Mercurial > repos > florianbegusch > qiime2_suite
comparison qiime2/qiime_cutadapt_trim-paired.xml @ 4:914fa4daf16a draft
Fixes
author | florianbegusch |
---|---|
date | Wed, 31 Jul 2019 03:06:00 -0400 |
parents | 370e0b6e9826 |
children | a025a4a89e07 |
comparison
equal
deleted
inserted
replaced
3:558645416841 | 4:914fa4daf16a |
---|---|
12 #set $pcores = '${GALAXY_SLOTS:-4}' | 12 #set $pcores = '${GALAXY_SLOTS:-4}' |
13 #if str($pcores): | 13 #if str($pcores): |
14 --p-cores=$pcores | 14 --p-cores=$pcores |
15 #end if | 15 #end if |
16 | 16 |
17 | |
18 | |
19 #if '__sq__' in str($padapterf): | |
20 #set $padapterf_temp = $padapterf.replace('__sq__', "'") | |
21 #set $padapterf = $padapterf_temp | |
22 #end if | |
23 | |
24 #if 'X' in str($padapterf): | |
25 #set $padapterf_temp = $padapterf.replace('X', "$") | |
26 #set $padapterf = $padapterf_temp | |
27 #end if | |
28 | |
17 #if str($padapterf): | 29 #if str($padapterf): |
18 --p-adapter-f="$padapterf" | 30 --p-adapter-f="$padapterf" |
19 #end if | 31 #end if |
20 | 32 |
33 | |
34 | |
35 | |
36 #if '__sq__' in str($pfrontf): | |
37 #set $pfrontf_temp = $pfrontf.replace('__sq__', "'") | |
38 #set $pfrontf = $pfrontf_temp | |
39 #end if | |
40 | |
21 #if str($pfrontf): | 41 #if str($pfrontf): |
22 --p-front-f="$pfrontf" | 42 --p-front-f="$pfrontf" |
23 #end if | 43 #end if |
44 | |
45 | |
46 | |
24 | 47 |
25 #if '__sq__' in str($panywheref): | 48 #if '__sq__' in str($panywheref): |
26 #set $panywheref_temp = $panywheref.replace('__sq__', "'") | 49 #set $panywheref_temp = $panywheref.replace('__sq__', "'") |
27 #set $panywheref = $panywheref_temp | 50 #set $panywheref = $panywheref_temp |
28 #end if | 51 #end if |
30 #if str($panywheref): | 53 #if str($panywheref): |
31 --p-anywhere-f="$panywheref" | 54 --p-anywhere-f="$panywheref" |
32 #end if | 55 #end if |
33 | 56 |
34 | 57 |
58 | |
59 | |
60 | |
61 #if '__sq__' in str($padapterr): | |
62 #set $padapterr_temp = $padapterr.replace('__sq__', "'") | |
63 #set $padapterr = $padapterr_temp | |
64 #end if | |
65 | |
66 #if 'X' in str($padapterr): | |
67 #set $padapterr_temp = $padapterr.replace('X', "$") | |
68 #set $padapterr = $padapterr_temp | |
69 #end if | |
70 | |
35 #if str($padapterr): | 71 #if str($padapterr): |
36 --p-adapter-r="$padapterr" | 72 --p-adapter-r="$padapterr" |
37 #end if | 73 #end if |
38 | 74 |
75 | |
76 | |
77 #if '__sq__' in str($pfrontr): | |
78 #set $pfrontr_temp = $pfrontr.replace('__sq__', "'") | |
79 #set $pfrontr = $pfrontr_temp | |
80 #end if | |
81 | |
39 #if str($pfrontr): | 82 #if str($pfrontr): |
40 --p-front-r="$pfrontr" | 83 --p-front-r="$pfrontr" |
41 #end if | 84 #end if |
85 | |
86 | |
42 | 87 |
43 #if '__sq__' in str($panywherer): | 88 #if '__sq__' in str($panywherer): |
44 #set $panywherer_temp = $panywherer.replace('__sq__', "'") | 89 #set $panywherer_temp = $panywherer.replace('__sq__', "'") |
45 #set $panywherer = $panywherer_temp | 90 #set $panywherer = $panywherer_temp |
46 #end if | 91 #end if |
47 | 92 |
48 #if str($panywherer): | 93 #if str($panywherer): |
49 --p-anywhere-r="$panywherer" | 94 --p-anywhere-r="$panywherer" |
50 #end if | 95 #end if |
96 | |
97 | |
51 | 98 |
52 #if $perrorrate: | 99 #if $perrorrate: |
53 --p-error-rate=$perrorrate | 100 --p-error-rate=$perrorrate |
54 #end if | 101 #end if |
55 | 102 |