Commit daac9650 authored by MARTIN Pierre's avatar MARTIN Pierre
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Update README.md

parent 55a074fc
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......@@ -24,7 +24,7 @@ To launch functional tests, you need to be located at the root of the folder whe
cd test_folder
python <metagwgs-src>/functional_tests/main.py -step 07_taxo_affi -exp_dir metagwgs-test-datasets-small/output -obs_dir ./results
```
- by providing a script which will launch the nextflow pipeline [see example](./launch_example.sh) (this example is designed for the "small" dataset with --min_contigs_cpm>1000, using slurm)
- by providing a script which will launch the nextflow pipeline [see example](./launch_example.sh) (this example is designed for the "small" dataset with --min_contigs_cpm = 1000, using slurm)
```
mkdir test_folder
cd test_folder
......@@ -32,6 +32,8 @@ cp <metagwgs-src>/functional_tests/launch_example.sh ./
python <metagwgs-src>/functional_tests/main.py -step 07_taxo_affi -exp_dir metagwgs-test-datasets-small/output -obs_dir ./results --script launch_example.sh
```
For mag dataset, use --min_contigs_cpm = 10 in nextflow.config or in launch_example.sh
## III. Output
A ft_\[step\].log file is created for each step of metagwgs. It contains information about each test performed on given files.
......
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