Mercurial > repos > florianbegusch > qiime2_suite

comparison qiime2/qiime_feature-classifier_fit-classifier-naive-bayes.xml @ 4:914fa4daf16a draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Fixes
author florianbegusch
date Wed, 31 Jul 2019 03:06:00 -0400
parents 370e0b6e9826
children de4c22a52df4
comparison
equal deleted inserted replaced
3:558645416841 4:914fa4daf16a
29 29
30 #if $pclassifychunksize: 30 #if $pclassifychunksize:
31 --p-classify--chunk-size=$pclassifychunksize 31 --p-classify--chunk-size=$pclassifychunksize
32 #end if 32 #end if
33 33
34
35
36
37 #if '__sq__' in str($pclassifyclassprior):
38 #set $pclassifyclassprior_temp = $pclassifyclassprior.replace('__sq__', "'")
39 #set $pclassifyclassprior = $pclassifyclassprior_temp
40 #end if
41
34 #if str($pclassifyclassprior): 42 #if str($pclassifyclassprior):
35 --p-classify--class-prior="$pclassifyclassprior" 43 --p-classify--class-prior="$pclassifyclassprior"
36 #end if 44 #end if
37 45
46
47
48
38 #if $pclassifyfitprior: 49 #if $pclassifyfitprior:
39 --p-classify--fit-prior 50 --p-classify--fit-prior
40 #end if 51 #end if
41 52
42 #if $pfeatextalternatesign: 53 #if $pfeatextalternatesign:
43 --p-feat-ext--alternate-sign 54 --p-feat-ext--alternate-sign
44 #end if 55 #end if
45 56
57
58
59
60
61 #if '__sq__' in str($pfeatextanalyzer):
62 #set $pfeatextanalyzer_temp = $pfeatextanalyzer.replace('__sq__', "'")
63 #set $pfeatextanalyzer = $pfeatextanalyzer_temp
64 #end if
65
46 #if str($pfeatextanalyzer): 66 #if str($pfeatextanalyzer):
47 --p-feat-ext--analyzer="$pfeatextanalyzer" 67 --p-feat-ext--analyzer="$pfeatextanalyzer"
48 #end if 68 #end if
49 69
70
71
72
73
50 #if $pfeatextbinary: 74 #if $pfeatextbinary:
51 --p-feat-ext--binary 75 --p-feat-ext--binary
52 #end if 76 #end if
53 77
78
79
80 #if '__sq__' in str($pfeatextdecodeerror):
81 #set $pfeatextdecodeerror_temp = $pfeatextdecodeerror.replace('__sq__', "'")
82 #set $pfeatextdecodeerror = $pfeatextdecodeerror_temp
83 #end if
84
54 #if str($pfeatextdecodeerror): 85 #if str($pfeatextdecodeerror):
55 --p-feat-ext--decode-error="$pfeatextdecodeerror" 86 --p-feat-ext--decode-error="$pfeatextdecodeerror"
56 #end if 87 #end if
57 88
89
90
91
92
93 #if '__sq__' in str($pfeatextencoding):
94 #set $pfeatextencoding_temp = $pfeatextencoding.replace('__sq__', "'")
95 #set $pfeatextencoding = $pfeatextencoding_temp
96 #end if
97
58 #if str($pfeatextencoding): 98 #if str($pfeatextencoding):
59 --p-feat-ext--encoding="$pfeatextencoding" 99 --p-feat-ext--encoding="$pfeatextencoding"
60 #end if 100 #end if
61 101
102
103
104
105
106 #if '__sq__' in str($pfeatextinput):
107 #set $pfeatextinput_temp = $pfeatextinput.replace('__sq__', "'")
108 #set $pfeatextinput = $pfeatextinput_temp
109 #end if
110
62 #if str($pfeatextinput): 111 #if str($pfeatextinput):
63 --p-feat-ext--input="$pfeatextinput" 112 --p-feat-ext--input="$pfeatextinput"
64 #end if 113 #end if
65 114
115
116
117
66 #if $pnofeatextlowercase: 118 #if $pnofeatextlowercase:
67 --p-no-feat-ext--lowercase 119 --p-no-feat-ext--lowercase
68 #end if 120 #end if
69 121
70 #if $pfeatextnfeatures: 122 #if $pfeatextnfeatures:
71 --p-feat-ext--n-features=$pfeatextnfeatures 123 --p-feat-ext--n-features=$pfeatextnfeatures
124 #end if
125
126
127
128
129 #if '__sq__' in str($pfeatextngramrange):
130 #set $pfeatextngramrange_temp = $pfeatextngramrange.replace('__sq__', "'")
