X-Recipient:	archive-cygwin AT delorie DOT com
DomainKey-Signature:	a=rsa-sha1; c=nofws; d=sourceware.org; h=list-id
	:list-unsubscribe:list-subscribe:list-archive:list-post
	:list-help:sender:mime-version:date:message-id:subject:from:to
	:content-type:content-transfer-encoding; q=dns; s=default; b=U5n
	gtwR0jVGV0dR0INXjhDcD1p3UaZrz+NgvP/6F3/l+U98RpMualMj/q5j+HJ3c/z3
	FyvRibRYNtR8szBzg08b9FN9kxszW1YopMAkLqmdDpWJgjMHersAKdCayo4WVoU3
	hxljPjqy1+gS9Iki+Lw1G/mUpJx7h4Dj9NAYYHGs=
DKIM-Signature:	v=1; a=rsa-sha1; c=relaxed; d=sourceware.org; h=list-id
	:list-unsubscribe:list-subscribe:list-archive:list-post
	:list-help:sender:mime-version:date:message-id:subject:from:to
	:content-type:content-transfer-encoding; s=default; bh=atQXovJWi
	FDjyA3bUxTrxE53ojs=; b=QPA5+VbMJNJDZ3r4HoaQ/W4ngt1coa7LB//HPdhrB
	XDyT8FB9veViBJjaOKfT1xMfU3eQoCHH2gIoLqM4Bw5YcC0HUNqW4rSWW5utOWcz
	jyBqhOc1lJj/mJU4QVBUS+uuhHfEcLefosCJ+6kBlmdQagApFQ12Lr5ah2DvrK/3
	VY=
Mailing-List:	contact cygwin-help AT cygwin DOT com; run by ezmlm
List-Id:	<cygwin.cygwin.com>
List-Subscribe:	<mailto:cygwin-subscribe AT cygwin DOT com>
List-Archive:	<http://sourceware.org/ml/cygwin/>
List-Post:	<mailto:cygwin AT cygwin DOT com>
List-Help:	<mailto:cygwin-help AT cygwin DOT com>, <http://sourceware.org/ml/#faqs>
Sender:	cygwin-owner AT cygwin DOT com
Mail-Followup-To:	cygwin AT cygwin DOT com
Delivered-To:	mailing list cygwin AT cygwin DOT com
X-Spam-SWARE-Status:	No, score=0.5 required=5.0 tests=AWL,BAYES_00,FREEMAIL_ENVFROM_END_DIGIT,FREEMAIL_FROM,RCVD_IN_DNSWL_LOW,RCVD_IN_HOSTKARMA_YE,SPF_PASS autolearn=ham version=3.3.1
MIME-Version:	1.0
X-Received:	by 10.194.19.130 with SMTP id f2mr21273818wje.22.1373560550418; Thu, 11 Jul 2013 09:35:50 -0700 (PDT)
Date:	Thu, 11 Jul 2013 17:35:50 +0100
Message-ID:	<CAO22HXc6RUeTcUwMbz85x3OBb+wuLUGhnOcQvLydXJaqPi_6mw@mail.gmail.com>
Subject:	Re: Re: mingw/math.h not found while compiling R packages
From:	Enrico Ferrero <enricoferrero86 AT gmail DOT com>
To:	cygwin AT cygwin DOT com
X-MIME-Autoconverted:	from quoted-printable to 8bit by delorie.com id r6BGa5VY031823

Hi Larry,

Thank you for your reply and advice.

> If you are using the R from Cygwin Ports, it must be an old package since
> R is no longer offered there.  I suggest you install the R package from the
> Cygwin distribution instead and retry.  Since this list supports the Cygwin
> distribution only, this would put your issue firmly on-topic for this list
> if you can still reproduce it.  For Cygwin Ports packages, they are
> supported through the Ports site:
> <http://sourceware.org/cygwinports/>
> If you have a package from that site and have questions, problems, or
> comments, it's best to consult the mailing list there.
> --
> Larry

I got confused in my first email for some reason, but I'm definitely
using R (version 2.15.1) from the Cygwin distribution, not the ports.
I just made a clean R installation just to make sure and I still get
the same error message:

>In file included from IntervalTree.c:3:0:
>common.h:59:24: fatal error: mingw/math.h: No such file or directory
>compilation terminated.
>/usr/lib/R/etc/Makeconf:121: recipe for target `IntervalTree.o' failed
>make: *** [IntervalTree.o] Error 1
>ERROR: compilation failed for package ‘IRanges’
>* removing ‘/usr/lib/R/site-library/IRanges’

I've read there are some other problems with MinGW these days, maybe
this one is related?
In any case, is there anything I can do to try to solve the issue?
Bioconductor is vital to me and using R from within Windows is causing
me a lot of headaches.

Thanks!
Best,

Enrico

--
Problem reports:       http://cygwin.com/problems.html
FAQ:                   http://cygwin.com/faq/
Documentation:         http://cygwin.com/docs.html
Unsubscribe info:      http://cygwin.com/ml/#unsubscribe-simple

- Raw text -