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Commit b2b91ce9 authored by Gervaise Henry's avatar Gervaise Henry :cowboy:
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Update bagit to bag in createTestData

parent 5a7daad9
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2 merge requests!43Develop,!420.0.3
......@@ -9,12 +9,12 @@ mkdir -p NEW_test_data
ln -sfn `readlink -e ./test_data/auth/credential.json` ~/.deriva/credential.json
mkdir -p ./NEW_test_data/bagit
mkdir -p ./NEW_test_data/bag
singularity run 'docker://bicf/gudmaprbkfilexfer:1.3' deriva-download-cli dev.gudmap.org --catalog 2 ./workflow/conf/replicate_export_config.json . rid=Q-Y5F6
cp Replicate_Q-Y5F6.zip ./NEW_test_data/bagit/Replicate_Q-Y5F6.zip
cp Replicate_Q-Y5F6.zip ./NEW_test_data/bag/Replicate_Q-Y5F6.zip
mkdir -p ./NEW_test_data/fastq
unzip ./test_data/bagit/Replicate_Q-Y5F6.zip
unzip ./test_data/bag/Replicate_Q-Y5F6.zip
singularity run 'docker://bicf/gudmaprbkfilexfer:1.3' bash ./workflow/scripts/bdbagFetch.sh Replicate_Q-Y5F6 Replicate_Q-Y5F6
cp Replicate_Q-Y5F6.R1.fastq.gz ./NEW_test_data/fastq/Replicate_Q-Y5F6.R1.fastq.gz
cp Replicate_Q-Y5F6.R2.fastq.gz ./NEW_test_data/fastq/Replicate_Q-Y5F6.R2.fastq.gz
......
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