From d2933d3f53fc39be7deffe9b89a618bd1c518970 Mon Sep 17 00:00:00 2001
From: Fontrodona Nicolas <nicolas.fontrodona@ens-lyon.fr>
Date: Thu, 20 Sep 2018 17:06:15 +0200
Subject: [PATCH] src/nf_modules/Hisat2/test/tests.sh : tests file
---
src/nf_modules/Hisat2/test/tests.sh | 21 +++++++++++++++++++++
1 file changed, 21 insertions(+)
create mode 100755 src/nf_modules/Hisat2/test/tests.sh
diff --git a/src/nf_modules/Hisat2/test/tests.sh b/src/nf_modules/Hisat2/test/tests.sh
new file mode 100755
index 00000000..261e9f2f
--- /dev/null
+++ b/src/nf_modules/Hisat2/test/tests.sh
@@ -0,0 +1,21 @@
+nextflow src/nf_modules/Hisat2/test/index.nf \
+ -c src/nf_modules/Hisat2/hisat2.config \
+ -profile docker \
+ --fasta "data/tiny_dataset/fasta/tiny_v2.fasta"
+
+nextflow src/nf_modules/Hisat2/test/mapping_paired.nf \
+ -c src/nf_modules/Hisat2/hisat2.config \
+ -profile docker \
+ --index "results/mapping/index/tiny_v2.index*" \
+ --fastq "data/tiny_dataset/fastq/tiny*_R{1,2}.fastq"
+
+nextflow src/nf_modules/Hisat2/test/mapping_single.nf \
+ -c src/nf_modules/Hisat2/hisat2.config \
+ -profile docker \
+ --index "results/mapping/index/tiny_v2.index*" \
+ --fastq "data/tiny_dataset/fastq/tiny*_S.fastq"
+
+nextflow src/nf_modules/Hisat2/test/bam_converter.nf \
+ -c src/nf_modules/Hisat2/hisat2.config \
+ -profile docker \
+ --sam "results/mapping/*.sam" \
--
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