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comparison qiime2/qiime_deblur_denoise-16S.xml @ 6:de4c22a52df4 draft

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Fixes
author florianbegusch
date Tue, 13 Aug 2019 07:46:48 -0400
parents 370e0b6e9826
children f190567fe3f6
comparison
equal deleted inserted replaced
5:a025a4a89e07 6:de4c22a52df4
6 </requirements> 6 </requirements>
7 <command><![CDATA[ 7 <command><![CDATA[
8 qiime deblur denoise-16S 8 qiime deblur denoise-16S
9 9
10 --i-demultiplexed-seqs=$idemultiplexedseqs 10 --i-demultiplexed-seqs=$idemultiplexedseqs
11 --p-trim-length="$ptrimlength"
12 11
13 #if $plefttrimlen: 12
13
14 #if str($ptrimlength):
15 --p-trim-length=$ptrimlength
16 #end if
17
18 #if str($plefttrimlen):
14 --p-left-trim-len=$plefttrimlen 19 --p-left-trim-len=$plefttrimlen
15 #end if 20 #end if
16 21
17 #if $psamplestats: 22 #if str($psamplestats):
18 --p-sample-stats 23 --p-sample-stats
19 #end if 24 #end if
20 25
21 #if $pmeanerror: 26 #if str($pmeanerror):
22 --p-mean-error=$pmeanerror 27 --p-mean-error=$pmeanerror
23 #end if 28 #end if
24 29
25 #if $pindelprob: 30 #if str($pindelprob):
26 --p-indel-prob=$pindelprob 31 --p-indel-prob=$pindelprob
27 #end if 32 #end if
28 33
29 #if $pindelmax: 34 #if str($pindelmax):
30 --p-indel-max=$pindelmax 35 --p-indel-max=$pindelmax
31 #end if 36 #end if
32 37
33 #if $pminreads: 38 #if str($pminreads):
34 --p-min-reads=$pminreads 39 --p-min-reads=$pminreads
35 #end if 40 #end if
36 41
37 #if $pminsize: 42 #if str($pminsize):
38 --p-min-size=$pminsize 43 --p-min-size=$pminsize
39 #end if 44 #end if
40 45
41 #set $pjobstostart = '${GALAXY_SLOTS:-4}' 46 #set $pjobstostart = '${GALAXY_SLOTS:-4}'
42 47
43 #if str($pjobstostart): 48 #if str($pjobstostart):
44 --p-jobs-to-start="$pjobstostart" 49 --p-jobs-to-start="$pjobstostart"
45 #end if 50 #end if
46 51
47 52
48 #if $pnohashedfeatureids: 53 #if str($pnohashedfeatureids):
49 --p-no-hashed-feature-ids 54 --p-no-hashed-feature-ids
50 #end if 55 #end if
51 56
52 --o-table=otable 57 --o-table=otable
53 --o-representative-sequences=orepresentativesequences 58 --o-representative-sequences=orepresentativesequences