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Description: Fix script exe_paths
denovo_map.pl and other stacks scripts hard-code the binary paths to the
installation directory. However, we move these binaries to /usr/lib/stacks/bin,
which breaks these scripts. This hard-codes the binary path to the correct
location.
Author: Kevin Murray <spam@kdmurray.id.au>
Last-Update: 2016-10-21
---
This patch header follows DEP-3: http://dep.debian.net/deps/dep3/
--- a/Makefile.am
+++ b/Makefile.am
@@ -104,10 +104,10 @@
$(MAKE) all "CXXFLAGS=-g -Wall -DDEBUG -Og"
install-data-hook:
- sed -e 's,_VERSION_,$(VERSION),' -e 's,_BINDIR_,$(bindir)/,g' -e 's,_PKGDATADIR_,$(pkgdatadir)/,g' $(DESTDIR)$(bindir)/denovo_map.pl > $(DESTDIR)$(bindir)/denovo_map.pl.subst
+ sed -e 's,_VERSION_,$(VERSION),' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' -e 's,_PKGDATADIR_,$(pkgdatadir)/,g' $(DESTDIR)$(bindir)/denovo_map.pl > $(DESTDIR)$(bindir)/denovo_map.pl.subst
mv $(DESTDIR)$(bindir)/denovo_map.pl.subst $(DESTDIR)$(bindir)/denovo_map.pl
chmod +x $(DESTDIR)$(bindir)/denovo_map.pl
- sed -e 's,_VERSION_,$(VERSION),' -e 's,_BINDIR_,$(bindir)/,g' -e 's,_PKGDATADIR_,$(pkgdatadir)/,g' $(DESTDIR)$(bindir)/ref_map.pl > $(DESTDIR)$(bindir)/ref_map.pl.subst
+ sed -e 's,_VERSION_,$(VERSION),' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' -e 's,_PKGDATADIR_,$(pkgdatadir)/,g' $(DESTDIR)$(bindir)/ref_map.pl > $(DESTDIR)$(bindir)/ref_map.pl.subst
mv $(DESTDIR)$(bindir)/ref_map.pl.subst $(DESTDIR)$(bindir)/ref_map.pl
chmod +x $(DESTDIR)$(bindir)/ref_map.pl
sed -i.bkp -e 's,_VERSION_,$(VERSION),' $(DESTDIR)$(bindir)/stacks-integrate-alignments
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