131 #set $pfeatextngramrange = $pfeatextngramrange_temp
72 #end if 132 #end if
73 133
74 #if '__ob__' in str($pfeatextngramrange): 134 #if '__ob__' in str($pfeatextngramrange):
75 #set $pfeatextngramrange_temp = $pfeatextngramrange.replace('__ob__', '[') 135 #set $pfeatextngramrange_temp = $pfeatextngramrange.replace('__ob__', '[')
76 #set $pfeatextngramrange = $pfeatextngramrange_temp 136 #set $pfeatextngramrange = $pfeatextngramrange_temp
83 #if str($pfeatextngramrange): 143 #if str($pfeatextngramrange):
84 --p-feat-ext--ngram-range="$pfeatextngramrange" 144 --p-feat-ext--ngram-range="$pfeatextngramrange"
85 #end if 145 #end if
86 146
87 147
148
149
150
88 #if $pfeatextnonnegative: 151 #if $pfeatextnonnegative:
89 --p-feat-ext--non-negative 152 --p-feat-ext--non-negative
90 #end if 153 #end if
91 154
155
156 #if '__sq__' in str($pfeatextnorm):
157 #set $pfeatextnorm_temp = $pfeatextnorm.replace('__sq__', "'")
158 #set $pfeatextnorm = $pfeatextnorm_temp
159 #end if
160
92 #if str($pfeatextnorm): 161 #if str($pfeatextnorm):
93 --p-feat-ext--norm="$pfeatextnorm" 162 --p-feat-ext--norm="$pfeatextnorm"
94 #end if 163 #end if
95 164
165
166
167
168 #if '__sq__' in str($pfeatextpreprocessor):
169 #set $pfeatextpreprocessor_temp = $pfeatextpreprocessor.replace('__sq__', "'")
170 #set $pfeatextpreprocessor = $pfeatextpreprocessor_temp
171 #end if
172
96 #if str($pfeatextpreprocessor): 173 #if str($pfeatextpreprocessor):
97 --p-feat-ext--preprocessor="$pfeatextpreprocessor" 174 --p-feat-ext--preprocessor="$pfeatextpreprocessor"
98 #end if 175 #end if
99 176
177
178
179
180 #if '__sq__' in str($pfeatextstopwords):
181 #set $pfeatextstopwords_temp = $pfeatextstopwords.replace('__sq__', "'")
182 #set $pfeatextstopwords = $pfeatextstopwords_temp
183 #end if
184
100 #if str($pfeatextstopwords): 185 #if str($pfeatextstopwords):
101 --p-feat-ext--stop-words="$pfeatextstopwords" 186 --p-feat-ext--stop-words="$pfeatextstopwords"
102 #end if 187 #end if
103 188
189
190
191
192
193 #if '__sq__' in str($pfeatextstripaccents):
194 #set $pfeatextstripaccents_temp = $pfeatextstripaccents.replace('__sq__', "'")
195 #set $pfeatextstripaccents = $pfeatextstripaccents_temp
196 #end if
197
104 #if str($pfeatextstripaccents): 198 #if str($pfeatextstripaccents):
105 --p-feat-ext--strip-accents="$pfeatextstripaccents" 199 --p-feat-ext--strip-accents="$pfeatextstripaccents"
200 #end if
201
202
203
204
205
206
207 #if '__sq__' in str($pfeatexttokenpattern):
208 #set $pfeatexttokenpattern_temp = $pfeatexttokenpattern.replace('__sq__', "'")
209 #set $pfeatexttokenpattern = $pfeatexttokenpattern_temp
106 #end if 210 #end if
107 211
108 #if '__ob__' in str($pfeatexttokenpattern): 212 #if '__ob__' in str($pfeatexttokenpattern):
109 #set $pfeatexttokenpattern_temp = $pfeatexttokenpattern.replace('__ob__', '[') 213 #set $pfeatexttokenpattern_temp = $pfeatexttokenpattern.replace('__ob__', '[')
110 #set $pfeatexttokenpattern = $pfeatexttokenpattern_temp 214 #set $pfeatexttokenpattern = $pfeatexttokenpattern_temp
111 #end if 215 #end if
216
112 #if 'X' in str($pfeatexttokenpattern): 217 #if 'X' in str($pfeatexttokenpattern):
113 #set $pfeatexttokenpattern_temp = $pfeatexttokenpattern.replace('X', '\\') 218 #set $pfeatexttokenpattern_temp = $pfeatexttokenpattern.replace('X', '\\')
114 #set $pfeatexttokenpattern = $pfeatexttokenpattern_temp 219 #set $pfeatexttokenpattern = $pfeatexttokenpattern_temp
