[med-svn] [mapdamage] 01/01: add simple tests for examples

[Nadiya Sitdykova]

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rovenskasa-guest pushed a commit to branch master
in repository mapdamage.

commit 30436dabd32ed4ee158b16f264b9d704d498b3da
Author: rovenskasa-guest <rovenskasa at gmail.com>
Date:   Thu Mar 23 19:32:26 2017 -0700

    add simple tests for examples
---
 debian/changelog           |  8 ++++++--
 debian/tests/control       |  2 +-
 debian/tests/run-unit-test | 22 ++++++++++++++++++++--
 3 files changed, 27 insertions(+), 5 deletions(-)

diff --git a/debian/changelog b/debian/changelog
index 806ab05..ed638d5 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,5 +1,6 @@
-mapdamage (2.0.6+dfsg-2) UNRELEASED; urgency=medium
+mapdamage (2.0.6+dfsg-2.1) UNRELEASED; urgency=medium
 
+  [ Andreas Tille ]
   * Add simple autopkgtest
     Closes: #848326
   TODO: Follow more precise advise for testing given here:
@@ -8,7 +9,10 @@ mapdamage (2.0.6+dfsg-2) UNRELEASED; urgency=medium
   * debhelper 10
   * d/watch: version=4
 
- -- Andreas Tille <tille at debian.org>  Thu, 22 Dec 2016 16:27:05 +0100
+  [ Nadiya Sitdykova ]
+  * Add simple tests for examples
+
+ -- rovenskasa <rovenskasa at gmail.com>  Thu, 23 Mar 2017 19:30:32 -0700
 
 mapdamage (2.0.6+dfsg-1) unstable; urgency=medium
 
diff --git a/debian/tests/control b/debian/tests/control
index 25377fc..786e5f7 100644
--- a/debian/tests/control
+++ b/debian/tests/control
@@ -1,3 +1,3 @@
 Tests: run-unit-test
-Depends: @, r-cran-runit
+Depends: @, r-cran-runit, python-pysam
 Restrictions: allow-stderr
diff --git a/debian/tests/run-unit-test b/debian/tests/run-unit-test
index 21dc807..67290a3 100644
--- a/debian/tests/run-unit-test
+++ b/debian/tests/run-unit-test
@@ -14,5 +14,23 @@ gunzip -r *
 python rescale_test.py
 
 
-# TODO: This test should be enhanced by follwing the advise here:
-#  https://ginolhac.github.io/mapDamage/#a5
\ No newline at end of file
+mapDamage -i rescale_test/pe_test/pe.sam -r rescale_test/pe_test/ref.fa
+pdf_result="results_pe/Fragmisincorporation_plot.pdf"
+
+if [ -e "$pdf_result" ]; then
+   echo "pdf result exists"
+else
+   echo "pdf result doesnt' exist"
+   exit 1
+fi
+
+mapDamage -d results_pe -y 0.1 --plot-only
+
+#rm -rf results_pe
+#mapDamage -i rescale_test/pe_test/pe.sam -r rescale_test/pe_test/ref.fa --rescale
+#--rescale doesn't work without R-libraries
+
+#mapDamage -d results_pe --forward --stats-only -v
+#asks for -r reference when shouldn't 
+
+

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