Region of the genome to limit the operation to"
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43 help="This is useful when testing parameters to reduce the computing time. The format is chr:start:end, for example &quot;chr10&quot; or &quot;chr10:456700:891000&quot;" />
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44 </xml>
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45
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46 <token name="@THREADS@">--numberOfProcessors "\${GALAXY_SLOTS:-4}"</token>
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47 <xml name="requirements">
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48 <requirements>
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49 <requirement type="binary">@BINARY@</requirement>
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50 <requirement type="package" >samtools</requirement>
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51 <requirement type="package" >deepTools</requirement>
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52 <requirement type="package" >ucsc_tools</requirement>
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53 <requirement type="package" version="1.5.4_43d3b51b3c3ab71dc07f31fefe6b3492226cc217">deepTools</requirement>
26
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54 <requirement type="package" version="0.1">ucsc_tools</requirement>
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55 <requirement type="package" version="1.7.1">numpy</requirement>
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56 <requirement type="package" version="0.7.7">pysam</requirement>
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57 <requirement type="package" version="0.12.0">scipy</requirement>
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58 <requirement type="package" version="1.2.1">matplotlib</requirement>
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59 <requirement type="package" version="0.1.19">samtools</requirement>
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60 <requirement type="package" version="12-2013">bx-python</requirement>
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61 <yield />
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62 </requirements>
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63 <version_command>@BINARY@ --version</version_command>
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64 </xml>
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65
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66 <xml name="kmeans_clustering">
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67
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68 <conditional name="used_multiple_regions">
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69 <param name="used_multiple_regions_options" type="select"
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70 label="Did you use multiple regions in computeMatrix?"
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71 help="Would you like to cluster the regions according to the similarity of the signal distribution? This is only possible if you used computeMatrix on only one group of regions.">
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72 <option value="yes">Yes, I used multiple regions.</option>
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73 <option value="no">No, I used only one region.</option>
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74 </param>
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75 <when value="no">
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76 <conditional name="clustering">
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77 <param name="clustering_options" type="select" label="Clustering algorithm">
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78 <option value="none">No clustering</option>
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79 <option value="kmeans">Kmeans clustering</option>
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80 </param>
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81 <when value="kmeans">
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82 <param name="k_kmeans" type="integer" value="0" label="Number of clusters to compute"
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83 help="When this option is set, then the matrix is split into clusters using the kmeans algorithm. Only works for data that is not grouped, otherwise only the first group will be clustered. If more specific clustering methods are required it is advisable to save the underlying matrix and run the clustering using other software. The plotting of the clustering may fail (Error: Segmentation fault) if a cluster has very few members compared to the total number or regions. (default: None)."/>
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84 </when>
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85 <when value="none" />
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86 </conditional>
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87 </when>
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88 <when value="yes" />
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89 </conditional>
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90
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91 </xml>
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92 <token name="@kmeans_clusterin@">
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93 #if $advancedOpt.used_multiple_regions.used_multiple_regions_options == 'no':
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94 #if $advancedOpt.used_multiple_regions.clustering.clustering_options == 'kmeans':
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95 #if int($advancedOpt.used_multiple_regions.clustering.k_kmeans) > 0:
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96 --kmeans $advancedOpt.used_multiple_regions.clustering.k_kmeans
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97 #end if
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98 #end if
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99 #end if
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100 </token>
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101
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102 <xml name="stdio">
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103 <stdio>
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104 <exit_code range="1:" />
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105 <exit_code range=":-1" />
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106 <regex match="Error:" />
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107 <regex match="Exception:" />
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108 <regex match="EXception:" />
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109 <regex match="Traceback" />
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110 </stdio>
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111 </xml>
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112 <token name="@REFERENCES@">
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113
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114 .. class:: infomark
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115
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116 For more information on the tools, please visit our `help site`_.
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117
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118 If you would like to give us feedback or you run into any trouble, please send an email to deeptools@googlegroups.com
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119
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120 This tool is developed by the `Bioinformatics and Deep-Sequencing Unit`_ at the `Max Planck Institute for Immunobiology and Epigenetics`_.
