Mercurial > repos > galaxyp > openms_svmtheoreticalspectrumgeneratortrainer
comparison SvmTheoreticalSpectrumGeneratorTrainer.xml @ 0:a92f7bc73817 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit fb85d488133bb2b5f483b52b2db0ac66038fafb8
| author | galaxyp |
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| date | Wed, 01 Mar 2017 12:36:05 -0500 |
| parents | |
| children | be688ba2bc09 |
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| -1:000000000000 | 0:a92f7bc73817 |
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| 1 <?xml version='1.0' encoding='UTF-8'?> | |
| 2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.--> | |
| 3 <!--Proposed Tool Section: [Utilities]--> | |
| 4 <tool id="SvmTheoreticalSpectrumGeneratorTrainer" name="SvmTheoreticalSpectrumGeneratorTrainer" version="2.1.0"> | |
| 5 <description>Trainer for SVM models as input for SvmTheoreticalSpectrumGenerator</description> | |
| 6 <macros> | |
| 7 <token name="@EXECUTABLE@">SvmTheoreticalSpectrumGeneratorTrainer</token> | |
| 8 <import>macros.xml</import> | |
| 9 </macros> | |
| 10 <expand macro="references"/> | |
| 11 <expand macro="stdio"/> | |
| 12 <expand macro="requirements"/> | |
| 13 <command>SvmTheoreticalSpectrumGeneratorTrainer | |
| 14 | |
| 15 #if $param_in_spectra: | |
| 16 -in_spectra $param_in_spectra | |
| 17 #end if | |
| 18 #if $param_in_identifications: | |
| 19 -in_identifications $param_in_identifications | |
| 20 #end if | |
| 21 #if $param_model_output_file: | |
| 22 -model_output_file $param_model_output_file | |
| 23 #end if | |
| 24 #if $param_precursor_charge: | |
| 25 -precursor_charge $param_precursor_charge | |
| 26 #end if | |
| 27 #if $param_write_training_files: | |
| 28 -write_training_files | |
| 29 #end if | |
| 30 #if $param_algorithm_number_intensity_levels: | |
| 31 -algorithm:number_intensity_levels $param_algorithm_number_intensity_levels | |
| 32 #end if | |
| 33 #if $param_algorithm_number_regions: | |
| 34 -algorithm:number_regions $param_algorithm_number_regions | |
| 35 #end if | |
| 36 #if $param_algorithm_parent_tolerance: | |
| 37 -algorithm:parent_tolerance $param_algorithm_parent_tolerance | |
| 38 #end if | |
| 39 #if $param_algorithm_peak_tolerance: | |
| 40 -algorithm:peak_tolerance $param_algorithm_peak_tolerance | |
| 41 #end if | |
| 42 #if $param_algorithm_add_b_ions: | |
| 43 -algorithm:add_b_ions $param_algorithm_add_b_ions | |
| 44 #end if | |
| 45 #if $param_algorithm_add_y_ions: | |
| 46 -algorithm:add_y_ions $param_algorithm_add_y_ions | |
| 47 #end if | |
| 48 #if $param_algorithm_add_a_ions: | |
| 49 -algorithm:add_a_ions | |
| 50 #end if | |
| 51 #if $param_algorithm_add_c_ions: | |
| 52 -algorithm:add_c_ions | |
| 53 #end if | |
| 54 #if $param_algorithm_add_x_ions: | |
| 55 -algorithm:add_x_ions | |
| 56 #end if | |
| 57 #if $param_algorithm_add_z_ions: | |
| 58 -algorithm:add_z_ions | |
| 59 #end if | |
| 60 #if $param_algorithm_add_losses: | |
| 61 -algorithm:add_losses | |
| 62 #end if | |
| 63 #if $param_algorithm_add_b2_ions: | |
| 64 -algorithm:add_b2_ions | |
| 65 #end if | |
| 66 #if $param_algorithm_add_y2_ions: | |
| 67 -algorithm:add_y2_ions | |
| 68 #end if | |
| 69 #if $param_algorithm_svm_svc_type: | |
| 70 -algorithm:svm:svc_type $param_algorithm_svm_svc_type | |
| 71 #end if | |
| 72 #if $param_algorithm_svm_svr_type: | |
| 73 -algorithm:svm:svr_type $param_algorithm_svm_svr_type | |
| 74 #end if | |
| 75 #if $param_algorithm_svm_scaling: | |
| 76 -algorithm:svm:scaling $param_algorithm_svm_scaling | |
| 77 #end if | |
| 78 #if $param_algorithm_svm_scaling_lower: | |
