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comparison IDMerger.xml @ 16:bdcdd2a5ea43 draft default tip

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 5c080b1e2b99f1c88f4557e9fec8c45c9d23b906
author galaxyp
date Fri, 14 Jun 2024 21:40:49 +0000
parents 34e7afee141d
children
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15:34e7afee141d 16:bdcdd2a5ea43
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 CTDConverter.--> 1 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.-->
3 <!--Proposed Tool Section: [File Handling]--> 2 <!--Proposed Tool Section: [File Filtering / Extraction / Merging]-->
4 <tool id="IDMerger" name="IDMerger" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.05"> 3 <tool id="IDMerger" name="IDMerger" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.05">
5 <description>Merges several protein/peptide identification files into one file.</description> 4 <description>Merges several protein/peptide identification files into one file</description>
6 <macros> 5 <macros>
7 <token name="@EXECUTABLE@">IDMerger</token> 6 <token name="@EXECUTABLE@">IDMerger</token>
8 <import>macros.xml</import> 7 <import>macros.xml</import>
9 </macros> 8 </macros>
10 <expand macro="requirements"/> 9 <expand macro="requirements"/>
15 14
16 ## Preprocessing 15 ## Preprocessing
17 mkdir in_cond.in && 16 mkdir in_cond.in &&
18 #if $in_cond.in_select == "no" 17 #if $in_cond.in_select == "no"
19 mkdir ${' '.join(["'in_cond.in/%s'" % (i) for i, f in enumerate($in_cond.in) if f])} && 18 mkdir ${' '.join(["'in_cond.in/%s'" % (i) for i, f in enumerate($in_cond.in) if f])} &&
20 ${' '.join(["ln -s '%s' 'in_cond.in/%s/%s.%s' && " % (f, i, re.sub('[^\w\-_]', '_', f.element_identifier), $gxy2omsext(f.ext)) for i, f in enumerate($in_cond.in) if f])} 19 ${' '.join(["cp '%s' 'in_cond.in/%s/%s.%s' && " % (f, i, re.sub('[^\w\-_]', '_', f.element_identifier), $gxy2omsext(f.ext)) for i, f in enumerate($in_cond.in) if f])}
21 #else 20 #else
22 ln -s '$in_cond.in' 'in_cond.in/${re.sub("[^\w\-_]", "_", $in_cond.in.element_identifier)}.$gxy2omsext($in_cond.in.ext)' && 21 cp '$in_cond.in' 'in_cond.in/${re.sub("[^\w\-_]", "_", $in_cond.in.element_identifier)}.$gxy2omsext($in_cond.in.ext)' &&
23 #end if 22 #end if
24 mkdir out && 23 mkdir out &&
25 #if $add_to: 24 #if $add_to:
26 mkdir add_to && 25 mkdir add_to &&
27 ln -s '$add_to' 'add_to/${re.sub("[^\w\-_]", "_", $add_to.element_identifier)}.$gxy2omsext($add_to.ext)' && 26 cp '$add_to' 'add_to/${re.sub("[^\w\-_]", "_", $add_to.element_identifier)}.$gxy2omsext($add_to.ext)' &&
28 #end if 27 #end if
29 28
30 ## Main program call 29 ## Main program call
31 30
32 set -o pipefail && 31 set -o pipefail &&
60 <param name="in_select" type="select" label="Run tool in batch mode for -in"> 59 <param name="in_select" type="select" label="Run tool in batch mode for -in">
61 <option value="no">No: process all datasets jointly</option> 60 <option value="no">No: process all datasets jointly</option>
62 <option value="yes">Yes: process each dataset in an independent job</option> 61 <option value="yes">Yes: process each dataset in an independent job</option>
63 </param> 62 </param>
64 <when value="no"> 63 <when value="no">
65 <param argument="-in" type="data" format="idxml,sqlite" multiple="true" optional="false" label="Input files separated by blanks (all must have the same type)" help=" select idxml,sqlite data sets(s)"/> 64 <param argument="-in" type="data" format="idxml,sqlite" multiple="true" label="Input files separated by blanks (all must have the same type)" help=" select idxml,sqlite data sets(s)"/>
66 </when> 65 </when>
67 <when value="yes"> 66 <when value="yes">
68 <param argument="-in" type="data" format="idxml,sqlite" multiple="false" optional="false" label="Input files separated by blanks (all must have the same type)" help=" select idxml,sqlite data sets(s)"/> 67 <param argument="-in" type="data" format="idxml,sqlite" label="Input files separated by blanks (all must have the same type)" help=" select idxml,sqlite data sets(s)"/>
69 </when> 68 </when>
70 </conditional> 69 </conditional>
71 <param argument="-out_type" display="radio" type="select" optional="false" label="Output file type (default: determined from file extension)" help=""> 70 <param argument="-out_type" type="select" label="Output file type (default: determined from file extension)" help="">
