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References:	<CAO22HXc6RUeTcUwMbz85x3OBb+wuLUGhnOcQvLydXJaqPi_6mw AT mail DOT gmail DOT com> <51DEEB49 DOT 5080104 AT gmail DOT com> <CAO22HXeDd4cQCcZiWfYG_7xrmKmmoZ6A_vstqKh9SBeCW9t+2w AT mail DOT gmail DOT com> <51DF2B64 DOT 5010508 AT gmail DOT com> <51DF7C74 DOT 2040807 AT gmail DOT com>
Date:	Fri, 12 Jul 2013 09:01:48 +0100
Message-ID:	<CAO22HXcoO97Hix+3mhN7JngNaCd4bwB3npR-Q7TmXczQ1ApU0w@mail.gmail.com>
Subject:	Re: mingw/math.h not found while compiling R packages
From:	Enrico Ferrero <enricoferrero86 AT gmail DOT com>
To:	cygwin AT cygwin DOT com

Hi Marco,

Thanks a lot for your help. I downloaded your patched package and it
compiles without any issues.

Since the bug is in Bioconductor and not Cygwin at the end of the day,
it would probably be a good idea to file a bug report there.

If you're OK with it, I can CC you and link to your patch, just let me know.

Again, thank you!
Best,

Enrico


On 12 July 2013 04:48, marco atzeri <marco DOT atzeri AT gmail DOT com> wrote:
> Il 7/12/2013 12:02 AM, marco atzeri ha scritto:
>>
>> Il 7/11/2013 10:51 PM, Enrico Ferrero ha scritto:
>>>
>>> Hi,
>>>
>>
>> I am building biocLite, it will take some time...
>>
>
> Enrico,
> As I was thinking the package is broken.
> I don't know why they put a wrong and useless #include directive
>
> If you download the package and patch the source as
>
> -------------------------------------------------------
> --- orig/IRanges/src/common.h   2013-02-22 04:36:50.000000000 +0100
> +++ IRanges/src/common.h        2013-07-12 00:19:05.922405200 +0200
> @@ -55,10 +55,6 @@
>  #endif
>  #endif
>
> -#ifdef __CYGWIN32__
> -#include <mingw/math.h>
> -#endif
> -
>  #ifndef NAN
>  #define NAN (0.0 / 0.0)
>  #endif
> ---------------------------------------------------------
>
> after repacking
> you can then install the local file with something like
>  install.packages("/tmp/IRanges_1.16.6.tar.gz")
>
> I put the already patched file here if you are interested:
> http://matzeri.altervista.org/works/R/
>
> Regards
>
> Marco
>
>
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