| 79 -algorithm:svm:scaling_lower $param_algorithm_svm_scaling_lower | |
| 80 #end if | |
| 81 #if $param_algorithm_svm_scaling_upper: | |
| 82 -algorithm:svm:scaling_upper $param_algorithm_svm_scaling_upper | |
| 83 #end if | |
| 84 #if $param_algorithm_svm_n_fold: | |
| 85 -algorithm:svm:n_fold $param_algorithm_svm_n_fold | |
| 86 #end if | |
| 87 #if $param_algorithm_svm_grid: | |
| 88 -algorithm:svm:grid | |
| 89 #end if | |
| 90 #if $param_algorithm_svm_additive_cv: | |
| 91 -algorithm:svm:additive_cv | |
| 92 #end if | |
| 93 #if $param_algorithm_svm_svc_kernel_type: | |
| 94 -algorithm:svm:svc:kernel_type $param_algorithm_svm_svc_kernel_type | |
| 95 #end if | |
| 96 #if $param_algorithm_svm_svc_degree: | |
| 97 -algorithm:svm:svc:degree $param_algorithm_svm_svc_degree | |
| 98 #end if | |
| 99 #if $param_algorithm_svm_svc_gamma: | |
| 100 -algorithm:svm:svc:gamma $param_algorithm_svm_svc_gamma | |
| 101 #end if | |
| 102 #if $param_algorithm_svm_svc_C: | |
| 103 -algorithm:svm:svc:C $param_algorithm_svm_svc_C | |
| 104 #end if | |
| 105 #if $param_algorithm_svm_svc_nu: | |
| 106 -algorithm:svm:svc:nu $param_algorithm_svm_svc_nu | |
| 107 #end if | |
| 108 #if $param_algorithm_svm_svc_balancing: | |
| 109 -algorithm:svm:svc:balancing $param_algorithm_svm_svc_balancing | |
| 110 #end if | |
| 111 #if $param_algorithm_svm_svc_degree_start: | |
| 112 -algorithm:svm:svc:degree_start $param_algorithm_svm_svc_degree_start | |
| 113 #end if | |
| 114 #if $param_algorithm_svm_svc_degree_step_size: | |
| 115 -algorithm:svm:svc:degree_step_size $param_algorithm_svm_svc_degree_step_size | |
| 116 #end if | |
| 117 #if $param_algorithm_svm_svc_degree_stop: | |
| 118 -algorithm:svm:svc:degree_stop $param_algorithm_svm_svc_degree_stop | |
| 119 #end if | |
| 120 #if $param_algorithm_svm_svc_gamma_start: | |
| 121 -algorithm:svm:svc:gamma_start $param_algorithm_svm_svc_gamma_start | |
| 122 #end if | |
| 123 #if $param_algorithm_svm_svc_gamma_step_size: | |
| 124 -algorithm:svm:svc:gamma_step_size $param_algorithm_svm_svc_gamma_step_size | |
| 125 #end if | |
| 126 #if $param_algorithm_svm_svc_gamma_stop: | |
| 127 -algorithm:svm:svc:gamma_stop $param_algorithm_svm_svc_gamma_stop | |
| 128 #end if | |
| 129 #if $param_algorithm_svm_svc_c_start: | |
| 130 -algorithm:svm:svc:c_start $param_algorithm_svm_svc_c_start | |
| 131 #end if | |
| 132 #if $param_algorithm_svm_svc_c_step_size: | |
| 133 -algorithm:svm:svc:c_step_size $param_algorithm_svm_svc_c_step_size | |
| 134 #end if | |
| 135 #if $param_algorithm_svm_svc_c_stop: | |
| 136 -algorithm:svm:svc:c_stop $param_algorithm_svm_svc_c_stop | |
| 137 #end if | |
| 138 #if $param_algorithm_svm_svc_nu_start: | |
| 139 -algorithm:svm:svc:nu_start $param_algorithm_svm_svc_nu_start | |
| 140 #end if | |
| 141 #if $param_algorithm_svm_svc_nu_step_size: | |
| 142 -algorithm:svm:svc:nu_step_size $param_algorithm_svm_svc_nu_step_size | |
| 143 #end if | |
| 144 #if $param_algorithm_svm_svc_nu_stop: | |
| 145 -algorithm:svm:svc:nu_stop $param_algorithm_svm_svc_nu_stop | |
| 146 #end if | |
| 147 #if $param_algorithm_svm_svr_kernel_type: | |
| 148 -algorithm:svm:svr:kernel_type $param_algorithm_svm_svr_kernel_type | |
| 149 #end if | |
| 150 #if $param_algorithm_svm_svr_degree: | |
| 151 -algorithm:svm:svr:degree $param_algorithm_svm_svr_degree | |
| 152 #end if | |
| 153 #if $param_algorithm_svm_svr_gamma: | |
| 154 -algorithm:svm:svr:gamma $param_algorithm_svm_svr_gamma | |
| 155 #end if | |
| 156 #if $param_algorithm_svm_svr_C: | |
| 157 -algorithm:svm:svr:C $param_algorithm_svm_svr_C | |
| 158 #end if | |