72 <option value="idXML">idxml</option> 71 <option value="idXML">idxml</option>
73 <option value="oms">sqlite (oms)</option> 72 <option value="oms">sqlite (oms)</option>
73 <validator type="expression" message="A value needs to be selected">value != "select a value"</validator>
74 <expand macro="list_string_san" name="out_type"/> 74 <expand macro="list_string_san" name="out_type"/>
75 </param> 75 </param>
76 <param argument="-add_to" type="data" format="idxml" optional="true" label="Optional input file" help="IDs from 'in' are added to this file, but only if the (modified) peptide sequences are not present yet (considering only best hits per spectrum) select idxml data sets(s)"/> 76 <param argument="-add_to" type="data" format="idxml" optional="true" label="Optional input file" help="IDs from 'in' are added to this file, but only if the (modified) peptide sequences are not present yet (considering only best hits per spectrum) select idxml data sets(s)"/>
77 <param argument="-annotate_file_origin" type="boolean" truevalue="true" falsevalue="false" checked="true" label="Store the original filename in each protein/peptide identification (meta value: 'file_origin') - idXML input/output only" help=""/> 77 <param argument="-annotate_file_origin" type="boolean" truevalue="true" falsevalue="false" checked="true" label="Store the original filename in each protein/peptide identification (meta value: 'file_origin') - idXML input/output only" help=""/>
78 <param argument="-pepxml_protxml" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Merge idXML files derived from a pepXML and corresponding protXML file" help="Exactly two input files are expected in this case. Not compatible with 'add_to'"/> 78 <param argument="-pepxml_protxml" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Merge idXML files derived from a pepXML and corresponding protXML file" help="Exactly two input files are expected in this case. Not compatible with 'add_to'"/>
79 <param argument="-merge_proteins_add_PSMs" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Merge all identified proteins by accession into one protein identification run but keep all the PSMs with updated links to potential new protein ID#s" help="Not compatible with 'add_to'"/> 79 <param argument="-merge_proteins_add_PSMs" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Merge all identified proteins by accession into one protein identification run but keep all the PSMs with updated links to potential new protein ID#s" help="Not compatible with 'add_to'"/>
80 <expand macro="adv_opts_macro"> 80 <expand macro="adv_opts_macro">
81 <param argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overrides tool-specific checks" help=""/> 81 <param argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overrides tool-specific checks" help=""/>
82 <param argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help=""> 82 <param argument="-test" type="hidden" value="False" label="Enables the test mode (needed for internal use only)" help="" optional="true">
83 <expand macro="list_string_san" name="test"/> 83 <expand macro="list_string_san" name="test"/>
84 </param> 84 </param>
85 </expand> 85 </expand>
86 <param name="OPTIONAL_OUTPUTS" type="select" optional="true" multiple="true" label="Optional outputs"> 86 <param name="OPTIONAL_OUTPUTS" type="select" optional="true" multiple="true" label="Optional outputs">
87 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option> 87 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option>
95 </data> 95 </data>
96 <data name="ctd_out" format="xml" label="${tool.name} on ${on_string}: ctd"> 96 <data name="ctd_out" format="xml" label="${tool.name} on ${on_string}: ctd">
97 <filter>OPTIONAL_OUTPUTS is not None and "ctd_out_FLAG" in OPTIONAL_OUTPUTS</filter> 97 <filter>OPTIONAL_OUTPUTS is not None and "ctd_out_FLAG" in OPTIONAL_OUTPUTS</filter>
98 </data> 98 </data>
99 </outputs> 99 </outputs>
100 <tests><!-- TOPP_IDMerger_1 --> 100 <tests>
101 <!-- TOPP_IDMerger_1 -->
101 <test expect_num_outputs="2"> 102 <test expect_num_outputs="2">
102 <section name="adv_opts"> 103 <section name="adv_opts">
103 <param name="force" value="false"/> 104 <param name="force" value="false"/>
