From 9b153f296d0a0347da5546e5e970b506c3f53939 Mon Sep 17 00:00:00 2001
From: drpatelh <drhpatel@gmail.com>
Date: Wed, 3 Feb 2021 16:26:10 +0000
Subject: [PATCH] Add check to see if bowtie bam files exists

---
 tests/software/bowtie/align/test.yml  | 4 ++++
 tests/software/bowtie2/align/test.yml | 4 ++++
 2 files changed, 8 insertions(+)

diff --git a/tests/software/bowtie/align/test.yml b/tests/software/bowtie/align/test.yml
index 9356e1c7..eded71f2 100644
--- a/tests/software/bowtie/align/test.yml
+++ b/tests/software/bowtie/align/test.yml
@@ -19,6 +19,8 @@
       md5sum: f3c398bba5158f4039334a932d79c051
     - path: output/bowtie/test.out
       md5sum: a81cb18024616415a6cec3108a36fccd
+    - path: output/bowtie/test.bam
+      should_exist: true
 
 - name: bowtie align paired-end
   command: nextflow run ./tests/software/bowtie -entry test_bowtie_alignment_paired_end -c tests/config/nextflow.config
@@ -41,3 +43,5 @@
       md5sum: f3c398bba5158f4039334a932d79c051
     - path: output/bowtie/test.out
       md5sum: a23e9a2a76e949aeb3693bcfae41a615
+    - path: output/bowtie/test.bam
+      should_exist: true
\ No newline at end of file
diff --git a/tests/software/bowtie2/align/test.yml b/tests/software/bowtie2/align/test.yml
index 43a702ee..fec516d6 100644
--- a/tests/software/bowtie2/align/test.yml
+++ b/tests/software/bowtie2/align/test.yml
@@ -18,6 +18,8 @@
       md5sum: 5e8fb4af677eb3a57a40e76dc3f6db72
     - path: output/bowtie2/test.bowtie2.log
       md5sum: 90041c264231be535042adb93a279356
+    - path: output/bowtie2/test.bam
+      should_exist: true
 
 - name: bowtie2 align paired-end
   command: nextflow run ./tests/software/bowtie2 -entry test_bowtie2_align_paired_end -c tests/config/nextflow.config
@@ -39,3 +41,5 @@
       md5sum: 5e8fb4af677eb3a57a40e76dc3f6db72
     - path: output/bowtie2/test.bowtie2.log
       md5sum: 9f9eb40b5f57e0f2d5c874f2c1b5cfd5
+    - path: output/bowtie2/test.bam
+      should_exist: true
\ No newline at end of file