[Debian-med-packaging] Bug#882349: sra-sdk FTBFS with glibc 2.25

[Andreas Tille]

control: tags -1 help

Hi,

is there any hint how to fix this issue?

On Tue, Nov 21, 2017 at 07:34:09PM +0200, Adrian Bunk wrote:
> Source: sra-sdk
> Version: 2.8.1-2+dfsg-2
> Severity: serious
> Tags: buster sid
> Forwarded: https://github.com/ncbi/sra-tools/issues/67
> 
> https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/sra-sdk.html
> 
> ...
> /build/1st/sra-sdk-2.8.1-2+dfsg/tools/bam-loader/bam.c:3998:17: error: conflicting types for 'canonicalize'
>  static unsigned canonicalize(uint32_t cigar[], unsigned n)
>                  ^~~~~~~~~~~~
> In file included from /usr/include/features.h:406:0,
>                  from /usr/include/x86_64-linux-gnu/bits/libc-header-start.h:33,
>                  from /usr/include/stdint.h:26,
>                  from /usr/lib/gcc/x86_64-linux-gnu/7/include/stdint.h:9,
>                  from /usr/include/ncbi-vdb/kfc/defs.h:34,
>                  from /usr/include/ncbi-vdb/klib/defs.h:31,
>                  from /build/1st/sra-sdk-2.8.1-2+dfsg/tools/bam-loader/bam.c:27:
> /usr/include/x86_64-linux-gnu/bits/mathcalls.h:435:1: note: previous declaration of 'canonicalize' was here
>  __MATHDECL_1 (int, canonicalize,, (_Mdouble_ *__cx, const _Mdouble_ *__x));
>  ^
> /build/1st/sra-sdk-2.8.1-2+dfsg/tools/bam-loader/bam.c:2990:17: warning: 'SequenceLengthFromCIGAR' defined but not used [-Wunused-function]
>  static unsigned SequenceLengthFromCIGAR(const BAM_Alignment *self)
>                  ^~~~~~~~~~~~~~~~~~~~~~~
> /build/1st/sra-sdk-2.8.1-2+dfsg/build/Makefile.rules:31: recipe for target 'bam.o' failed
> make[5]: *** [bam.o] Error 1
> 

Any help would be welcome.

Kind regards

      Andreas.

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