Fix to compile with gcc 4.4 (and reminder: Bug#503367: plink: file conflict with putty-tools)

[Andreas Tille <tillea@rki.de>]

Hi,

please find attached a fix to compile plink using gcc 4.4.  I also
would like to remind every interested party that I decided to use
the binary

    /usr/bin/p-link

for Debian because my request for comments about three weeks ago did
not deserved a single response.  I will upload a package with this
name in about 24h if nobody insists.

Kind regards

         Andreas.

On Tue, 14 Apr 2009, Andreas Tille wrote:

> Hi,
>
> I try to resume the thread about the name of plink binary in Debian to
> finally find a solution. Status:
>
>  1. we can not use /usr/bin/plink because of the name
>     conflict with the putty tool
>  2. plink executable will be moved to /usr/lib/plink/plink
>  3. we use a symlink to this place under /usr/bin/<NEWNAME>
>  4. the issue will be documented in README.Debian,
>     NEWS.Debian and the long description of the package.
>
> The remaining issue to decide about is the actual name to choose.  Here
> re the options:
>
>  1. snplink
>     Pro: Just announced by upstream as alternate name
>          used by Debian (which is not true because the
>          suggestion was never realised) and used by
>          Gentoo (because of this announcement)
>     Con: Another potential name conflict [1]
>  2. PLINK
>     Pro: Sound remains the same.
>     Con: Not portable to files systems which are not
>          case sensitive
>  3. Plink
>     Same pros/cons as 2.
>  4. p_link
>  5. p-link
>
> I'd really love if we can find a solution together with upstream (in CC)
> and I'd actually would wight upstreams opinion about this issue highest
> according to the principle that it is not only a Debian issue but might
> happen on any users machine who tries to install plink.
>
> So please let us find a reasonable solution which lets us move foreward
> to a policy compliant plink package inside Debian.
>
> Kind regards
>
>      Andreas.
>
> [1] 
> http://www.icr.ac.uk/research/research_sections/cancer_genetics/cancer_genetics_teams/molecular_and_population_genetics/software_and_databases/index.shtml

--
http://fam-tille.de

Author: Andreas Tille
Puropose: Compile with gcc 4.4
Forwarded: Shaun Purcell <plink@chgr.mgh.harvard.edu>
License: same as plink itself.
--- plink-1.06-src.orig/blox.cpp
+++ plink-1.06-src/blox.cpp
@@ -15,6 +15,7 @@
 #include <iomanip>
 #include <string>
 #include <cmath>
+#include <cstdlib>
 
 #include "options.h"
 #include "helper.h"