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comparison sortmerna.xml @ 19:4f476a49f079 draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/sortmerna commit 044a991b45c9135339daf138929887cd8e93a1bf-dirty
author bebatut
date Mon, 12 Jun 2017 08:06:02 -0400
parents 63e6d7aefbe6
children
comparison
equal deleted inserted replaced
18:63e6d7aefbe6 19:4f476a49f079
33 #for $db in $databases_type.database_name 33 #for $db in $databases_type.database_name
34 #set $ref += $sep + str($db) + ',' + $os.path.splitext($os.path.basename(str($db)))[0] 34 #set $ref += $sep + str($db) + ',' + $os.path.splitext($os.path.basename(str($db)))[0]
35 #set $sep = ':' 35 #set $sep = ':'
36 #end for 36 #end for
37 #else if str( $databases_type.databases_selector ) == 'cached_to_index' 37 #else if str( $databases_type.databases_selector ) == 'cached_to_index'
38 ## databases path is not directly accessible, must match by hand with LOC file contents
39 #set $data_table = dict([(_[0], _[2]) for _ in $databases_type.input_databases.input.options.tool_data_table.data])
40 #for $db in $databases_type.input_databases.fields.path.split(",") 38 #for $db in $databases_type.input_databases.fields.path.split(",")
41 #set $ref += $sep + $db + '.fasta,' + $db + '-reindexed' 39 #set $ref += $sep + $db + ',' + $os.path.splitext($db)[0] + '-reindexed'
42 #set $sep = ':' 40 #set $sep = ':'
43 #end for 41 #end for
44 #else: 42 #else
45 ## databases path is not directly accessible, must match by hand with LOC file contents
46 #set $data_table = dict([(_[0], _[2]) for _ in $databases_type.input_databases.input.options.tool_data_table.data])
47 #for $db in $databases_type.input_databases.fields.path.split(",") 43 #for $db in $databases_type.input_databases.fields.path.split(",")
48 #set $ref += $sep + $db + '.fasta,' + $db 44 #set $ref += $sep + $db + ',' + $os.path.splitext($db)[0]
49 #set $sep = ':' 45 #set $sep = ':'
50 #end for 46 #end for
51 #end if 47 #end if
52 48
53 #if str( $databases_type.databases_selector ) != 'cached': 49 #if str( $databases_type.databases_selector ) != 'cached':