[med-svn] [reapr] 02/11: revise test

[Sascha Steinbiss]

This is an automated email from the git hooks/post-receive script.

sascha-guest pushed a commit to branch master
in repository reapr.

commit b489e20a05e828df7f5108c4bd9bfa6b1bd3d149
Author: Sascha Steinbiss <sascha at steinbiss.name>
Date:   Thu Feb 25 10:48:27 2016 +0000

    revise test
---
 debian/tests/test-example | 19 ++++++++++++++++---
 1 file changed, 16 insertions(+), 3 deletions(-)

diff --git a/debian/tests/test-example b/debian/tests/test-example
index 4e96957..624a7d5 100755
--- a/debian/tests/test-example
+++ b/debian/tests/test-example
@@ -3,11 +3,24 @@
 # Author: Sascha Steinbiss <sascha at steinbiss.name>
 set -e
 
-DATA=/usr/share/reapr-test
+ORIGDIR=$(pwd)
+DATADIR=$ORIGDIR/debian/tests/
 WORKDIR=$(mktemp -d)
 
 trap "rm -rf $WORKDIR" 0 INT QUIT ABRT PIPE TERM
 cd $WORKDIR
 
-cp -rv /usr/share/reapr-test/* .
-./test.sh
+zcat $DATADIR/foo1.fasta.gz > foo1.fasta
+wgsim -d 2000 -N 10000 -1 120 -2 120 -S 42 \
+  foo1.fasta \
+  foofq.1.fastq \
+  foofq.2.fastq
+reapr smaltmap \
+  foo1.fasta \
+  foofq.1.fastq \
+  foofq.2.fastq \
+  out.bam
+reapr pipeline \
+  foo1.fasta \
+  out.bam \
+  result

-- 
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