debian/control

@@ -6,7 +6,8 @@ Priority: optional
 Build-Depends: debhelper (>= 12~),
                dh-python,
                python3,
-               python3-tabulate
+               python3-tabulate,
+               python3-cgecore
 Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/med-team/virulencefinder
 Vcs-Git: https://salsa.debian.org/med-team/virulencefinder.git
@@ -15,9 +16,10 @@ Homepage: https://bitbucket.org/genomicepidemiology/virulencefinder
 Package: virulencefinder
 Architecture: any
 Depends: ${misc:Depends},
-         ${python:Depends},
+         ${python3:Depends},
          python3,
-         python3-tabulate
+         python3-tabulate,
+         python3-cgecore
 Description: identify viruelnce genes in total or partial sequenced isolates of bacteria
  The VirulenceFinder service contains one Python script
  virulencefinder.py which is the script of the latest version of the

debian/lintian-overrides

-# see https://lists.debian.org/debian-med/2018/06/msg00043.html
-virulencefinder: script-with-language-extension usr/bin/*.*

debian/rules

@@ -10,7 +10,7 @@ export PYBUILD_CLEAN_ARGS=rm -rf test/results_tab.tsv
 
 override_dh_auto_test:
 ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
-	./virulencefinder.py -i test/test.fsa -o test/ -mp blastn -x -q ; \
+	./virulencefinder.py -i test/test.fsa -o test/ -p test/database/ -mp blastn -x -q ; \
 	file=test/results_tab.tsv ; \
 	DIFF=$$(diff $file test/test_results.tsv) ; \
 	if [ "$DIFF" == "" ] && [ -s $file ] ; then \