104 <param name="test" value="true"/> 105 <param name="test" value="true"/>
105 </section> 106 </section>
106 <conditional name="in_cond"> 107 <conditional name="in_cond">
107 <param name="in" value="IDMerger_1_input1.idXML,IDMerger_1_input2.idXML"/> 108 <param name="in" value="IDMerger_1_input1.idXML,IDMerger_1_input2.idXML"/>
108 </conditional> 109 </conditional>
109 <output name="out" file="IDMerger_1_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/> 110 <output name="out" value="IDMerger_1_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/>
110 <param name="out_type" value="idXML"/> 111 <param name="out_type" value="idXML"/>
111 <param name="annotate_file_origin" value="true"/> 112 <param name="annotate_file_origin" value="true"/>
112 <param name="pepxml_protxml" value="false"/> 113 <param name="pepxml_protxml" value="false"/>
113 <param name="merge_proteins_add_PSMs" value="false"/> 114 <param name="merge_proteins_add_PSMs" value="false"/>
114 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/> 115 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/>
115 <output name="ctd_out" ftype="xml"> 116 <output name="ctd_out" ftype="xml">
116 <assert_contents> 117 <assert_contents>
117 <is_valid_xml/> 118 <is_valid_xml/>
118 </assert_contents> 119 </assert_contents>
119 </output> 120 </output>
121 <assert_stdout>
122 <has_text_matching expression="@EXECUTABLE@ took .* \(wall\), .* \(CPU\), .* \(system\), .* \(user\)(; Peak Memory Usage: 32 MB)?."/>
123 </assert_stdout>
120 </test> 124 </test>
121 <!-- TOPP_IDMerger_2 --> 125 <!-- TOPP_IDMerger_2 -->
122 <test expect_num_outputs="2"> 126 <test expect_num_outputs="2">
123 <section name="adv_opts"> 127 <section name="adv_opts">
124 <param name="force" value="false"/> 128 <param name="force" value="false"/>
125 <param name="test" value="true"/> 129 <param name="test" value="true"/>
126 </section> 130 </section>
127 <conditional name="in_cond"> 131 <conditional name="in_cond">
128 <param name="in" value="IDMerger_2_input1.idXML,IDMerger_2_input2.idXML"/> 132 <param name="in" value="IDMerger_2_input1.idXML,IDMerger_2_input2.idXML"/>
129 </conditional> 133 </conditional>
130 <output name="out" file="IDMerger_2_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/> 134 <output name="out" value="IDMerger_2_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/>
131 <param name="out_type" value="idXML"/> 135 <param name="out_type" value="idXML"/>
132 <param name="annotate_file_origin" value="false"/> 136 <param name="annotate_file_origin" value="false"/>
133 <param name="pepxml_protxml" value="true"/> 137 <param name="pepxml_protxml" value="true"/>
134 <param name="merge_proteins_add_PSMs" value="false"/> 138 <param name="merge_proteins_add_PSMs" value="false"/>
135 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/> 139 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/>
136 <output name="ctd_out" ftype="xml"> 140 <output name="ctd_out" ftype="xml">
137 <assert_contents> 141 <assert_contents>
138 <is_valid_xml/> 142 <is_valid_xml/>
139 </assert_contents> 143 </assert_contents>
140 </output> 144 </output>
145 <assert_stdout>
146 <has_text_matching expression="@EXECUTABLE@ took .* \(wall\), .* \(CPU\), .* \(system\), .* \(user\)(; Peak Memory Usage: 32 MB)?."/>
147 </assert_stdout>
141 </test> 148 </test>
142 <!-- TOPP_IDMerger_3 --> 149 <!-- TOPP_IDMerger_3 -->
143 <test expect_num_outputs="2"> 150 <test expect_num_outputs="2">
144 <section name="adv_opts"> 151 <section name="adv_opts">
145 <param name="force" value="false"/> 152 <param name="force" value="false"/>
146 <param name="test" value="true"/> 153 <param name="test" value="true"/>
147 </section> 154 </section>
148 <conditional name="in_cond"> 155 <conditional name="in_cond">
149 <param name="in" value="IDMerger_1_input1.idXML,IDMerger_1_input1_2.idXML"/> 156 <param name="in" value="IDMerger_1_input1_0.idXML,IDMerger_1_input1_1.idXML"/>
150 </conditional> 157 </conditional>
151 <output name="out" file="IDMerger_3_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/> 158 <output name="out" value="IDMerger_3_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/>
152 <param name="out_type" value="idXML"/> 159 <param name="out_type" value="idXML"/>
