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add nextflow d30e48d

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Kevin
2026-04-29 23:01:54 +02:00
parent d0b12d668d
commit 97cc9058d3
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34
nextflow/tests/checks/process-entry.nf/.checks Executable file
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set -e
#
# Test single process auto-execution with parameter mapping
#
echo ''
echo '=== Testing single process auto-execution ==='
$NXF_RUN --sampleId "SAMPLE_001" --dataFile "../../data/sample_data.txt" --threads "4" | tee stdout
# Check that the process executed successfully
[[ `grep 'INFO' .nextflow.log | grep -c 'Submitted process > analyzeData'` == 1 ]] || false
# Check that all parameters were properly mapped and used
[[ `grep -c 'Single process execution test' stdout` == 1 ]] || false
[[ `grep -c 'Sample ID: SAMPLE_001' stdout` == 1 ]] || false
[[ `grep -c 'Data file: sample_data.txt' stdout` == 1 ]] || false
[[ `grep -c 'Threads: 4' stdout` == 1 ]] || false
[[ `grep -c 'Processing file with 4 threads' stdout` == 1 ]] || false
[[ `grep -c 'Analysis completed for sample SAMPLE_001' stdout` == 1 ]] || false
# Check that file processing worked (5 lines in sample_data.txt)
[[ `grep -c '5 sample_data.txt' stdout` == 1 ]] || false
#
# Test with relative path
#
echo ''
echo '=== Testing single process with relative path ==='
rm -f .nextflow.log # Clear log for clean test
$NXF_RUN --sampleId "REL_TEST" --dataFile "../../data/sample_data.txt" --threads "2" | tee stdout2
[[ `grep 'INFO' .nextflow.log | grep -c 'Submitted process > analyzeData'` == 1 ]] || false
[[ `grep -c 'Sample ID: REL_TEST' stdout2` == 1 ]] || false
[[ `grep -c 'Threads: 2' stdout2` == 1 ]] || false