Mercurial > repos > rnateam > sortmerna

comparison sortmerna.xml @ 7:1eafcc450052 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/sortmerna commit 4241c1d4b05a177bd2c74f5a139f51d4f65e0b55
author rnateam
date Tue, 13 Jun 2017 10:41:34 -0400
parents 185effcdfb68
children 65c38d020fea
comparison
equal deleted inserted replaced
6:185effcdfb68 7:1eafcc450052
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 38 #for $db in $databases_type.input_databases.fields.path.split(",")
39 #set $data_table = dict([(_[0], _[2]) for _ in $databases_type.input_databases.input.options.tool_data_table.data]) 39 #set $ref += $sep + $db + ',' + $os.path.splitext($db)[0] + '-reindexed'
40 #for $db in $databases_type.input_databases.value
41 #set $ref += $sep + $data_table[$db] + '.fasta,' + $data_table[$db] + '-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 43 #for $db in $databases_type.input_databases.fields.path.split(",")
46 #set $data_table = dict([(_[0], _[2]) for _ in $databases_type.input_databases.input.options.tool_data_table.data]) 44 #set $ref += $sep + $db + ',' + $os.path.splitext($db)[0]
47 #for $db in $databases_type.input_databases.value
48 #set $ref += $sep + $data_table[$db] + '.fasta,' + $data_table[$db]
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':