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121
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122
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123 .. _Bioinformatics and Deep-Sequencing Unit: http://www3.ie-freiburg.mpg.de/facilities/research-facilities/bioinformatics-and-deep-sequencing-unit/
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124 .. _Max Planck Institute for Immunobiology and Epigenetics: http://www3.ie-freiburg.mpg.de
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125 .. _help site: https://github.com/fidelram/deepTools/wiki/
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126
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127 </token>
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128
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129 <xml name="multiple_input_bams">
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130 <repeat name="input_files" title="BAM files" min="2">
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131 <param name="bamfile" type="data" format="bam"
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132 label="Bam file"
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133 help="The BAM file must be sorted."/>
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134 <param name="label" type="text" size="30" optional="true" value=""
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135 label="Label"
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136 help="Label to use in the output. If not given the dataset name will be used instead."/>
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137 </repeat>
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138 </xml>
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139
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140 <token name="@multiple_input_bams@">
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141 #import tempfile
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142 #set $temp_dir = os.path.abspath(tempfile.mkdtemp())
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143 #set files=[]
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144 #set labels=[]
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145 #for $i in $input_files:
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146 #set $temp_input_handle = tempfile.NamedTemporaryFile( dir=$temp_dir )
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147 #set $temp_input_path = $temp_input_handle.name
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148 #silent $temp_input_handle.close()
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149 #silent os.system("ln -s %s %s.bam" % (str($i.bamfile), $temp_input_path))
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150 #silent os.system("ln -s %s %s.bam.bai" % (str($i.bamfile.metadata.bam_index), $temp_input_path))
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151 #silent $files.append('%s.bam' % $temp_input_path)
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152
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153 ##set $files += [str($i.bamfile)]
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154 #if str($i.label.value) != "":
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155 #set $labels += ["\"%s\"" % ($i.label.value)]
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156 #else
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157 #set $labels += ["\"%s\"" % ($i.bamfile.name)]
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158 #end if
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159 #end for
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160 </token>
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161
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162 <xml name="reference_genome_source">
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163 <conditional name="source">
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164 <param name="ref_source" type="select" label="Reference genome">
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165 <option value="cached">locally cached</option>
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166 <option value="history">in your history</option>
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167 </param>
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168 <when value="cached">
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169 <param name="input1_2bit" type="select" label="Using reference genome" help="If your genome of interest is not listed, contact the Galaxy team">
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170 <options from_data_table="deepTools_seqs">
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171 <filter type="sort_by" column="1" />
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172 <validator type="no_options" message="No indexes are available." />
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173 </options>
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174 </param>
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175 </when>
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176 <when value="history">
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177 <param name="input1" type="data" format="twobit" label="Select a reference dataset in 2bit format" />
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178 </when>
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179 </conditional>
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180 </xml>
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181
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182 <token name="@reference_genome_source@">
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183 #if $source.ref_source=="history":
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184 --genome $source.input1
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185 #else:
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186 --genome "${source.input1_2bit.fields.path}"
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187 #end if
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188 </token>
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189
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190 <xml name="effectiveGenomeSize">
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191 <conditional name="effectiveGenomeSize">
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192 <param name="effectiveGenomeSize_opt" type="select" label="Effective genome size"
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193 help="The effective genome size is the portion of the genome that is mappable. Large fractions of the genome are stretches of NNNN that should be discarded.
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194 Also, if repetitive regions were not included in the mapping of reads, the effective genome size needs to be adjusted accordingly.
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195 See Table 2 of http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0030377 or http://www.nature.com/nbt/journal/v27/n1/fig_tab/nbt.1518_T1.html for several effective genome sizes.">
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196 <option value="93260000">ce10 (93260000)</option>
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parents:
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197 <option value="121400000">dm3 (121400000)</option>
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parents:
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198 <option value="2451960000" selected="true">hg19 (2451960000)</option>
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parents:
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199 <option value="2150570000">mm9 (2150570000)</option>
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parents:
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200 <option value="specific">user specified</option>
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parents:
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201 </param>
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parents:
diff changeset
202 <when value="specific">
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parents:
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203 <param name="effectiveGenomeSize" type="integer" value="" label="Effective genome size" help="e.g. ce10: 93260000, dm3: 121400000, hg19: 2451960000, mm9: 2150570000"/>
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parents:
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204 </when>
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parents:
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205 <when value="2150570000" />
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parents:
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206 <when value="2451960000" />
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parents:
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207 <when value="121400000" />
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parents:
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208 <when value="93260000" />
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parents:
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209 </conditional>
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parents:
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210 </xml>
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parents:
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211
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parents:
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212 <xml name="image_file_format">
