Mercurial > repos > marie-tremblay-metatoul > normalization
comparison test-normalization.sh @ 6:221cbd549c40 draft default tip
planemo upload for repository https://github.com/workflow4metabolomics/normalization commit 4bbd4d65e954192aff1a4d210001deb625667136
| author | workflow4metabolomics |
|---|---|
| date | Tue, 30 Jul 2019 09:43:57 -0400 |
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| 5:3d00a98974b7 | 6:221cbd549c40 |
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| 1 #!/bin/bash | |
| 2 | |
| 3 # Variables | |
| 4 script_dir="${0%/*}" | |
| 5 normalization_script=$script_dir/galaxy/normalization/NmrNormalization_wrapper.R | |
| 6 data_dir=$script_dir/galaxy/normalization/test-data | |
| 7 | |
| 8 # Run script | |
| 9 Rscript $normalization_script dataMatrix $data_dir/MTBLS1_bucketedData.tabular scalingMethod Total graphType Overlay logOut norm.log dataMatrixOut $script_dir/matrixout.tabular || exit 1 | |
| 10 | |
| 11 # Test output file | |
| 12 diff $data_dir/MTBLS1_bucketedData_normalized.tabular $script_dir/matrixout.tabular || exit 2 |