| 159 #if $param_algorithm_svm_svr_p: | |
| 160 -algorithm:svm:svr:p $param_algorithm_svm_svr_p | |
| 161 #end if | |
| 162 #if $param_algorithm_svm_svr_nu: | |
| 163 -algorithm:svm:svr:nu $param_algorithm_svm_svr_nu | |
| 164 #end if | |
| 165 #if $param_algorithm_svm_svr_degree_start: | |
| 166 -algorithm:svm:svr:degree_start $param_algorithm_svm_svr_degree_start | |
| 167 #end if | |
| 168 #if $param_algorithm_svm_svr_degree_step_size: | |
| 169 -algorithm:svm:svr:degree_step_size $param_algorithm_svm_svr_degree_step_size | |
| 170 #end if | |
| 171 #if $param_algorithm_svm_svr_degree_stop: | |
| 172 -algorithm:svm:svr:degree_stop $param_algorithm_svm_svr_degree_stop | |
| 173 #end if | |
| 174 #if $param_algorithm_svm_svr_gamma_start: | |
| 175 -algorithm:svm:svr:gamma_start $param_algorithm_svm_svr_gamma_start | |
| 176 #end if | |
| 177 #if $param_algorithm_svm_svr_gamma_step_size: | |
| 178 -algorithm:svm:svr:gamma_step_size $param_algorithm_svm_svr_gamma_step_size | |
| 179 #end if | |
| 180 #if $param_algorithm_svm_svr_gamma_stop: | |
| 181 -algorithm:svm:svr:gamma_stop $param_algorithm_svm_svr_gamma_stop | |
| 182 #end if | |
| 183 #if $param_algorithm_svm_svr_p_start: | |
| 184 -algorithm:svm:svr:p_start $param_algorithm_svm_svr_p_start | |
| 185 #end if | |
| 186 #if $param_algorithm_svm_svr_p_step_size: | |
| 187 -algorithm:svm:svr:p_step_size $param_algorithm_svm_svr_p_step_size | |
| 188 #end if | |
| 189 #if $param_algorithm_svm_svr_p_stop: | |
| 190 -algorithm:svm:svr:p_stop $param_algorithm_svm_svr_p_stop | |
| 191 #end if | |
| 192 #if $param_algorithm_svm_svr_c_start: | |
| 193 -algorithm:svm:svr:c_start $param_algorithm_svm_svr_c_start | |
| 194 #end if | |
| 195 #if $param_algorithm_svm_svr_c_step_size: | |
| 196 -algorithm:svm:svr:c_step_size $param_algorithm_svm_svr_c_step_size | |
| 197 #end if | |
| 198 #if $param_algorithm_svm_svr_c_stop: | |
| 199 -algorithm:svm:svr:c_stop $param_algorithm_svm_svr_c_stop | |
| 200 #end if | |
| 201 #if $param_algorithm_svm_svr_nu_start: | |
| 202 -algorithm:svm:svr:nu_start $param_algorithm_svm_svr_nu_start | |
| 203 #end if | |
| 204 #if $param_algorithm_svm_svr_nu_step_size: | |
| 205 -algorithm:svm:svr:nu_step_size $param_algorithm_svm_svr_nu_step_size | |
| 206 #end if | |
| 207 #if $param_algorithm_svm_svr_nu_stop: | |
| 208 -algorithm:svm:svr:nu_stop $param_algorithm_svm_svr_nu_stop | |
| 209 #end if | |
| 210 #if $adv_opts.adv_opts_selector=='advanced': | |
| 211 #if $adv_opts.param_force: | |
| 212 -force | |
| 213 #end if | |
| 214 #end if | |
| 215 </command> | |
| 216 <inputs> | |
| 217 <param name="param_in_spectra" type="data" format="mzml" optional="False" label="Input Training Spectra in mzML" help="(-in_spectra) "/> | |
| 218 <param name="param_in_identifications" type="data" format="idxml" optional="False" label="Input file with corresponding sequences in idXML" help="(-in_identifications) "/> | |
| 219 <param name="param_precursor_charge" type="integer" min="1" max="3" optional="True" value="2" label="Precursor charge state used for model training" help="(-precursor_charge) "/> | |
| 220 <param name="param_write_training_files" display="radio" type="boolean" truevalue="-write_training_files" falsevalue="" checked="false" optional="True" label="No models are trained but input training files for libSVM command line tools are produced" help="(-write_training_files) "/> | |
| 221 <param name="param_algorithm_number_intensity_levels" type="integer" value="7" label="The number of intensity bins (for secondary type models)" help="(-number_intensity_levels) "/> | |