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parents:
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213 <param name="outFileFormat" type="select" label="Image file format">
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parents:
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214 <option value="png" selected="true">png</option>
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parents:
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215 <option value="pdf">pdf</option>
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parents:
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216 <option value="svg">svg</option>
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parents:
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217 <option value="eps">eps</option>
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parents:
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218 <option value="emf">emf</option>
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parents:
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219 </param>
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parents:
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220 </xml>
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parents:
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221
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parents:
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222 <xml name="input_save_matrix_values">
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parents:
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223 <param name="saveMatrix" type="boolean" label="Save the matrix of values underlying the heatmap"/>
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parents:
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224 </xml>
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parents:
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225
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parents:
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226 <xml name="input_graphic_output_settings">
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parents:
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227 <conditional name="output" >
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parents:
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228 <param name="showOutputSettings" type="select" label="Show advanced output settings" >
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parents:
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229 <option value="no" selected="true">no</option>
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parents:
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230 <option value="yes">yes</option>
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parents:
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231 </param>
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parents:
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232 <when value="no" />
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parents:
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233 <when value="yes">
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parents:
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234 <yield />
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parents:
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235 <param name="saveData" type="boolean" label="Save the data underlying the average profile"/>
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parents:
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236 <param name="saveSortedRegions" type="boolean" label="Save the regions after skipping zeros or min/max threshold values" help="The order of the regions in the file follows the sorting order selected. This is useful, for example, to generate other heatmaps keeping the sorting of the first heatmap."/>
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parents:
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237 </when>
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parents:
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238 </conditional>
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parents:
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239 </xml>
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parents:
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240
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parents:
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241 <xml name="input_image_file_format">
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parents:
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242 <param name="outFileFormat" type="select" label="Image file format">
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parents:
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243 <option value="png" selected="true">png</option>
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parents:
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244 <option value="pdf">pdf</option>
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parents:
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245 <option value="svg">svg</option>
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parents:
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246 <option value="eps">eps</option>
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parents:
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247 <option value="emf">emf</option>
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parents:
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248 </param>
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parents:
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249 </xml>
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parents:
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250
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parents:
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251 <xml name="output_image_file_format">
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parents:
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252 <data format="png" name="outFileName" label="${tool.name} image">
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parents:
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253 <change_format>
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parents:
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254 <when input="output.outFileFormat" value="pdf" format="pdf" />
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parents:
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255 <when input="output.outFileFormat" value="svg" format="svg" />
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parents:
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256 <when input="output.outFileFormat" value="eps" format="eps" />
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parents:
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257 <when input="output.outFileFormat" value="emf" format="emf" />
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parents:
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258 </change_format>
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parents:
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259 </data>
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parents:
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260 </xml>
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parents:
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261
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parents:
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262 <xml name="output_save_matrix_values">
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parents:
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263 <data format="tabular" name="outFileNameMatrix" label="${tool.name} on ${on_string}: Heatmap values">
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parents:
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264 <filter>
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parents:
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265 ((
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parents:
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266 output['showOutputSettings'] == 'yes' and
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parents:
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267 output['saveMatrix'] is True
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parents:
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268 ))
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parents:
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269 </filter>
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parents:
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270 </data>
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parents:
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271 </xml>
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parents:
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272
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parents:
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273 <xml name="output_graphic_outputs">
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parents:
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274 <data format="tabular" name="outFileNameData" label="${tool.name} on ${on_string}: averages per matrix column">
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parents:
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275 <filter>
