[med-svn] [Git][med-team/bcalm][master] 2 commits: Modify tests so they execute

[Shayan Doust]

Shayan Doust pushed to branch master at Debian Med / bcalm


Commits:
66449a07 by Shayan Doust at 2019-09-23T12:17:07Z
Modify tests so they execute

- - - - -
28799727 by Shayan Doust at 2019-09-23T12:22:19Z
Write autopkgtest
Currently passes

- - - - -


3 changed files:

- debian/bcalm.install
- debian/missing-sources/simple_test.sh
- debian/tests/run-unit-test


Changes:

=====================================
debian/bcalm.install
=====================================
@@ -2,3 +2,6 @@ debian/missing-sources/compare_fasta.py usr/share/doc/bcalm/test
 debian/missing-sources/reference.fasta usr/share/doc/bcalm/test
 debian/missing-sources/simple_test.sh usr/share/doc/bcalm/test
 example/* usr/share/doc/bcalm/test
+test/* usr/share/doc/bcalm/test
+debian/missing-sources/compare_fasta.py usr/share/doc/bcalm/test
+


=====================================
debian/missing-sources/simple_test.sh
=====================================
@@ -1,14 +1,14 @@
 #!/bin/bash
     
-rm -f reference.fasta
+#rm -f reference.fasta
 #wget https://raw.githubusercontent.com/GATB/MindTheGap/f5cb0fec816686c7393772787d736565c4f056a4/test/full_test/reference.fasta >& /dev/null
-../build/bcalm -in reference.fasta -abundance-min 1 > /dev/null >& /dev/null
-rm -rf reference.unitigs.fa.glue*
-rm -f compare_fasta.py
+bcalm -in reference.fasta -abundance-min 1 > /dev/null >& /dev/null
+#rm -rf reference.unitigs.fa.glue*
+#rm -f compare_fasta.py
 #wget https://raw.githubusercontent.com/GATB/minia/master/test/compare_fasta.py >& /dev/null
 python3 compare_fasta.py reference.fasta reference.unitigs.fa
 res=$?
-rm -f reference.fasta reference.h5 reference.unitigs.fa compare_fasta.py 
+#rm -f reference.fasta reference.h5 reference.unitigs.fa compare_fasta.py 
 if [ "$res" = "0" ]
 then
     echo "test OK"


=====================================
debian/tests/run-unit-test
=====================================
@@ -1,18 +1,17 @@
 #!/bin/bash
 set -e
 
-pkg=#PACKAGENAME#
+pkg=bcalm
 
 if [ "${AUTOPKGTEST_TMP}" = "" ] ; then
   AUTOPKGTEST_TMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX)
-  # Double quote below to expand the temporary directory variable now versus
-  # later is on purpose.
   # shellcheck disable=SC2064
   trap "rm -rf ${AUTOPKGTEST_TMP}" 0 INT QUIT ABRT PIPE TERM
 fi
 
-cp -a /usr/share/doc/${pkg}/examples/* "${AUTOPKGTEST_TMP}"
+cp -a /usr/share/doc/${pkg}/test/* "${AUTOPKGTEST_TMP}"
 
 cd "${AUTOPKGTEST_TMP}"
 
-#do_stuff_to_test_package#
+bash simple_test.sh
+bash run-tiny.sh



View it on GitLab: https://salsa.debian.org/med-team/bcalm/compare/700890df208d1f947781fbf17c1fde24262ebc09...287997278e2d7a8caab3a8e0bf67a519b8ff953a

-- 
View it on GitLab: https://salsa.debian.org/med-team/bcalm/compare/700890df208d1f947781fbf17c1fde24262ebc09...287997278e2d7a8caab3a8e0bf67a519b8ff953a
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