diff --git a/tests/test_10.sh b/tests/test_10.sh index 9bcd8c9..18bb6bb 100644 --- a/tests/test_10.sh +++ b/tests/test_10.sh @@ -6,7 +6,7 @@ output=output/test10 nextflow main.nf -profile test,conda --output $output \ --input_name sample_name \ ---input_tumor_bam test_data/SRR8244887.preprocessed.downsampled.bam \ ---input_normal_bam test_data/SRR8244836.preprocessed.downsampled.bam +--input_tumor_bam `pwd`/test_data/SRR8244887.preprocessed.downsampled.bam \ +--input_normal_bam `pwd`/test_data/SRR8244836.preprocessed.downsampled.bam test -s $output/sample_name/sample_name.mutect2.vcf || { echo "Missing output VCF file!"; exit 1; } \ No newline at end of file