[R-pkg-team] Bug#966523: Potential gcc-10 issue "error: conflicting types for =?UTF-8?Q?=E2=80=98uintptr=5Ft=E2=80=99?=" (Was: Bug#966523: r-bioc-rsubread FTBFS on 32bit: error: conflicting types for =?UTF-8?Q?=E2=80=98uintptr=5Ft=E2=80=99?=)

[Wei Shi]

Apologies for my delayed response. We will investigate this and try to fix it soon.
Regards
Wei

Professor Wei Shi, PhD
Head, Bioinformatics and Cancer Genomics Laboratory
Olivia Newton-John Cancer Research Institute
Level 5, ONJ Centre, 145 Studley Road, Heidelberg Vic 3084 Australia
E: Wei.Shi at onjcri.org.au | W: www.onjcri.org.au
[signature_1837665025]

From: Andreas Tille <tille at debian.org>
Date: Wednesday, 23 September 2020 at 5:40 pm
To: "966523 at bugs.debian.org" <966523 at bugs.debian.org>, Wei Shi <Wei.Shi at onjcri.org.au>, Yang Liao <Yang.Liao at onjcri.org.au>, Gordon K Smyth <smyth at wehi.edu.au>
Cc: Debian Mentors List <debian-mentors at lists.debian.org>, Shayan Doust <hello at shayandoust.me>
Subject: Potential gcc-10 issue "error: conflicting types for ‘uintptr_t’" (Was: Bug#966523: r-bioc-rsubread FTBFS on 32bit: error: conflicting types for ‘uintptr_t’)

Control: tags -1 help
Control: tags -1 upstream
Control: forwarded -1 Wei Shi <wei.shi at onjcri.org.au<mailto:wei.shi at onjcri.org.au>>, Yang Liao <yang.liao at onjcri.org.au<mailto:yang.liao at onjcri.org.au>>, Gordon K Smyth <smyth at wehi.edu.au<mailto:smyth at wehi.edu.au>>

Hi,

unfortunately upstream has not yet responded to this mail.  My guess is
that this is a general gcc-10 issue.

Any hint how to solve this?

Kind regards

       Andreas.

On Tue, Sep 08, 2020 at 05:00:10PM +0200, Andreas Tille wrote:
Hi,
I'm hereby forwarding a problem that was detected on the Debian packaged
version of Rsubread.  Any idea how to fix this?
Kind regards
        Andreas.
On Thu, Jul 30, 2020 at 08:50:31AM +0300, Adrian Bunk wrote:
> Source: r-bioc-rsubread
> Version: 2.2.5-1
> Severity: serious
> Tags: ftbfs
>
> https://buildd.debian.org/status/package.php?p=r-bioc-rsubread&suite=sid
>
> ...
> In file included from /usr/lib/gcc/i686-linux-gnu/10/include/stdint.h:9,
>                  from HelperFunctions.h:139,
>                  from R_wrapper.c:35:
> /usr/include/stdint.h:96:23: error: conflicting types for ‘uintptr_t’
>    96 | typedef unsigned int  uintptr_t;
>       |                       ^~~~~~~~~
> In file included from R_wrapper.c:30:
> /usr/share/R/include/Rinterface.h:110:24: note: previous declaration of ‘uintptr_t’ was here
>   110 |  typedef unsigned long uintptr_t;
>       |                        ^~~~~~~~~
> make[1]: *** [/usr/lib/R/etc/Makeconf:167: R_wrapper.o] Error 1

--
http://fam-tille.de


This communication is intended only for the named recipient and may contain information that is confidential, legally privileged or subject to copyright; the Olivia Newton-John Cancer Research Institute does not waiver any rights if you have received this communication in error. The views expressed in this communication are those of the sender and do not necessarily reflect the views of the Olivia Newton-John Cancer Research Institute.
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/r-pkg-team/attachments/20200923/b26c837f/attachment-0001.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: image001.png
Type: image/png
Size: 17406 bytes
Desc: image001.png
URL: <http://alioth-lists.debian.net/pipermail/r-pkg-team/attachments/20200923/b26c837f/attachment-0001.png>