| 222 <param name="param_algorithm_number_regions" type="integer" value="3" label="The number of regions each spectrum is split to (for secondary type models)" help="(-number_regions) "/> | |
| 223 <param name="param_algorithm_parent_tolerance" type="float" value="2.5" label="The maximum difference between theoretical and experimental parent mass to accept training spectrum" help="(-parent_tolerance) "/> | |
| 224 <param name="param_algorithm_peak_tolerance" type="float" value="0.5" label="The maximum mass error for a peak to the expected mass of some ion type" help="(-peak_tolerance) "/> | |
| 225 <param name="param_algorithm_add_b_ions" display="radio" type="select" optional="False" value="true" label="Train simulator for b-ions" help="(-add_b_ions) "> | |
| 226 <option value="true" selected="true">true</option> | |
| 227 <option value="false">false</option> | |
| 228 </param> | |
| 229 <param name="param_algorithm_add_y_ions" display="radio" type="select" optional="False" value="true" label="Train simulator for y-ions" help="(-add_y_ions) "> | |
| 230 <option value="true" selected="true">true</option> | |
| 231 <option value="false">false</option> | |
| 232 </param> | |
| 233 <param name="param_algorithm_add_a_ions" display="radio" type="boolean" truevalue="-algorithm:add_a_ions" falsevalue="" checked="false" optional="True" label="Train simulator for a-ions" help="(-add_a_ions) "/> | |
| 234 <param name="param_algorithm_add_c_ions" display="radio" type="boolean" truevalue="-algorithm:add_c_ions" falsevalue="" checked="false" optional="True" label="Train simulator for c-ions" help="(-add_c_ions) "/> | |
| 235 <param name="param_algorithm_add_x_ions" display="radio" type="boolean" truevalue="-algorithm:add_x_ions" falsevalue="" checked="false" optional="True" label="Train simulator for x-ions" help="(-add_x_ions) "/> | |
| 236 <param name="param_algorithm_add_z_ions" display="radio" type="boolean" truevalue="-algorithm:add_z_ions" falsevalue="" checked="false" optional="True" label="Train simulator for z-ions" help="(-add_z_ions) "/> | |
| 237 <param name="param_algorithm_add_losses" display="radio" type="boolean" truevalue="-algorithm:add_losses" falsevalue="" checked="false" optional="True" label="Train simulator for neutral losses of H2O and NH3 for b-ions and y-ions" help="(-add_losses) "/> | |
| 238 <param name="param_algorithm_add_b2_ions" display="radio" type="boolean" truevalue="-algorithm:add_b2_ions" falsevalue="" checked="false" optional="True" label="Train simulator for doubly charged b-ions" help="(-add_b2_ions) "/> | |
| 239 <param name="param_algorithm_add_y2_ions" display="radio" type="boolean" truevalue="-algorithm:add_y2_ions" falsevalue="" checked="false" optional="True" label="Train simulator for double charged y-ions" help="(-add_y2_ions) "/> | |
| 240 <param name="param_algorithm_svm_svc_type" type="integer" min="0" max="1" optional="True" value="0" label="Type of the SVC: 0=C_SVC 1=NU_SVC" help="(-svc_type) "/> | |
| 241 <param name="param_algorithm_svm_svr_type" type="integer" min="0" max="1" optional="True" value="1" label="Type of the SVR: 0=EPSILON_SVR 1=NU_SVR" help="(-svr_type) "/> | |
| 242 <param name="param_algorithm_svm_scaling" display="radio" type="select" optional="False" value="true" label="Apply scaling of feature values" help="(-scaling) "> | |
| 243 <option value="true" selected="true">true</option> | |
| 244 <option value="false">false</option> | |
| 245 </param> | |
| 246 <param name="param_algorithm_svm_scaling_lower" type="float" value="0.0" label="Lower bound for scaling" help="(-scaling_lower) "/> | |
