Mercurial > repos > bgruening > cp_common
comparison common.xml @ 1:0b7db679fff8 draft
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 6a3036d24b5ec074936f8f8283b7e176f6f1ce70"
author | bgruening |
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date | Thu, 09 Apr 2020 08:12:15 -0400 |
parents | 9c8ee01c0b22 |
children |
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0:9c8ee01c0b22 | 1:0b7db679fff8 |
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180 _str += FOURSPACES + "Assignments count:%s\n" % rule_count | 180 _str += FOURSPACES + "Assignments count:%s\n" % rule_count |
181 _str += FOURSPACES + "Single images count:0\n" | 181 _str += FOURSPACES + "Single images count:0\n" |
182 _str += FOURSPACES + "Maximum intensity:%.1f\n" % max_intensity | 182 _str += FOURSPACES + "Maximum intensity:%.1f\n" % max_intensity |
183 _str += FOURSPACES + "Process as 3D?:%s\n" % process_3d | 183 _str += FOURSPACES + "Process as 3D?:%s\n" % process_3d |
184 | 184 |
185 _str += FOURSPACES + "Relative pixel spacing in X:%.1f\n" + x_spacing | 185 _str += FOURSPACES + "Relative pixel spacing in X:%.1f\n" % x_spacing |
186 _str += FOURSPACES + "Relative pixel spacing in Y:%.1f\n" + y_spacing | 186 _str += FOURSPACES + "Relative pixel spacing in Y:%.1f\n" % y_spacing |
187 _str += FOURSPACES + "Relative pixel spacing in Z:%.1f\n" + z_spacing | 187 _str += FOURSPACES + "Relative pixel spacing in Z:%.1f\n" % z_spacing |
188 else: | 188 else: |
189 _str += FOURSPACES + "Select the image type:Grayscale image\n" | 189 _str += FOURSPACES + "Select the image type:Grayscale image\n" |
190 _str += FOURSPACES + "Name to assign these images:DNA\n" | 190 _str += FOURSPACES + "Name to assign these images:DNA\n" |
191 _str += FOURSPACES + "Match metadata:[]\n" | 191 _str += FOURSPACES + "Match metadata:[]\n" |
192 | 192 |
216 _str += FOURSPACES + "Maximum intensity:%s\n" % rule["con_select_image_type"]["con_set_intensity"]["maximum_intensity"] | 216 _str += FOURSPACES + "Maximum intensity:%s\n" % rule["con_select_image_type"]["con_set_intensity"]["maximum_intensity"] |
217 else: | 217 else: |
218 _str += FOURSPACES + "Maximum intensity:255.0\n" | 218 _str += FOURSPACES + "Maximum intensity:255.0\n" |
219 | 219 |
220 if process_3d == "Yes": | 220 if process_3d == "Yes": |
221 _str += FOURSPACES + "Relative pixel spacing in X:%.1f\n" + x_spacing | 221 _str += FOURSPACES + "Relative pixel spacing in X:%.1f\n" % x_spacing |
222 _str += FOURSPACES + "Relative pixel spacing in Y:%.1f\n" + y_spacing | 222 _str += FOURSPACES + "Relative pixel spacing in Y:%.1f\n" % y_spacing |
223 _str += FOURSPACES + "Relative pixel spacing in Z:%.1f\n" + z_spacing | 223 _str += FOURSPACES + "Relative pixel spacing in Z:%.1f\n" % z_spacing |
224 | 224 |
225 return _str | 225 return _str |
226 | 226 |
227 | 227 |
228 def write_groups(): | 228 def write_groups(): |
