Mercurial > repos > kkonganti > cfsan_centriflaken

comparison cfsan_centriflaken.xml @ 72:306431b9bf86

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"planemo upload"
author kkonganti
date Wed, 13 Jul 2022 14:17:13 -0400
parents 783721d5b326
children 61b7ab692529
comparison
equal deleted inserted replaced
71:783721d5b326 72:306431b9bf86
15 #end for 15 #end for
16 #elif (str($input_read_type_cond.input_read_type) == "paired"): 16 #elif (str($input_read_type_cond.input_read_type) == "paired"):
17 #for _, $pair in enumerate($input_read_type_cond.input_pair) 17 #for _, $pair in enumerate($input_read_type_cond.input_pair)
18 #set $read_R1 = os.path.basename(str($pair.forward)) 18 #set $read_R1 = os.path.basename(str($pair.forward))
19 #set $read_R2 = os.path.basename(str($pair.reverse)) 19 #set $read_R2 = os.path.basename(str($pair.reverse))
20 ln -sf '$pair.forward' './cpipes-input/$read_R1.name'; 20 #set $read_R1_name = str($read_R1.name)
21 ln -sf '$pair.reverse' './cpipes-input/$read_R2.name'; 21 #set $read_R2_name = str($read_R2.name)
22 ln -sf '$pair.forward' './cpipes-input/$read_R1_name';
23 ln -sf '$pair.reverse' './cpipes-input/$read_R2_name';
22 #end for 24 #end for
23 #end if 25 #end if
24 $__tool_directory__/0.2.1/cpipes 26 $__tool_directory__/0.2.1/cpipes
25 --pipeline $input_read_type_cond.pipeline_cond.pipeline 27 --pipeline $input_read_type_cond.pipeline_cond.pipeline
26 #if ($input_read_type_cond.pipeline_cond.pipeline == "centriflaken"): 28 #if ($input_read_type_cond.pipeline_cond.pipeline == "centriflaken"):