| 247 <param name="param_algorithm_svm_scaling_upper" type="float" value="1.0" label="Upper bound for scaling" help="(-scaling_upper) "/> | |
| 248 <param name="param_algorithm_svm_n_fold" type="integer" min="1" optional="True" value="5" label="n_fold cross validation is performed" help="(-n_fold) "/> | |
| 249 <param name="param_algorithm_svm_grid" display="radio" type="boolean" truevalue="-algorithm:svm:grid" falsevalue="" checked="false" optional="True" label="Perform grid search" help="(-grid) "/> | |
| 250 <param name="param_algorithm_svm_additive_cv" display="radio" type="boolean" truevalue="-algorithm:svm:additive_cv" falsevalue="" checked="false" optional="True" label="Additive step size (if false multiplicative)" help="(-additive_cv) "/> | |
| 251 <param name="param_algorithm_svm_svc_kernel_type" type="integer" min="0" max="3" optional="True" value="2" label="Type of the kernel: 0=LINEAR 1=POLY 2=RBF 3=SIGMOID" help="(-kernel_type) "/> | |
| 252 <param name="param_algorithm_svm_svc_degree" type="integer" min="1" optional="True" value="3" label="For POLY" help="(-degree) "/> | |
| 253 <param name="param_algorithm_svm_svc_gamma" type="float" min="0.0" optional="True" value="0.0" label="For POLY/RBF/SIGMOID" help="(-gamma) "/> | |
| 254 <param name="param_algorithm_svm_svc_C" type="float" value="1.0" label="Cost of constraint violation" help="(-C) "/> | |
| 255 <param name="param_algorithm_svm_svc_nu" type="float" value="0.5" label="For NU_SVC, ONE_CLASS and NU_SVR" help="(-nu) "/> | |
| 256 <param name="param_algorithm_svm_svc_balancing" display="radio" type="select" optional="False" value="true" label="Use class balanced SVC training" help="(-balancing) "> | |
| 257 <option value="true" selected="true">true</option> | |
| 258 <option value="false">false</option> | |
| 259 </param> | |
| 260 <param name="param_algorithm_svm_svc_degree_start" type="integer" min="1" optional="True" value="1" label="starting point of degree" help="(-degree_start) "/> | |
| 261 <param name="param_algorithm_svm_svc_degree_step_size" type="integer" value="2" label="step size point of degree" help="(-degree_step_size) "/> | |
| 262 <param name="param_algorithm_svm_svc_degree_stop" type="integer" value="4" label="stopping point of degree" help="(-degree_stop) "/> | |
| 263 <param name="param_algorithm_svm_svc_gamma_start" type="float" min="0.0" max="1.0" optional="True" value="1e-05" label="starting point of gamma" help="(-gamma_start) "/> | |
| 264 <param name="param_algorithm_svm_svc_gamma_step_size" type="integer" value="100" label="step size point of gamma" help="(-gamma_step_size) "/> | |
| 265 <param name="param_algorithm_svm_svc_gamma_stop" type="float" value="0.1" label="stopping point of gamma" help="(-gamma_stop) "/> | |
| 266 <param name="param_algorithm_svm_svc_c_start" type="float" value="0.1" label="starting point of c" help="(-c_start) "/> | |
| 267 <param name="param_algorithm_svm_svc_c_step_size" type="integer" value="100" label="step size of c" help="(-c_step_size) "/> | |
| 268 <param name="param_algorithm_svm_svc_c_stop" type="integer" value="1000" label="stopping point of c" help="(-c_stop) "/> | |
| 269 <param name="param_algorithm_svm_svc_nu_start" type="float" min="0.0" max="1.0" optional="True" value="0.3" label="starting point of nu" help="(-nu_start) "/> | |
| 270 <param name="param_algorithm_svm_svc_nu_step_size" type="integer" value="2" label="step size of nu" help="(-nu_step_size) "/> | |
| 271 <param name="param_algorithm_svm_svc_nu_stop" type="float" min="0.0" max="1.0" optional="True" value="0.6" label="stopping point of nu" help="(-nu_stop) "/> | |