115 #end if 220 #end if
116 221
117 #if str($pfeatexttokenpattern): 222 #if str($pfeatexttokenpattern):
118 --p-feat-ext--token-pattern="$pfeatexttokenpattern" 223 --p-feat-ext--token-pattern="$pfeatexttokenpattern"
119 #end if 224 #end if
120 225
226
227
228
229
230 #if '__sq__' in str($pfeatexttokenizer):
231 #set $pfeatexttokenizer_temp = $pfeatexttokenizer.replace('__sq__', "'")
232 #set $pfeatexttokenizer = $pfeatexttokenizer_temp
233 #end if
121 234
122 #if str($pfeatexttokenizer): 235 #if str($pfeatexttokenizer):
123 --p-feat-ext--tokenizer="$pfeatexttokenizer" 236 --p-feat-ext--tokenizer="$pfeatexttokenizer"
124 #end if 237 #end if
125 238
146 </when> 259 </when>
147 </conditional> 260 </conditional>
148 261
149 <param label="--p-classify--alpha: NUMBER [default: 0.001]" name="pclassifyalpha" optional="True" type="float" value="0.001"/> 262 <param label="--p-classify--alpha: NUMBER [default: 0.001]" name="pclassifyalpha" optional="True" type="float" value="0.001"/>
150 <param label="--p-classify--chunk-size: INTEGER [default: 20000]" name="pclassifychunksize" optional="True" type="integer" value="20000"/> 263 <param label="--p-classify--chunk-size: INTEGER [default: 20000]" name="pclassifychunksize" optional="True" type="integer" value="20000"/>
151 <param label="--p-classify--class-prior: TEXT [default: 'null']" name="pclassifyclassprior" optional="True" type="text" value="'null'"/> 264 <param label="--p-classify--class-prior: TEXT [default: 'null']" name="pclassifyclassprior" optional="True" type="text" value="null"/>
152 <param label="--p-classify--fit-prior: --p-no-classify--fit-prior [default: False]" name="pclassifyfitprior" selected="False" type="boolean"/> 265 <param label="--p-classify--fit-prior: --p-no-classify--fit-prior [default: False]" name="pclassifyfitprior" selected="False" type="boolean"/>
153 <param label="--p-feat-ext--alternate-sign: --p-no-feat-ext--alternate-sign [default: False]" name="pfeatextalternatesign" selected="False" type="boolean"/> 266 <param label="--p-feat-ext--alternate-sign: --p-no-feat-ext--alternate-sign [default: False]" name="pfeatextalternatesign" selected="False" type="boolean"/>
154 <param label="--p-feat-ext--analyzer: TEXT [default: 'char_wb']" name="pfeatextanalyzer" optional="True" type="text" value="'char_wb'"/> 267 <param label="--p-feat-ext--analyzer: TEXT [default: 'char_wb']" name="pfeatextanalyzer" optional="True" type="text" value="char_wb"/>
155 <param label="--p-feat-ext--binary: --p-no-feat-ext--binary [default: False]" name="pfeatextbinary" selected="False" type="boolean"/> 268 <param label="--p-feat-ext--binary: --p-no-feat-ext--binary [default: False]" name="pfeatextbinary" selected="False" type="boolean"/>
156 <param label="--p-feat-ext--decode-error: TEXT [default: 'strict']" name="pfeatextdecodeerror" optional="True" type="text" value="'strict'"/> 269 <param label="--p-feat-ext--decode-error: TEXT [default: 'strict']" name="pfeatextdecodeerror" optional="True" type="text" value="strict"/>
157 <param label="--p-feat-ext--encoding: TEXT [default: 'utf-8']" name="pfeatextencoding" optional="True" type="text" value="'utf-8'"/> 270 <param label="--p-feat-ext--encoding: TEXT [default: 'utf-8']" name="pfeatextencoding" optional="True" type="text" value="utf-8"/>
