On 12/04/2011 12:39 AM, Andreas Tille wrote:
> On Sat, Dec 03, 2011 at 06:43:50PM +0100, Andreas Tille wrote:
>
>>> Does anybody know how to avoid this ?
>>>
>> I gave it a quick(!) try (see git) but failed. I'd suggest asking on
>> debian-ment...@lists.debian.org because there are people with a lot of
>> experience (gaining it yourself will take you hours).
>>
> After having some not so quick look I at least found the reaosn for the
> problem: In debian/patches/0001-bam2samtools.patch the configure script
> and the m4 files are tweaked to make sure it will find the bam.h header
> file. However when in dh_auto_clean the configure script is called
> again this patch is not active any more.
>
> Even if the root of the problem seems to be clear I'm not fully sure
> what might be the best solution for this problem. Any ideas? (Perhaps
> asking this really on debian-mentors?)
>
> Kind regards
>
> Andreas.
>
>
Hi Andreas ,
thank you for the commits .
I had to patch both files , because during the build process autoconf is
called and if ax_bam.m4 isn't patched it rewrites the configure with
wrong path ...
I tried to override dh_auto_clean with :
override_dh_auto_clean:
dh_quilt_patch
dh_auto_clean
but this didn't work because patches can't be applied cleanly to
configure script re-generated by autoconf .
Regards ,
Alex
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