| 272 <param name="param_algorithm_svm_svr_kernel_type" type="integer" min="0" max="3" optional="True" value="2" label="Type of the kernel: 0=LINEAR 1=POLY 2=RBF 3=SIGMOID" help="(-kernel_type) "/> | |
| 273 <param name="param_algorithm_svm_svr_degree" type="integer" min="1" optional="True" value="3" label="For POLY" help="(-degree) "/> | |
| 274 <param name="param_algorithm_svm_svr_gamma" type="float" min="0.0" optional="True" value="0.0" label="For POLY/RBF/SIGMOID" help="(-gamma) "/> | |
| 275 <param name="param_algorithm_svm_svr_C" type="float" value="1.0" label="Cost of constraint violation" help="(-C) "/> | |
| 276 <param name="param_algorithm_svm_svr_p" type="float" value="0.1" label="The epsilon for the loss function in epsilon-SVR" help="(-p) "/> | |
| 277 <param name="param_algorithm_svm_svr_nu" type="float" value="0.5" label="For NU_SVC, ONE_CLASS and NU_SVR" help="(-nu) "/> | |
| 278 <param name="param_algorithm_svm_svr_degree_start" type="integer" min="1" optional="True" value="1" label="starting point of degree" help="(-degree_start) "/> | |
| 279 <param name="param_algorithm_svm_svr_degree_step_size" type="integer" value="2" label="step size point of degree" help="(-degree_step_size) "/> | |
| 280 <param name="param_algorithm_svm_svr_degree_stop" type="integer" value="4" label="stopping point of degree" help="(-degree_stop) "/> | |
| 281 <param name="param_algorithm_svm_svr_gamma_start" type="float" min="0.0" max="1.0" optional="True" value="1e-05" label="starting point of gamma" help="(-gamma_start) "/> | |
| 282 <param name="param_algorithm_svm_svr_gamma_step_size" type="integer" value="100" label="step size point of gamma" help="(-gamma_step_size) "/> | |
| 283 <param name="param_algorithm_svm_svr_gamma_stop" type="float" value="0.1" label="stopping point of gamma" help="(-gamma_stop) "/> | |
| 284 <param name="param_algorithm_svm_svr_p_start" type="float" value="1e-05" label="starting point of p" help="(-p_start) "/> | |
| 285 <param name="param_algorithm_svm_svr_p_step_size" type="integer" value="100" label="step size point of p" help="(-p_step_size) "/> | |
| 286 <param name="param_algorithm_svm_svr_p_stop" type="float" value="0.1" label="stopping point of p" help="(-p_stop) "/> | |
| 287 <param name="param_algorithm_svm_svr_c_start" type="float" value="0.1" label="starting point of c" help="(-c_start) "/> | |
| 288 <param name="param_algorithm_svm_svr_c_step_size" type="integer" value="100" label="step size of c" help="(-c_step_size) "/> | |
| 289 <param name="param_algorithm_svm_svr_c_stop" type="integer" value="1000" label="stopping point of c" help="(-c_stop) "/> | |
| 290 <param name="param_algorithm_svm_svr_nu_start" type="float" min="0.0" max="1.0" optional="True" value="0.3" label="starting point of nu" help="(-nu_start) "/> | |
| 291 <param name="param_algorithm_svm_svr_nu_step_size" type="integer" value="2" label="step size of nu" help="(-nu_step_size) "/> | |
| 292 <param name="param_algorithm_svm_svr_nu_stop" type="float" min="0.0" max="1.0" optional="True" value="0.6" label="stopping point of nu" help="(-nu_stop) "/> | |
| 293 <expand macro="advanced_options"> | |
| 294 <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/> | |
| 295 </expand> | |
| 296 </inputs> | |
| 297 <outputs> | |
| 298 <data name="param_model_output_file" format="data"/> | |
| 299 </outputs> | |
| 300 <help>Trainer for SVM models as input for SvmTheoreticalSpectrumGenerator | |
| 301 | |
| 302 | |
| 303 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_SvmTheoreticalSpectrumGeneratorTrainer.html</help> | |
| 304 </tool> |