158 <param label="--p-feat-ext--input: TEXT [default: 'content']" name="pfeatextinput" optional="True" type="text" value="'content'"/> 271 <param label="--p-feat-ext--input: TEXT [default: 'content']" name="pfeatextinput" optional="True" type="text" value="content"/>
159 <param label="--p-no-feat-ext--lowercase: [default: False]" name="pnofeatextlowercase" selected="False" type="boolean"/> 272 <param label="--p-no-feat-ext--lowercase: [default: False]" name="pnofeatextlowercase" selected="False" type="boolean"/>
160 <param label="--p-feat-ext--n-features: INTEGER [default: 8192]" name="pfeatextnfeatures" optional="True" type="integer" value="8192"/> 273 <param label="--p-feat-ext--n-features: INTEGER [default: 8192]" name="pfeatextnfeatures" optional="True" type="integer" value="8192"/>
161 <param label="--p-feat-ext--ngram-range: TEXT [default: '[7, 7]']" name="pfeatextngramrange" optional="True" type="text" value="'[7, 7]"/> 274 <param label="--p-feat-ext--ngram-range: TEXT [default: '[7, 7]']" name="pfeatextngramrange" optional="True" type="text" value="[7, 7]"/>
162 <param label="--p-feat-ext--non-negative: --p-no-feat-ext--non-negative [default: False]" name="pfeatextnonnegative" selected="False" type="boolean"/> 275 <param label="--p-feat-ext--non-negative: --p-no-feat-ext--non-negative [default: False]" name="pfeatextnonnegative" selected="False" type="boolean"/>
163 <param label="--p-feat-ext--norm: TEXT [default: 'l2']" name="pfeatextnorm" optional="True" type="text" value="'l2'"/> 276 <param label="--p-feat-ext--norm: TEXT [default: 'l2']" name="pfeatextnorm" optional="True" type="text" value="l2"/>
164 <param label="--p-feat-ext--preprocessor: TEXT [default: 'null']" name="pfeatextpreprocessor" optional="True" type="text" value="'null'"/> 277 <param label="--p-feat-ext--preprocessor: TEXT [default: 'null']" name="pfeatextpreprocessor" optional="True" type="text" value="null"/>
165 <param label="--p-feat-ext--stop-words: TEXT [default: 'null']" name="pfeatextstopwords" optional="True" type="text" value="'null'"/> 278 <param label="--p-feat-ext--stop-words: TEXT [default: 'null']" name="pfeatextstopwords" optional="True" type="text" value="null"/>
166 <param label="--p-feat-ext--strip-accents: TEXT [default: 'null']" name="pfeatextstripaccents" optional="True" type="text" value="'null'"/> 279 <param label="--p-feat-ext--strip-accents: TEXT [default: 'null']" name="pfeatextstripaccents" optional="True" type="text" value="null"/>
167 <param label="--p-feat-ext--token-pattern: TEXT [default: '(?u)\\b\\w\\w+\\b']" name="pfeatexttokenpattern" optional="True" type="text" value="'(?u)\\b\\w\\w+\\b'"/> 280 <param label="--p-feat-ext--token-pattern: TEXT [default: '(?u)\\b\\w\\w+\\b']" name="pfeatexttokenpattern" optional="True" type="text" value="(?u)\\b\\w\\w+\\b"/>
168 <param label="--p-feat-ext--tokenizer: TEXT [default: 'null']" name="pfeatexttokenizer" optional="True" type="text" value="'null'"/> 281 <param label="--p-feat-ext--tokenizer: TEXT [default: 'null']" name="pfeatexttokenizer" optional="True" type="text" value="null"/>
169 </inputs> 282 </inputs>
170 <outputs> 283 <outputs>
171 <data format="qza" label="${tool.name} on ${on_string}: classifier.qza" name="oclassifier"/> 284 <data format="qza" label="${tool.name} on ${on_string}: classifier.qza" name="oclassifier"/>
172 </outputs> 285 </outputs>
173 <help><![CDATA[ 286 <help><![CDATA[