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comparison qiime2/qiime_quality-control_exclude-seqs.xml @ 5:a025a4a89e07 draft

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Uploaded
author florianbegusch
date Mon, 05 Aug 2019 01:29:30 -0400
parents 370e0b6e9826
children f190567fe3f6
comparison
equal deleted inserted replaced
4:914fa4daf16a 5:a025a4a89e07
12 12
13 #if str($pmethod) != 'None': 13 #if str($pmethod) != 'None':
14 --p-method=$pmethod 14 --p-method=$pmethod
15 #end if 15 #end if
16 16
17 #if $ppercidentity: 17 #if str($ppercidentity):
18 --p-perc-identity=$ppercidentity 18 --p-perc-identity=$ppercidentity
19 #end if 19 #end if
20 20
21 #if str($pevalue): 21 #if str($pevalue):
22 --p-evalue="$pevalue" 22 --p-evalue="$pevalue"
23 #end if 23 #end if
24 24
25 #if $ppercqueryaligned: 25 #if str($ppercqueryaligned):
26 --p-perc-query-aligned=$ppercqueryaligned 26 --p-perc-query-aligned=$ppercqueryaligned
27 #end if 27 #end if
28 28
29 #set $pthreads = '${GALAXY_SLOTS:-4}' 29 #set $pthreads = '${GALAXY_SLOTS:-4}'
30 #if str($pthreads): 30 #if str($pthreads):
45 <option value="blast">blast</option> 45 <option value="blast">blast</option>
46 <option value="vsearch">vsearch</option> 46 <option value="vsearch">vsearch</option>
47 <option value="blastn-short">blastn-short</option> 47 <option value="blastn-short">blastn-short</option>
48 </param> 48 </param>
49 <param label="--p-perc-identity: PROPORTION Range(0.0, 1.0, inclusive_end=True) Reject match if percent identity to reference is lower. Must be in range [0.0, 1.0] [default: 0.97]" name="ppercidentity" optional="True" type="float" value="0.97" min="0" max="1" exclusive_end="False"/> 49 <param label="--p-perc-identity: PROPORTION Range(0.0, 1.0, inclusive_end=True) Reject match if percent identity to reference is lower. Must be in range [0.0, 1.0] [default: 0.97]" name="ppercidentity" optional="True" type="float" value="0.97" min="0" max="1" exclusive_end="False"/>
50 <param label="--p-evalue: NUMBER BLAST expectation (E) value threshold for saving hits. Reject if E value is higher than threshold. This threshold is disabled by default. [optional]" name="pevalue" optional="True" type="text"/> 50 <param label="--p-evalue: NUMBER BLAST expectation (E) value threshold for saving hits. Reject if E value is higher than threshold. This threshold is disabled by default. [optional]" name="pevalue" optional="True" type="float"/>
51 <param label="--p-perc-query-aligned: NUMBER Percent of query sequence that must align to reference in order to be accepted as a hit. [default: 0.97]" name="ppercqueryaligned" optional="True" type="float" value="0.97"/> 51 <param label="--p-perc-query-aligned: NUMBER Percent of query sequence that must align to reference in order to be accepted as a hit. [default: 0.97]" name="ppercqueryaligned" optional="True" type="float" value="0.97"/>
52 </inputs> 52 </inputs>
53 <outputs> 53 <outputs>
54 <data format="qza" label="${tool.name} on ${on_string}: sequencehits.qza" name="osequencehits"/> 54 <data format="qza" label="${tool.name} on ${on_string}: sequencehits.qza" name="osequencehits"/>
55 <data format="qza" label="${tool.name} on ${on_string}: sequencemisses.qza" name="osequencemisses"/> 55 <data format="qza" label="${tool.name} on ${on_string}: sequencemisses.qza" name="osequencemisses"/>