Mercurial > repos > iuc > colibread_lordec
comparison lordec.xml @ 5:6322de5e24e5 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 7ea9a5c6d9e7212c38be96baa6615af1ea9d5a8e"
| author | iuc |
|---|---|
| date | Tue, 13 Oct 2020 21:38:11 +0000 |
| parents | 435a98f01ae9 |
| children | a32b531f66a0 |
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| 4:435a98f01ae9 | 5:6322de5e24e5 |
|---|---|
| 1 <?xml version='1.0' encoding='utf-8'?> | 1 <?xml version='1.0' encoding='utf-8'?> |
| 2 <tool profile="16.04" id="lordec" name="Lordec" version="0.9"> | 2 <tool profile="16.04" id="lordec" name="Lordec" version="0.9+galaxy1"> |
| 3 <description>is a set a programs for correcting sequencing errors in PacBio reads</description> | 3 <description>is a set a programs for correcting sequencing errors in PacBio reads</description> |
| 4 <macros> | 4 <macros> |
| 5 <import>macros.xml</import> | 5 <import>macros.xml</import> |
| 6 </macros> | 6 </macros> |
| 7 <requirements> | 7 <requirements> |
| 14 @lordec_inputs@ | 14 @lordec_inputs@ |
| 15 #if str( $program_type_choice.advanced_options.advanced_options_selector ) == "advanced" | 15 #if str( $program_type_choice.advanced_options.advanced_options_selector ) == "advanced" |
| 16 -t ${program_type_choice.advanced_options.t} | 16 -t ${program_type_choice.advanced_options.t} |
| 17 -b ${program_type_choice.advanced_options.b} | 17 -b ${program_type_choice.advanced_options.b} |
| 18 -e ${program_type_choice.advanced_options.e} | 18 -e ${program_type_choice.advanced_options.e} |
| 19 -T ${program_type_choice.advanced_options.T} | |
| 20 #end if | 19 #end if |
| 20 -T \${GALAXY_SLOTS:-1} | |
| 21 -o '${corrected_read_file}' | 21 -o '${corrected_read_file}' |
| 22 | 22 |
| 23 | 23 |
| 24 #else if str( $program_type_choice.program_type ) == "trim" | 24 #else if str( $program_type_choice.program_type ) == "trim" |
| 25 #if $program_type_choice.split | 25 #if $program_type_choice.split |
| 58 <when value="default"></when> | 58 <when value="default"></when> |
| 59 <when value="advanced"> | 59 <when value="advanced"> |
| 60 <param argument="-t" type="integer" label="Number of target k-mers" value="5" /> | 60 <param argument="-t" type="integer" label="Number of target k-mers" value="5" /> |
| 61 <param argument="-b" type="integer" label="Maximum number of branches to explore" value="200" /> | 61 <param argument="-b" type="integer" label="Maximum number of branches to explore" value="200" /> |
| 62 <param argument="-e" type="float" label="Maximum error rate" value="0.4" /> | 62 <param argument="-e" type="float" label="Maximum error rate" value="0.4" /> |
| 63 <param argument="-T" type="integer" label="Number of threads" value="1" /> | |
| 64 </when> | 63 </when> |
| 65 </conditional> | 64 </conditional> |
| 66 </when> | 65 </when> |
| 67 | 66 |
| 68 <when value="trim"> | 67 <when value="trim"> |