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parents:
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276 ((
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parents:
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277 output['showOutputSettings'] == 'yes' and
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parents:
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278 output['saveData'] is True
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parents:
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279 ))
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parents:
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280 </filter>
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parents:
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281 </data>
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parents:
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282 <data format="bed" name="outFileSortedRegions" label="${tool.name} on ${on_string}: sorted/filtered regions">
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parents:
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283 <filter>
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parents:
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284 ((
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parents:
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285 output['showOutputSettings'] == 'yes' and
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parents:
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286 output['saveSortedRegions'] is True
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parents:
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287 ))
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parents:
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288 </filter>
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parents:
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289 </data>
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parents:
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290 </xml>
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parents:
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291
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parents:
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292 <xml name="colormap">
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parents:
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293 <param name="colorMap" type="select" label="Color map to use for the heatmap" help=" Available color map names can be found here: http://www.astro.lsa.umich.edu/~msshin/science/code/matplotlib_cm/">
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parents:
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294 <option value="RdYlBu" selected="true">RdYlBu</option>
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parents:
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295 <option value="Accent">Accent</option>
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parents:
diff changeset
296 <option value="Spectral">Spectral</option>
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parents:
diff changeset
297 <option value="Set1">Set1</option>
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parents:
diff changeset
298 <option value="Set2">Set2</option>
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parents:
diff changeset
299 <option value="Set3">Set3</option>
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parents:
diff changeset
300 <option value="Dark2">Dark2</option>
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parents:
diff changeset
301 <option value="Reds">Reds</option>
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parents:
diff changeset
302 <option value="Oranges">Oranges</option>
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parents:
diff changeset
303 <option value="Greens">Greens</option>
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parents:
diff changeset
304 <option value="Blues">Blues</option>
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parents:
diff changeset
305 <option value="Greys">Greys</option>
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parents:
diff changeset
306 <option value="Purples">Purples</option>
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parents:
diff changeset
307 <option value="Paired">Paired</option>
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parents:
diff changeset
308 <option value="Pastel1">Pastel1</option>
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parents:
diff changeset
309 <option value="Pastel2">Pastel2</option>
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parents:
diff changeset
310 <option value="spring">spring</option>
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parents:
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311 <option value="summer">summer</option>
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parents:
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312 <option value="autumn">autumn</option>
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parents:
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313 <option value="winter">winter</option>
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parents:
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314 <option value="hot">hot</option>
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parents:
diff changeset
315 <option value="coolwarm">coolwarm</option>
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parents:
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316 <option value="cool">cool</option>
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parents:
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317 <option value="seismic">seismic</option>
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parents:
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318 <option value="terrain">terrain</option>
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parents:
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319 <option value="ocean">ocean</option>
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parents:
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320 <option value="rainbow">rainbow</option>
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parents:
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321 <option value="bone">bone</option>
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parents:
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322 <option value="flag">flag</option>
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parents:
diff changeset
323 <option value="prism">prism</option>
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parents:
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324 <option value="cubehelix">cubehelix</option>
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parents:
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325 <option value="binary">binary</option>
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parents:
diff changeset
326 <option value="pink">pink</option>
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parents:
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327 <option value="gray">gray</option>
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parents:
diff changeset
328 <option value="copper">copper</option>
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parents:
diff changeset
329 <option value="BrBG">BrBG</option>
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parents:
diff changeset
330 <option value="BuGn">BuGn</option>
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parents:
diff changeset
331 <option value="BuPu">BuPu</option>
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parents:
diff changeset
332 <option value="GnBu">GnBu</option>
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parents:
diff changeset
333 <option value="OrRd">OrRd</option>
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parents:
diff changeset
334 <option value="PiYG">PiYG</option>
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parents:
diff changeset
335 <option value="PRGn">PRGn</option>
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parents:
diff changeset
336 <option value="PuOr">PuOr</option>
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parents:
diff changeset
337 <option value="PuRd">PuRd</option>
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parents:
diff changeset
338 <option value="PuBu">PuBu</option>
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parents:
diff changeset
339 <option value="RdBu">RdBu</option>
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parents:
diff changeset
340 <option value="RdGy">RdGy</option>
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parents:
diff changeset
341 <option value="RdPu">RdPu</option>
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parents:
diff changeset
342 <option value="YlGn">YlGn</option>
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parents:
diff changeset
343 <option value="PuBuGn">PuBuGn</option>
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parents:
diff changeset
344 <option value="RdYlGn">RdYlGn</option>
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parents:
diff changeset
345 <option value="YlGnBu">YlGnBu</option>
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parents:
diff changeset
346 <option value="YlOrBr">YlOrBr</option>
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parents:
diff changeset
347 <option value="YlOrRd">YlOrRd</option>
