Mercurial > repos > iuc > data_manager_star_index_builder
comparison data_manager/rna_star_index_builder.xml @ 5:f5eb9afa8f8a draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_star_index_builder commit 9b68f6ae375aed38493f8399b8572347c750336d
author | iuc |
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date | Thu, 15 Aug 2019 11:30:16 -0400 |
parents | 6ef6520f14fc |
children | 64deddb6a8ec |
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4:6ef6520f14fc | 5:f5eb9afa8f8a |
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1 <tool id="rna_star_index_builder_data_manager" name="rnastar index2" tool_type="manage_data" version="0.0.5" profile="17.01"> | 1 <tool id="rna_star_index_builder_data_manager" name="rnastar index2" tool_type="manage_data" version="2.7.1a" profile="17.01"> |
2 <description>builder</description> | 2 <description>builder</description> |
3 | 3 |
4 <macros> | 4 <macros> |
5 <import>macros.xml</import> | 5 <import>macros.xml</import> |
6 </macros> | 6 </macros> |
39 | 39 |
40 python '${__tool_directory__}/rna_star_index_builder.py' | 40 python '${__tool_directory__}/rna_star_index_builder.py' |
41 --config-file '${out_file}' | 41 --config-file '${out_file}' |
42 --value '${all_fasta_source.fields.value}' | 42 --value '${all_fasta_source.fields.value}' |
43 --dbkey '${all_fasta_source.fields.dbkey}' | 43 --dbkey '${all_fasta_source.fields.dbkey}' |
44 --index-version '@IDX_VERSION@' | |
44 #if $name: | 45 #if $name: |
45 --name '$name' | 46 --name '$name' |
46 #else | 47 #else |
47 --name '${all_fasta_source.fields.name}' | 48 --name '${all_fasta_source.fields.name}' |
48 #end if | 49 #end if |
49 #if str($GTFconditional.GTFselect) == "withGTF": | 50 #if str($GTFconditional.GTFselect) == "withGTF": |
50 --withGTF 1 | 51 --with-gene-model |
51 #end if | 52 #end if |
52 --data-table rnastar_index2 | 53 --data-table rnastar_index2_versioned |
53 --subdir '${subdir}' | 54 --subdir '${subdir}' |
54 ]]></command> | 55 ]]></command> |
55 <inputs> | 56 <inputs> |
56 <param name="all_fasta_source" type="select" label="Source FASTA Sequence"> | 57 <param name="all_fasta_source" type="select" label="Source FASTA Sequence"> |
57 <options from_data_table="all_fasta"/> | 58 <options from_data_table="all_fasta"/> |