[Debian-med-packaging] Bug#908353: ncbi-tools6 FTCBFS: uses the build architecture compiler

[Andreas Tille]

Control: tags -1 pending

Hi Aaron,

I've applied the suggested patch in Git and would have uploaded.  However,
for whatever reason the quilt patches do not apply and gbp buildpackage
fails.  I give up here and leave the final upload to you.

Kind regards

         Andreas.

On Sat, Sep 08, 2018 at 11:10:37PM +0200, Helmut Grohne wrote:
> Source: ncbi-tools6
> Version: 6.1.20170106-4
> Tags: patch
> User: helmutg at debian.org
> Usertags: rebootstrap
> 
> ncbi-tools6 fails to cross build from source, because debian/rules
> forces the build architecture compiler. Letting dpkg's buildtools.mk
> initialize the CC variables fixes that part. Unfortunately, the cross
> build still fails with a weired linker error:
> 
> | /usr/lib/gcc-cross/powerpc64le-linux-gnu/8/../../../../powerpc64le-linux-gnu/bin/ld: warning: libnetcli.so.6, needed by ../shlib/libncbiacc.so, not found (try using -rpath or -rpath-link)
> | /usr/lib/gcc-cross/powerpc64le-linux-gnu/8/../../../../powerpc64le-linux-gnu/bin/ld: ../shlib/libncbiacc.so: undefined reference to `NI_GenericGetService'
> | /usr/lib/gcc-cross/powerpc64le-linux-gnu/8/../../../../powerpc64le-linux-gnu/bin/ld: ../shlib/libncbiacc.so: undefined reference to `NI_GenericInit'
> | /usr/lib/gcc-cross/powerpc64le-linux-gnu/8/../../../../powerpc64le-linux-gnu/bin/ld: ../shlib/libncbiacc.so: undefined reference to `x_ni_errno'
> | /usr/lib/gcc-cross/powerpc64le-linux-gnu/8/../../../../powerpc64le-linux-gnu/bin/ld: ../shlib/libncbiacc.so: undefined reference to `x_ni_errlist'
> | /usr/lib/gcc-cross/powerpc64le-linux-gnu/8/../../../../powerpc64le-linux-gnu/bin/ld: ../shlib/libncbiacc.so: undefined reference to `NI_ServiceDisconnect'
> | /usr/lib/gcc-cross/powerpc64le-linux-gnu/8/../../../../powerpc64le-linux-gnu/bin/ld: ../shlib/libncbiacc.so: undefined reference to `x_ni_errtext'
> | /usr/lib/gcc-cross/powerpc64le-linux-gnu/8/../../../../powerpc64le-linux-gnu/bin/ld: ../shlib/libncbiacc.so: undefined reference to `NI_EndServices'
> | collect2: error: ld returned 1 exit status
> | make[2]: *** [makedemo.unx:249: entrcmd] Error 1
> | make[2]: Leaving directory '/<<PKGBUILDDIR>>/build'
> | make[1]: *** [debian/rules:86: override_dh_auto_build-arch] Error 2
> | make[1]: Leaving directory '/<<PKGBUILDDIR>>'
> | make: *** [debian/rules:72: binary-arch] Error 2
> 
> I have no idea on how to fix that. Still, could you apply the attached
> patch and close this bug when doing so? That'd make the real issue more
> visible to others.
> 
> Helmut

> diff --minimal -Nru ncbi-tools6-6.1.20170106/debian/changelog ncbi-tools6-6.1.20170106/debian/changelog
> --- ncbi-tools6-6.1.20170106/debian/changelog	2018-06-26 03:36:10.000000000 +0200
> +++ ncbi-tools6-6.1.20170106/debian/changelog	2018-09-08 21:42:29.000000000 +0200
> @@ -1,3 +1,11 @@
> +ncbi-tools6 (6.1.20170106-4.1) UNRELEASED; urgency=medium
> +
> +  * Non-maintainer upload.
> +  * Improve cross building: Don't force the build architecture compiler.
> +    (Closes: #-1)
> +
> + -- Helmut Grohne <helmut at subdivi.de>  Sat, 08 Sep 2018 21:42:29 +0200
> +
>  ncbi-tools6 (6.1.20170106-4) unstable; urgency=medium
>  
>    * debian/compat: Advance to Debhelper 11.
> diff --minimal -Nru ncbi-tools6-6.1.20170106/debian/rules ncbi-tools6-6.1.20170106/debian/rules
> --- ncbi-tools6-6.1.20170106/debian/rules	2016-12-06 03:21:38.000000000 +0100
> +++ ncbi-tools6-6.1.20170106/debian/rules	2018-09-08 21:42:27.000000000 +0200
> @@ -12,7 +12,7 @@
>  
>  # Set these here, rather than using the csh hackage that passes for an
>  # upstream build system.  Mostly taken from ../platform/{ppc,}linux.ncbi.mk.
> -CC = gcc # -pipe
> +-include /usr/share/dpkg/buildtools.mk
>  VIBFLAG = -DWIN_MOTIF
>  VIBLIBS = -lXm -lXmu -lXt -lX11 # -lXext # -lXp
>  OTHERLIBS = -lm

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