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parents:
diff changeset
348 <option value="gist_gray">gist_gray</option>
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parents:
diff changeset
349 <option value="gist_stern">gist_stern</option>
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parents:
diff changeset
350 <option value="gist_earth">gist_earth</option>
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parents:
diff changeset
351 <option value="gist_yarg">gist_yarg</option>
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parents:
diff changeset
352 <option value="gist_ncar">gist_ncar</option>
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parents:
diff changeset
353 <option value="gist_rainbow">gist_rainbow</option>
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parents:
diff changeset
354 <option value="gist_heat">gist_heat</option>
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parents:
diff changeset
355 <option value="gnuplot">gnuplot</option>
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parents:
diff changeset
356 <option value="gnuplot2">gnuplot2</option>
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parents:
diff changeset
357 <option value="CMRmap">CMRmap</option>
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parents:
diff changeset
358 <option value="bwr">bwr</option>
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parents:
diff changeset
359 <option value="hsv">hsv</option>
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parents:
diff changeset
360 <option value="brg">brg</option>
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parents:
diff changeset
361 <option value="jet">jet</option>
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parents:
diff changeset
362 <option value="afmhot">afmhot</option>
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parents:
diff changeset
363 <option value="Accent_r">Accent reversed</option>
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parents:
diff changeset
364 <option value="Spectral_r">Spectral reversed</option>
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parents:
diff changeset
365 <option value="Set1_r">Set1 reversed</option>
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parents:
diff changeset
366 <option value="Set2_r">Set2 reversed</option>
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parents:
diff changeset
367 <option value="Set3_r">Set3 reversed</option>
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parents:
diff changeset
368 <option value="Dark2_r">Dark2 reversed</option>
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parents:
diff changeset
369 <option value="Reds_r">Reds reversed</option>
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parents:
diff changeset
370 <option value="Oranges_r">Oranges reversed</option>
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parents:
diff changeset
371 <option value="Greens_r">Greens reversed</option>
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parents:
diff changeset
372 <option value="Blues_r">Blues reversed</option>
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parents:
diff changeset
373 <option value="Greys_r">Greys reversed</option>
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parents:
diff changeset
374 <option value="Purples_r">Purples reversed</option>
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parents:
diff changeset
375 <option value="Paired_r">Paired reversed</option>
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parents:
diff changeset
376 <option value="Pastel1_r">Pastel1 reversed</option>
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bgruening
parents:
diff changeset
377 <option value="Pastel2_r">Pastel2 reversed</option>
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bgruening
parents:
diff changeset
378 <option value="spring_r">spring reversed</option>
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bgruening
parents:
diff changeset
379 <option value="summer_r">summer reversed</option>
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parents:
diff changeset
380 <option value="autumn_r">autumn reversed</option>
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parents:
diff changeset
381 <option value="winter_r">winter reversed</option>
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parents:
diff changeset
382 <option value="hot_r">hot reversed</option>
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parents:
diff changeset
383 <option value="coolwarm_r">coolwarm reversed</option>
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bgruening
parents:
diff changeset
384 <option value="cool_r">cool reversed</option>
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bgruening
parents:
diff changeset
385 <option value="seismic_r">seismic reversed</option>
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parents:
diff changeset
386 <option value="terrain_r">terrain reversed</option>
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parents:
diff changeset
387 <option value="ocean_r">ocean reversed</option>
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bgruening
parents:
diff changeset
388 <option value="rainbow_r">rainbow reversed</option>
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bgruening
parents:
diff changeset
389 <option value="bone_r">bone reversed</option>
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bgruening
parents:
diff changeset
390 <option value="flag_r">flag reversed</option>
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bgruening
parents:
diff changeset
391 <option value="prism_r">prism reversed</option>
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parents:
diff changeset
392 <option value="cubehelix_r">cubehelix reversed</option>
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bgruening
parents:
diff changeset
393 <option value="binary_r">binary reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
394 <option value="pink_r">pink reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
395 <option value="gray_r">gray reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
396 <option value="copper_r">copper reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
397 <option value="BrBG_r">BrBG reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
398 <option value="BuGn_r">BuGn reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
399 <option value="BuPu_r">BuPu reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
400 <option value="GnBu_r">GnBu reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
401 <option value="OrRd_r">OrRd reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
402 <option value="PiYG_r">PiYG reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
403 <option value="PRGn_r">PRGn reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
404 <option value="PuOr_r">PuOr reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
405 <option value="PuRd_r">PuRd reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
406 <option value="PuBu_r">PuBu reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
407 <option value="RdBu_r">RdBu reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
408 <option value="RdGy_r">RdGy reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
409 <option value="RdPu_r">RdPu reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
410 <option value="YlGn_r">YlGn reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
411 <option value="PuBuGn_r">PuBuGn reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
412 <option value="RdYlBu_r">RdYlBu reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
413 <option value="RdYlGn_r">RdYlGn reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
414 <option value="YlGnBu_r">YlGnBu reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
415 <option value="YlOrBr_r">YlOrBr reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
416 <option value="YlOrRd_r">YlOrRd reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
417 <option value="gist_gray_r">gist_gray reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
418 <option value="gist_stern_r">gist_stern reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
419 <option value="gist_earth_r">gist_earth reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
420 <option value="gist_yarg_r">gist_yarg reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
421 <option value="gist_ncar_r">gist_ncar reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
422 <option value="gist_rainbow_r">gist_rainbow reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
423 <option value="gist_heat_r">gist_heat reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
424 <option value="gnuplot_r">gnuplot reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
425 <option value="gnuplot2_r">gnuplot2 reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
426 <option value="CMRmap_r">CMRmap reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
427 <option value="bwr_r">bwr reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
428 <option value="hsv_r">hsv reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
429 <option value="brg_r">brg reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
430 <option value="jet_r">jet reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
431 <option value="afmhot_r">afmhot reversed</option>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
432 </param>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
433
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
434 </xml>
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
435
2ad3b027dfcd Uploaded
bgruening
parents:
diff changeset
436 </macros>