Mercurial > repos > marie-tremblay-metatoul > normalization

view test-normalization.sh @ 6:221cbd549c40 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/workflow4metabolomics/normalization commit 4bbd4d65e954192aff1a4d210001deb625667136
author workflow4metabolomics
date Tue, 30 Jul 2019 09:43:57 -0400
parents
children
line wrap: on
line source

#!/bin/bash

# Variables
script_dir="${0%/*}"
normalization_script=$script_dir/galaxy/normalization/NmrNormalization_wrapper.R
data_dir=$script_dir/galaxy/normalization/test-data

# Run script
Rscript $normalization_script dataMatrix $data_dir/MTBLS1_bucketedData.tabular scalingMethod Total graphType Overlay logOut norm.log dataMatrixOut $script_dir/matrixout.tabular || exit 1

# Test output file
diff $data_dir/MTBLS1_bucketedData_normalized.tabular $script_dir/matrixout.tabular || exit 2