[Debian-med-packaging] Bug#806007: clustalo: FTBFS when built with dpkg-buildpackage -A (No such file or directory)

Santiago Vila sanvila at debian.org
Tue Nov 24 15:25:06 UTC 2015


Package: src:clustalo
Version: 1.2.1-1
User: sanvila at debian.org
Usertags: binary-indep
Severity: important

Dear maintainer:

I tried to build this package with "dpkg-buildpackage -A"
(i.e. only architecture-independent packages), and it failed:

--------------------------------------------------------------------------------
[...]
 fakeroot debian/rules binary-indep
dh binary-indep --with autoreconf
   dh_testroot -i
   dh_prep -i
   dh_auto_install -i
	make -j1 install DESTDIR=/<<PKGBUILDDIR>>/debian/tmp AM_UPDATE_INFO_DIR=no
make[1]: Entering directory '/<<PKGBUILDDIR>>'
Making install in src
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
Making install in hhalign
make[3]: Entering directory '/<<PKGBUILDDIR>>/src/hhalign'
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/hhalign'
make[4]: Nothing to be done for 'install-exec-am'.
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/hhalign'
 /usr/bin/install -c -m 644 general.h hhfunc.h '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/hhalign'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/hhalign'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src/hhalign'
Making install in squid
make[3]: Entering directory '/<<PKGBUILDDIR>>/src/squid'
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/squid'
make[4]: Nothing to be done for 'install-exec-am'.
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/squid'

[... snipped ...]

/<<PKGBUILDDIR>>/src/clustal/symmatrix.c:262: warning: The following parameters of SymMatrixPrint(symmatrix_t *symmat, char **labels, const char *path, bool bPercID) are not documented:
  parameter 'bPercID'
dh_install
rm -rf debian/tmp/usr/lib/pkgconfig
rm -f debian/tmp/usr/lib/*/libclustalo.la
mv debian/tmp/usr/include debian/libclustalo-dev/usr
mv: cannot move 'debian/tmp/usr/include' to 'debian/libclustalo-dev/usr': No such file or directory
debian/rules:11: recipe for target 'override_dh_install' failed
make[1]: *** [override_dh_install] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules:8: recipe for target 'binary-indep' failed
make: *** [binary-indep] Error 2
dpkg-buildpackage: error: fakeroot debian/rules binary-indep gave error exit status 2
--------------------------------------------------------------------------------

Sorry not to have a fix, as I am reporting many bugs similar to
this one, but I can give some general hints:

* If all the arch-independent packages are dummy transitional packages
released with jessie, the easy fix is to drop them now.
 
* If not, debian/rules should be modified so that the binary-indep
target works in all cases, even when binary-arch is not used (this is
what the "Architecture: all" autobuilder does). For that:
    
* If you are using debhelper, you might want to use options -a and -i
for dh_* commands so that they do not act on packages they do not
have to act.

* Also, if you are using dh, the (independently) optional targets
override_dh_foo-arch and override_dh_foo-indep (for several values
of "foo") may be useful to write a debian/rules which behaves exactly
as desired.


After checking that both "dpkg-buildpackage -A" and "dpkg-buildpackage -B"
work properly, this package will be suitable to be uploaded in
source-only form if you wish (you might want to try it).

Thanks.



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