153 <param name="annotate_file_origin" value="false"/> 160 <param name="annotate_file_origin" value="false"/>
154 <param name="pepxml_protxml" value="false"/> 161 <param name="pepxml_protxml" value="false"/>
155 <param name="merge_proteins_add_PSMs" value="false"/> 162 <param name="merge_proteins_add_PSMs" value="false"/>
156 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/> 163 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/>
157 <output name="ctd_out" ftype="xml"> 164 <output name="ctd_out" ftype="xml">
158 <assert_contents> 165 <assert_contents>
159 <is_valid_xml/> 166 <is_valid_xml/>
160 </assert_contents> 167 </assert_contents>
161 </output> 168 </output>
169 <assert_stdout>
170 <has_text_matching expression="@EXECUTABLE@ took .* \(wall\), .* \(CPU\), .* \(system\), .* \(user\)(; Peak Memory Usage: 32 MB)?."/>
171 </assert_stdout>
162 </test> 172 </test>
163 <!-- TOPP_IDMerger_4 --> 173 <!-- TOPP_IDMerger_4 -->
164 <test expect_num_outputs="2"> 174 <test expect_num_outputs="2">
165 <section name="adv_opts"> 175 <section name="adv_opts">
166 <param name="force" value="false"/> 176 <param name="force" value="false"/>
167 <param name="test" value="true"/> 177 <param name="test" value="true"/>
168 </section> 178 </section>
169 <conditional name="in_cond"> 179 <conditional name="in_cond">
170 <param name="in" value="degenerated_empty.idXML,degenerated_empty_2.idXML"/> 180 <param name="in" value="degenerated_empty_0.idXML,degenerated_empty_1.idXML"/>
171 </conditional> 181 </conditional>
172 <output name="out" file="IDMerger_4_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/> 182 <output name="out" value="IDMerger_4_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/>
173 <param name="out_type" value="idXML"/> 183 <param name="out_type" value="idXML"/>
174 <param name="annotate_file_origin" value="false"/> 184 <param name="annotate_file_origin" value="false"/>
175 <param name="pepxml_protxml" value="false"/> 185 <param name="pepxml_protxml" value="false"/>
176 <param name="merge_proteins_add_PSMs" value="false"/> 186 <param name="merge_proteins_add_PSMs" value="false"/>
177 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/> 187 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/>
178 <output name="ctd_out" ftype="xml"> 188 <output name="ctd_out" ftype="xml">
179 <assert_contents> 189 <assert_contents>
180 <is_valid_xml/> 190 <is_valid_xml/>
181 </assert_contents> 191 </assert_contents>
182 </output> 192 </output>
193 <assert_stdout>
194 <has_text_matching expression="@EXECUTABLE@ took .* \(wall\), .* \(CPU\), .* \(system\), .* \(user\)(; Peak Memory Usage: 32 MB)?."/>
195 </assert_stdout>
183 </test> 196 </test>
184 <!-- TOPP_IDMerger_5 --> 197 <!-- TOPP_IDMerger_5 -->
185 <test expect_num_outputs="2"> 198 <test expect_num_outputs="2">
186 <section name="adv_opts"> 199 <section name="adv_opts">
187 <param name="force" value="false"/> 200 <param name="force" value="false"/>
188 <param name="test" value="true"/> 201 <param name="test" value="true"/>
189 </section> 202 </section>
190 <conditional name="in_cond"> 203 <conditional name="in_cond">
191 <param name="in" value="IDMerger_2_input1.idXML"/> 204 <param name="in" value="IDMerger_2_input1.idXML"/>
192 </conditional> 205 </conditional>
193 <output name="out" file="IDMerger_5_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/> 206 <output name="out" value="IDMerger_5_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/>
194 <param name="out_type" value="idXML"/> 207 <param name="out_type" value="idXML"/>
195 <param name="add_to" value="IDMerger_5_input1.idXML"/> 208 <param name="add_to" value="IDMerger_5_input1.idXML"/>
196 <param name="annotate_file_origin" value="false"/> 209 <param name="annotate_file_origin" value="false"/>
197 <param name="pepxml_protxml" value="false"/> 210 <param name="pepxml_protxml" value="false"/>
198 <param name="merge_proteins_add_PSMs" value="false"/> 211 <param name="merge_proteins_add_PSMs" value="false"/>
200 <output name="ctd_out" ftype="xml"> 213 <output name="ctd_out" ftype="xml">
201 <assert_contents> 214 <assert_contents>
202 <is_valid_xml/> 215 <is_valid_xml/>
203 </assert_contents> 216 </assert_contents>
204 </output> 217 </output>
218 <assert_stdout>
