Hi Andreas,
My home machine is running OS X and I use Homebrew to manage packages, and
at work I don't have root access on the Linux servers, so I use Linuxbrew to
manage packages. To maintain a Debian package, there's a little extra effort
required to fire up a VM. I opened the bug report to document that a new
version of ABySS is available. If you have time to update the package, that's
great, otherwise it'll wait until I find some time to do it.
Thanks for the bug report. It's an easy one line fix (delete the offending
line) and will definitely be included in the next release of ABySS. Here's a
link to the upstream bug report.
https://github.com/bcgsc/abyss/issues/26
Cheers,
Shaun
—
http://about.me/sjackman
On Wed, Aug 14, 2013 at 4:58 PM, Andreas Tille <andr...@fam-tille.de>
wrote:
> Hi Shaun,
> I wonder if there is any reason that you did just files a bug report
> about a new version and did not simply uploaded the package as you
> formerly did. Could you please drop the Debian Med team some note if
> something prevents you from doing so.
> BTW, I checked the latest version and injected it into the Git
> repository but I realised that it does not build because of:
> g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I.
> -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -c -o libassembly_a-DotWriter.o `test -f 'DotWriter.cpp' || echo
> './'`DotWriter.cpp
> In file included from DotWriter.cpp:5:0:
> ../Graph/ContigGraphAlgorithms.h: In function 'OutIt assemble_if(Graph&,
> OutIt, Predicate)':
> ../Graph/ContigGraphAlgorithms.h:202:44: error: typedef 'vertex_descriptor'
> locally defined but not used [-Werror=unused-local-typedefs]
> typedef typename Graph::vertex_descriptor vertex_descriptor;
> ^
> cc1plus: all warnings being treated as errors
> make[3]: *** [libassembly_a-DotWriter.o] Error 1
> make[3]: Leaving directory `/tmp/buildd/abyss-1.3.6/Assembly'
> make[2]: *** [all-recursive] Error 1
> make[2]: Leaving directory `/tmp/buildd/abyss-1.3.6'
> make[1]: *** [all] Error 2
> make[1]: Leaving directory `/tmp/buildd/abyss-1.3.6'
> dh_auto_build: make -j1 returned exit code 2
> Since you are upstream dealing with things like this would be way
> simpler if you just fix these things upstream rather than leaving us
> poor packagers alone with patching.
> Kind regards
> Andras.
> --
> http://fam-tille.de