303 <option value="(?P<field1>.*)__(?P<field2>[a-zA-Z0-9]+)__(?P<field3>[a-zA-Z0-9]+)__(?P<field4>[a-zA-Z0-9]+)__(?P<field5>[a-zA-Z0-9]+)">field1__field2__field3__field4__field5</option> | 303 <option value="(?P<field1>.*)__(?P<field2>[a-zA-Z0-9]+)__(?P<field3>[a-zA-Z0-9]+)__(?P<field4>[a-zA-Z0-9]+)__(?P<field5>[a-zA-Z0-9]+)">field1__field2__field3__field4__field5</option> |
304 <option value="(?P<field1>.*)-(?P<field2>[a-zA-Z0-9]+)-(?P<field3>[a-zA-Z0-9]+)-(?P<field4>[a-zA-Z0-9]+)-(?P<field5>[a-zA-Z0-9]+)-(?P<field6>[a-zA-Z0-9]+)">field1-field2-field3-field4-field5-field6</option> | 304 <option value="(?P<field1>.*)-(?P<field2>[a-zA-Z0-9]+)-(?P<field3>[a-zA-Z0-9]+)-(?P<field4>[a-zA-Z0-9]+)-(?P<field5>[a-zA-Z0-9]+)-(?P<field6>[a-zA-Z0-9]+)">field1-field2-field3-field4-field5-field6</option> |
305 <option value="(?P<field1>.*)_(?P<field2>[a-zA-Z0-9]+)_(?P<field3>[a-zA-Z0-9]+)_(?P<field4>[a-zA-Z0-9]+)_(?P<field5>[a-zA-Z0-9]+)_(?P<field6>[a-zA-Z0-9]+)">field1_field2_field3_field4_field5_field6</option> | 305 <option value="(?P<field1>.*)_(?P<field2>[a-zA-Z0-9]+)_(?P<field3>[a-zA-Z0-9]+)_(?P<field4>[a-zA-Z0-9]+)_(?P<field5>[a-zA-Z0-9]+)_(?P<field6>[a-zA-Z0-9]+)">field1_field2_field3_field4_field5_field6</option> |
306 <option value="(?P<field1>.*)__(?P<field2>[a-zA-Z0-9]+)__(?P<field3>[a-zA-Z0-9]+)__(?P<field4>[a-zA-Z0-9]+)__(?P<field5>[a-zA-Z0-9]+)__(?P<field6>[a-zA-Z0-9]+)">field1__field2__field3__field4__field5__field6</option> | 306 <option value="(?P<field1>.*)__(?P<field2>[a-zA-Z0-9]+)__(?P<field3>[a-zA-Z0-9]+)__(?P<field4>[a-zA-Z0-9]+)__(?P<field5>[a-zA-Z0-9]+)__(?P<field6>[a-zA-Z0-9]+)">field1__field2__field3__field4__field5__field6</option> |
307 </param> | 307 </param> |
308 <param name="folder_name_regex" type="text" value="(?P<Date>[0-9]{4}_[0-9]{2}_[0-9]{2})$" label="Regular expression to extract from folder name"> | 308 <param name="folder_name_regex" type="select" label="Select folder name pattern to extract from folder name" help="Folder names must comply with one of the patterns.For example, folder name images-exp1 matches the pattern field1-field2. If none of the patterns are suitable, please use other Galaxy tools to rename your folder first. "> |
309 <sanitizer sanitize="false"/> | 309 <sanitizer sanitize="false"/> |
310 <option value="(?P<field1>.*)">field1</option> | |
311 <option value="(?P<field1>.*)-(?P<field2>[a-zA-Z0-9]+)">field1-field2</option> | |
312 <option value="(?P<field1>.*)_(?P<field2>[a-zA-Z0-9]+)">field1_field2</option> | |
310 </param> | 313 </param> |
311 <param name="extract_metadata_from" type="select" label="Extract metadata from"> | 314 <param name="extract_metadata_from" type="select" label="Extract metadata from"> |
312 <option value="All images">All images</option> | 315 <option value="All images">All images</option> |
313 <option value="Images matching a rule">Images matching a rule</option> | 316 <option value="Images matching a rule">Images matching a rule</option> |
314 </param> | 317 </param> |