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comparison ideas.xml @ 29:06522a4aae6d draft

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Uploaded
author greg
date Mon, 14 Aug 2017 10:56:44 -0400
parents 91dc2a532890
children 1d854705de39
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28:91dc2a532890 29:06522a4aae6d
53 #set standardize_datasets = $standardize_datasets_cond.standardize_datasets 53 #set standardize_datasets = $standardize_datasets_cond.standardize_datasets
54 #if str($standardize_datasets) == 'yes': 54 #if str($standardize_datasets) == 'yes':
55 -norm 55 -norm
56 #end if 56 #end if
57 ############################################## 57 ##############################################
58 ## Conform the prepMat config output to the 58 ## Coerce the prepMat config output to the
59 ## format expected by the R matrix builder. 59 ## format expected by the R matrix builder.
60 ############################################## 60 ##############################################
61 && cut -d' ' $prep_input_config -f1,2 > file1.txt 61 && cut -d' ' $prep_input_config -f1,2 > file1.txt
62 && ls -p tmp/ | grep ".bed.gz" > file2.txt 62 && ls tmp/*.bed.gz > file2.txt
63 && paste <(cat file1.txt) <(cat file2.txt) > $prep_output_config 63 && paste <(cat file1.txt) <(cat file2.txt) > $prep_output_config
64 ############################################## 64 ##############################################
65 ## Build the R matrix from the prepMat output 65 ## Build the R matrix from the prepMat output
66 ############################################## 66 ##############################################
67 ##&& Rscript '$__tool_directory__/build_matrix.R' 67 ##&& Rscript '$__tool_directory__/build_matrix.R'