Mercurial > repos > lparsons > cutadapt

comparison macros.xml @ 20:e4691e1589d3 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cutadapt commit 59d42345d86e33e01aa50013f00f4dc0612d3de8
author iuc
date Mon, 08 Apr 2019 13:49:22 -0400
parents 49370cb85f0f
children 093678460093
comparison
equal deleted inserted replaced
19:49370cb85f0f 20:e4691e1589d3
46 46
47 #if $output_options.info_file: 47 #if $output_options.info_file:
48 --info-file=$info_file 48 --info-file=$info_file
49 #end if 49 #end if
50 #if $output_options.rest_file: 50 #if $output_options.rest_file:
51 --rest-file=$rest_output 51 --rest-file='${rest_output}'
52 #end if 52 #end if
53 #if $output_options.wildcard_file: 53 #if $output_options.wildcard_file:
54 --wildcard-file=$wild_output 54 --wildcard-file='${wild_output}'
55 #end if 55 #end if
56 #if $output_options.too_short_file: 56 #if $output_options.too_short_file:
57 --too-short-output=$too_short_output 57 --too-short-output='${too_short_output}'
58 #end if 58 #end if
59 #if $output_options.too_long_file: 59 #if $output_options.too_long_file:
60 --too-long-output=$too_long_output 60 --too-long-output='${too_long_output}'
61 #end if 61 #end if
62 #if $output_options.untrimmed_file: 62 #if $output_options.untrimmed_file:
63 --untrimmed-output=$untrimmed_output 63 --untrimmed-output='${untrimmed_output}'
64 #end if 64 #end if
65 65
66 ]]></token> 66 ]]></token>
67 67
68 <token name="@read2_options@"><![CDATA[ 68 <token name="@read2_options@"><![CDATA[
108 #end if 108 #end if
109 109
110 ## Additional Outputs - Read 2 110 ## Additional Outputs - Read 2
111 111
112 #if $output_options.too_short_file: 112 #if $output_options.too_short_file:
113 --too-short-paired-output=$too_short_paired_output 113 --too-short-paired-output='${too_short_paired_output}'
114 #end if 114 #end if
115 #if $output_options.too_long_file: 115 #if $output_options.too_long_file:
116 --too-long-paired-output=$too_long_paired_output 116 --too-long-paired-output='${too_long_paired_output}'
117 #end if 117 #end if
118 #if $output_options.untrimmed_file: 118 #if $output_options.untrimmed_file:
119 --untrimmed-paired-output=$untrimmed_paired_output 119 --untrimmed-paired-output='${untrimmed_paired_output}'
120 #end if 120 #end if
121 121
122 ]]></token> 122 ]]></token>
123 123
124 <xml name="single_end_options" > 124 <xml name="single_end_options" >