debian/control

@@ -10,8 +10,8 @@ Vcs-Git: https://salsa.debian.org/med-team/seq-seq-pan.git
 Homepage: https://gitlab.com/chrjan/seq-seq-pan
 
 Package: seq-seq-pan
-Architecture: any
-Depends: ${shlibs:Depends},
+Architecture: all
+Depends: ${python3:Depends},
          ${misc:Depends}
 Description: workflow for the SEQuential alignment of SEQuences
  Seq-seq-pan is a framework that provides methods for adding or removing

debian/copyright

 Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
 Upstream-Name: seq-seq-pan
 Source: https://gitlab.com/chrjan/seq-seq-pan
+Files-Excluded: */*.jar
+                */.gitignore
+                */.project
 
 Files: *
 Copyright: 2017-2018 Christine Jandrasits <JandrasitsC@rki.de>,

debian/docs

+README*

debian/install

+seq-seq-pan*	usr/bin
+seqseqpan	usr/share/seq-seq-pan
+*.py		usr/share/seq-seq-pan

debian/rules

@@ -20,12 +20,16 @@ include /usr/share/dpkg/default.mk
 %:
 	dh $@
 
+override_dh_install:
+	dh_install
+	# use replacements from conda recipes
+	sed -i 's|$${BASH_SOURCE%/\*}|/usr/share/seq-seq-pan|g' debian/*/usr/bin/seq-seq-pan
+	sed -i 's|$${BASH_SOURCE%/\*}|/usr/share/seq-seq-pan|g' debian/*/usr/bin/seq-seq-pan-consensus
+	sed -i 's|$${BASH_SOURCE%/\*}|/usr/share/seq-seq-pan|g' debian/*/usr/bin/seq-seq-pan-wga
+	sed -i 's|$${BASH_SOURCE%/\*}|/usr/share/seq-seq-pan|g' debian/*/usr/bin/seq-seq-pan-genomedescription
+
 ### When overriding auto_test make sure DEB_BUILD_OPTIONS will be respected
 #override_dh_auto_test:
 #ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
 #	do_stuff_for_testing
 #endif
-
-### If you **really** can not use uscan (even not with mode=git) use a debian/get-orig-script
-#get-orig-source:
-#	. debian/get-orig-source