219 <has_text_matching expression="@EXECUTABLE@ took .* \(wall\), .* \(CPU\), .* \(system\), .* \(user\)(; Peak Memory Usage: 32 MB)?."/>
220 </assert_stdout>
205 </test> 221 </test>
206 <!-- TOPP_IDMerger_6 --> 222 <!-- TOPP_IDMerger_6 -->
207 <test expect_num_outputs="2"> 223 <test expect_num_outputs="2">
208 <section name="adv_opts"> 224 <section name="adv_opts">
209 <param name="force" value="false"/> 225 <param name="force" value="false"/>
210 <param name="test" value="true"/> 226 <param name="test" value="true"/>
211 </section> 227 </section>
212 <conditional name="in_cond"> 228 <conditional name="in_cond">
213 <param name="in" value="IDMerger_6_input1.oms,IDMerger_6_input2.oms"/> 229 <param name="in" value="IDMerger_6_input1.oms,IDMerger_6_input2.oms"/>
214 </conditional> 230 </conditional>
215 <output name="out" file="IDMerger_6_output1.oms" compare="sim_size" delta_frac="0.7" ftype="sqlite"/> 231 <output name="out" value="IDMerger_6_output1.oms" compare="sim_size" delta_frac="0.7" ftype="sqlite"/>
216 <param name="out_type" value="oms"/> 232 <param name="out_type" value="oms"/>
217 <param name="annotate_file_origin" value="true"/> 233 <param name="annotate_file_origin" value="true"/>
218 <param name="pepxml_protxml" value="false"/> 234 <param name="pepxml_protxml" value="false"/>
219 <param name="merge_proteins_add_PSMs" value="false"/> 235 <param name="merge_proteins_add_PSMs" value="false"/>
220 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/> 236 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/>
221 <output name="ctd_out" ftype="xml"> 237 <output name="ctd_out" ftype="xml">
222 <assert_contents> 238 <assert_contents>
223 <is_valid_xml/> 239 <is_valid_xml/>
224 </assert_contents> 240 </assert_contents>
225 </output> 241 </output>
242 <assert_stdout>
243 <has_text_matching expression="@EXECUTABLE@ took .* \(wall\), .* \(CPU\), .* \(system\), .* \(user\)(; Peak Memory Usage: 32 MB)?."/>
244 </assert_stdout>
226 </test> 245 </test>
227 <!-- TOPP_IDRipper_3_prep --> 246 <!-- TOPP_IDRipper_3_prep -->
228 <test expect_num_outputs="2"> 247 <test expect_num_outputs="2">
229 <section name="adv_opts"> 248 <section name="adv_opts">
230 <param name="force" value="false"/> 249 <param name="force" value="false"/>
231 <param name="test" value="true"/> 250 <param name="test" value="true"/>
232 </section> 251 </section>
233 <conditional name="in_cond"> 252 <conditional name="in_cond">
234 <param name="in" value="IDRipper_3_input1.idXML,IDRipper_3_input2.idXML"/> 253 <param name="in" value="IDRipper_3_input1.idXML,IDRipper_3_input2.idXML"/>
235 </conditional> 254 </conditional>
236 <output name="out" file="IDRipper_3_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/> 255 <output name="out" value="IDRipper_3_output.idXML" compare="sim_size" delta_frac="0.7" ftype="idxml"/>
237 <param name="out_type" value="idXML"/> 256 <param name="out_type" value="idXML"/>
238 <param name="annotate_file_origin" value="true"/> 257 <param name="annotate_file_origin" value="true"/>
239 <param name="pepxml_protxml" value="false"/> 258 <param name="pepxml_protxml" value="false"/>
240 <param name="merge_proteins_add_PSMs" value="false"/> 259 <param name="merge_proteins_add_PSMs" value="false"/>
241 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/> 260 <param name="OPTIONAL_OUTPUTS" value="ctd_out_FLAG"/>
242 <output name="ctd_out" ftype="xml"> 261 <output name="ctd_out" ftype="xml">
243 <assert_contents> 262 <assert_contents>
244 <is_valid_xml/> 263 <is_valid_xml/>
245 </assert_contents> 264 </assert_contents>
246 </output> 265 </output>
266 <assert_stdout>
267 <has_text_matching expression="@EXECUTABLE@ took .* \(wall\), .* \(CPU\), .* \(system\), .* \(user\)(; Peak Memory Usage: 32 MB)?."/>
268 </assert_stdout>
247 </test> 269 </test>
248 </tests> 270 </tests>
249 <help><![CDATA[Merges several protein/peptide identification files into one file. 271 <help><![CDATA[Merges several protein/peptide identification files into one file.
250 272
251 273
252 For more information, visit http://www.openms.de/doxygen/release/2.8.0/html/TOPP_IDMerger.html]]></help> 274 For more information, visit https://openms.de/doxygen/release/3.1.0/html/TOPP_IDMerger.html]]></help>
253 <expand macro="references"/> 275 <expand macro="references"/>
254 </tool> 276 </tool>