Mercurial > repos > kkonganti > cfsan_centriflaken

comparison cfsan_centriflaken.xml @ 71:783721d5b326

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"planemo upload"
author kkonganti
date Wed, 13 Jul 2022 14:14:38 -0400
parents 4e72dfe54475
children 306431b9bf86
comparison
equal deleted inserted replaced
70:4e72dfe54475 71:783721d5b326
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 ln -sf '$pair.forward' './cpipes-input/$read_R1.name';
21 ln -sf '$pair.reverse' './cpipes-input/${read_R2.name}'; 21 ln -sf '$pair.reverse' './cpipes-input/$read_R2.name';
22 #end for 22 #end for
23 #end if 23 #end if
24 $__tool_directory__/0.2.1/cpipes 24 $__tool_directory__/0.2.1/cpipes
25 --pipeline $input_read_type_cond.pipeline_cond.pipeline 25 --pipeline $input_read_type_cond.pipeline_cond.pipeline
26 #if ($input_read_type_cond.pipeline_cond.pipeline == "centriflaken"): 26 #if ($input_read_type_cond.pipeline_cond.pipeline == "centriflaken"):