Bug#802706: slepc: FTBFS: Unable to link with PETSc

[Drew Parsons]

On Thu, 2017-01-05 at 14:10 +0100, Santiago Vila wrote:
> found 802706 3.7.3+dfsg1-3
> thanks
> 
> Hi.
> 
> Sorry for the reopening but this is happening again in stretch.
> (I built this package 200 times, and it failed 200 times).
> 
> Build logs available here:
> 
> https://people.debian.org/~sanvila/build-logs/slepc/
> 
> Thanks.

It's not the same bug.  Attach the configure.log mentioned in the build
log.

It's hdf5 this time.

Drew

Bug#802706: slepc: FTBFS: Unable to link with PETSc

[Santiago Vila]

found 802706 3.7.3+dfsg1-3
thanks

Hi.

Sorry for the reopening but this is happening again in stretch.
(I built this package 200 times, and it failed 200 times).

Build logs available here:

https://people.debian.org/~sanvila/build-logs/slepc/

Thanks.

Bug#802706: slepc: FTBFS: Unable to link with PETSc

[Drew Parsons]

On Fri, 23 Oct 2015 10:21:35 +0800 Drew Parsons 
wrote:
> This one's a mystery ... "works for me"  
> i.e. my upload was built successfully with sbuild.
> 

We diagnosed the problem on irc (i.e. why it was "working for me"): the
default sbuild configuration uses the default apt configuration, which
installs Recommends.  The buildds have installation of Recommends
deactivated.

So I can reproduce the build error after reconfiguring my sbuild chroot
(configure apt as per https://wiki.debian.org/BuilddSetup#debian.org_Bu
ildd_setup)

The fix, as you said, is to add the -dev Depends to the petsc dev
packages.

The reason this is needed is that petsc handles these libraries as
external libraries and lists them as required in
/lib/pkgconfig/PETSc.pc and petsc>/lib/petsc/conf/petscvariables

Drew

Bug#802706: slepc: FTBFS: Unable to link with PETSc

[Aaron M. Ucko]

Source: slepc
Version: 3.6.1.dfsg1-1
Severity: serious
Justification: fails to build from source (but built successfully in the past)

Builds of slepc in minimal environments (such as on the autobuilders)
have been failing with errors of the form

  Checking environment... done
  Checking PETSc installation... 
  ERROR: Unable to link with PETSc
  ERROR: See "installed-i386-linux-gnu-real/lib/slepc/conf/configure.log" file 
for details
  debian/rules:149: recipe for target 'override_dh_auto_install' failed
  make[1]: *** [override_dh_auto_install] Error 1
  make[1]: Leaving directory '/«PKGBUILDDIR»'
  debian/rules:101: recipe for target 'binary-arch' failed
  make: *** [binary-arch] Error 2
  dpkg-buildpackage: error: fakeroot debian/rules binary-arch gave error exit 
status 2

I was able to reproduce the problem on a porterbox (amd64, as it
happens), and found the issue to be that it was explicitly linking
against libraries that were neither direct nor indirect build
dependencies:

  mpicxx -Wl,-z,relro -Wl,--no-as-needed -g -O2 -fstack-protector-strong 
-Wformat -Werror=format-security  -g -O2 -fstack-protector-strong -Wformat 
-Werror=format-security -o checklink checklink.o  
-L/usr/lib/petscdir/3.6.2/x86_64-linux-gnu-real/lib 
-L/usr/lib/petscdir/3.6.2/x86_64-linux-gnu-real/lib  -lpetsc_real -ldmumps 
-lzmumps -lsmumps -lcmumps -lmumps_common -lpord -lumfpack -lamd -lcholmod 
-lklu -L/usr/lib -lHYPRE_utilities -lHYPRE_struct_mv -lHYPRE_struct_ls 
-lHYPRE_sstruct_mv -lHYPRE_sstruct_ls -lHYPRE_IJ_mv -lHYPRE_parcsr_ls -lsuperlu 
-lscalapack-openmpi -llapack -lblas -lssl -lcrypto -lptesmumps -lptscotch 
-lptscotcherr -lfftw3 -lfftw3_mpi -lm -L/usr/lib/openmpi/lib 
-L/usr/lib/gcc/x86_64-linux-gnu/5 -L/usr/lib/x86_64-linux-gnu 
-L/lib/x86_64-linux-gnu -lmpi_f90 -lmpi_f77 -lgfortran -lm -lgfortran -lm 
-lquadmath -lm -lmpi_cxx -lstdc++ -L/usr/lib/openmpi/lib 
-L/usr/lib/gcc/x86_64-linux-gnu/5 -L/usr/lib/x86_64-linux-gnu 
-L/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ldl 
 -lmpi -lhwloc -lgcc_s -lpthread -ldl 
  /usr/bin/ld: cannot find -lssl
  /usr/bin/ld: cannot find -lcrypto
  /usr/bin/ld: cannot find -lgfortran

Could you please take a look?  Given that Debian builds PETSc as a
shared library, it shouldn't be necessary to list any other libraries
on the command line.  However, if the build system makes that hard to
avoid, please compensate by listing libgfortran-5-dev and libssl-dev
in Build-Depends.  (It's unfortunate that there's no generic
libgfortran-dev, though I suppose you could list gfortran.)

Either way, please confirm with pbuilder or the like that there aren't
any further errors in minimal environments.

Thanks!

Bug#802706: slepc: FTBFS: Unable to link with PETSc

[Drew Parsons]

This one's a mystery ... "works for me"  
i.e. my upload was built successfully with sbuild.


Drew