[med-svn] [mapdamage] 03/03: Revised simple tests for examples from documentation

[Nadiya Sitdykova]

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

commit c0be20d8c2d6f7a5ab8daf526605e1ea97443f61
Author: Nadiya Sitdykova <rovenskasa at gmail.com>
Date:   Wed Mar 29 21:17:12 2017 -0400

    Revised simple tests for examples from documentation
---
 debian/changelog           |  2 ++
 debian/tests/run-unit-test | 14 +++++++-------
 2 files changed, 9 insertions(+), 7 deletions(-)

diff --git a/debian/changelog b/debian/changelog
index 5f33eed..9687de0 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -22,6 +22,8 @@ mapdamage (2.0.6+dfsg-2) UNRELEASED; urgency=medium
   * Add dependency providing liblapack.so and libblas.so
   * Add file with reference containing all types of nucleotides
   * Add information how to check R libraries and what to do in case of errors to README.test
+  * Revised simple tests for examples from documentation
+    Closes: #848326 
 
  -- rovenskasa-guest <rovenskasa at gmail.com>  Thu, 23 Mar 2017 21:34:41 -0700
 
diff --git a/debian/tests/run-unit-test b/debian/tests/run-unit-test
index 286b7d9..dd4092e 100644
--- a/debian/tests/run-unit-test
+++ b/debian/tests/run-unit-test
@@ -10,11 +10,12 @@ fi
 cd $ADTTMP
 
 cp -a /usr/share/doc/${pkg}/tests/* .
+cp -a /usr/share/doc/${pkg}/ref_T.fa .
 gunzip -r *
 python rescale_test.py
 
 
-mapDamage -i rescale_test/pe_test/pe.sam -r rescale_test/pe_test/ref.fa
+mapDamage -i rescale_test/pe_test/pe.sam -r ref_T.fa
 pdf_result="results_pe/Fragmisincorporation_plot.pdf"
 
 if [ -e "$pdf_result" ]; then
@@ -27,13 +28,12 @@ fi
 mapDamage -d results_pe -y 0.1 --plot-only
 
 echo "checking stdin redirect..."
-cat rescale_test/pe_test/pe.sam | mapDamage -i - -r rescale_test/pe_test/ref.fa
+cat rescale_test/pe_test/pe.sam | mapDamage -i - -r ref_T.fa
 
-#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
+rm -rf results_pe
+mapDamage -i rescale_test/pe_test/pe.sam -r ref_T.fa --rescale
 
-#mapDamage -d results_pe --forward --stats-only -v
-#asks for -r reference when shouldn't 
+mapDamage -d results_pe --forward --stats-only -v -r ref_T.fa
+#asks for -r reference when it's not mentioned in examples
 
 

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