Fix test profile to use GitHub URLs for test data#3
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tylergross97 merged 1 commit intoFeb 20, 2026
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Updated test samplesheet and config to reference GitHub raw URLs instead of relative paths. This ensures test data is accessible when running the pipeline on Seqera Platform. Changes: - Updated samplesheet.csv to use full GitHub raw URLs for FASTQ files - Updated nextflow.config test profile to use GitHub URLs for reference FASTAs - All test data now accessible via https://raw.githubusercontent.com/
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Problem
The test profile was failing on Seqera Platform because it referenced local relative paths for test data files:
Solution
Updated the test samplesheet and
nextflow.configto use GitHub raw URLs instead of relative paths, making test data accessible when running on cloud platforms.Changes
tests/data/xengsort/samplesheet.csvto use full GitHub raw URLs for all FASTQ filesnextflow.configtest profile to use GitHub URLs for:input(samplesheet.csv)hg38_fasta(human.fa)nsg_fasta(mouse.fa)Testing
The test profile should now work on Seqera Platform with:
nextflow run tylergross97/nextflow_xengsort -profile testAll test data is publicly accessible via
https://raw.githubusercontent.com/tylergross97/nextflow_xengsort/main/tests/data/xengsort/