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Simplify get-lcms-metab-test-data
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Lines changed: 1 addition & 13 deletions

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Makefile

Lines changed: 1 addition & 13 deletions
Original file line numberDiff line numberDiff line change
@@ -138,19 +138,7 @@ wdl-run-lipid-local:
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get-lcms-metab-test-data:
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@echo "Downloading test data for LC-MS metabolomics workflow"
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@mkdir -p test_data
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@for i in 1 2 3 4 5; do \
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echo "Download attempt $$i of 5..."; \
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if curl --retry 5 --retry-delay 10 --retry-max-time 600 --connect-timeout 60 --max-time 900 -L -o test_data/test_lcms_metab_data.zip https://nmdcdemo.emsl.pnl.gov/metabolomics/test_data/metams_lcms_metab_test_data/test_lcms_metab_data.zip; then \
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break; \
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else \
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echo "Download attempt $$i failed, waiting 30 seconds before retry..."; \
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sleep 30; \
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fi; \
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done
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@if [ ! -f test_data/test_lcms_metab_data.zip ]; then \
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echo "All download attempts failed"; \
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exit 1; \
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fi
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@curl --retry 3 --retry-delay 5 --connect-timeout 30 --max-time 300 -L -o test_data/test_lcms_metab_data.zip https://nmdcdemo.emsl.pnl.gov/metabolomics/test_data/metams_lcms_metab_test_data/test_lcms_metab_data.zip
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@unzip test_data/test_lcms_metab_data.zip -d test_data/
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@rm test_data/test_lcms_metab_data.zip
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@echo "Test data downloaded and unzipped"

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