Mercurial > repos > kkonganti > cfsan_centriflaken

comparison cfsan_centriflaken.xml @ 68:44d4e4078aaa

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"planemo upload"
author kkonganti
date Wed, 13 Jul 2022 14:02:19 -0400
parents 04c9f550eb08
children 905def920829
comparison
equal deleted inserted replaced
67:04c9f550eb08 68:44d4e4078aaa
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 $key in $input_read_type_cond.input_pair.keys() 17 #for $key in $input_read_type_cond.input_pair.keys()
18 #set $read_R1 = os.path.basename(str($input_read_type_cond.input_pair[$key]['forward'])) 18 #set $read_R1 = os.path.basename(str($input_read_type_cond.input_pair[$key]['forward']))
19 #set $read_R2 = os.path.basename(str($input_read_type_cond.input_pair[$key]['reverse'])) 19 #set $read_R2 = os.path.basename(str($input_read_type_cond.input_pair[$key]['reverse']))
20 ln -sf "$input_read_type_cond.input_pair[$key]['forward']" './cpipes-input/$read_R1'; 20 ln -sf "$input_read_type_cond.input_pair[$key]['forward']" './cpipes-input/$key';
21 ln -sf "$input_read_type_cond.input_pair[$key]['reverse']" './cpipes-input/$read_R2'; 21 ln -sf "$input_read_type_cond.input_pair[$key]['reverse']" './cpipes-input/$key';
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"):