<div>Hi Andreas,</div>
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<div>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.</div>
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<div>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.</div>
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<span style="font-family: '.HelveticaNeueUI'; font-size: 15px; line-height: 19px; white-space: nowrap; -webkit-tap-highlight-color: rgba(26, 26, 26, 0.292969); -webkit-composition-fill-color: rgba(175, 192, 227, 0.230469); -webkit-composition-frame-color: rgba(77, 128, 180, 0.230469); ">https://github.com/bcgsc/abyss/issues/26</span>
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<span style="font-family: '.HelveticaNeueUI'; font-size: 15px; line-height: 19px; white-space: nowrap; -webkit-tap-highlight-color: rgba(26, 26, 26, 0.292969); -webkit-composition-fill-color: rgba(175, 192, 227, 0.230469); -webkit-composition-frame-color: rgba(77, 128, 180, 0.230469); ">
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<div>Cheers,</div>
<div>Shaun</div>
<div class="mailbox_signature">—<br>http://about.me/sjackman</div>
<br><br><div class="gmail_quote"><p>On Wed, Aug 14, 2013 at 4:58 PM, Andreas Tille <span dir="ltr"><<a href="mailto:andreas@fam-tille.de" target="_blank">andreas@fam-tille.de</a>></span> wrote:<br></p><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;"><p>Hi Shaun,
<br><br>I wonder if there is any reason that you did just files a bug report
<br>about a new version and did not simply uploaded the package as you
<br>formerly did. Could you please drop the Debian Med team some note if
<br>something prevents you from doing so.
<br><br>BTW, I checked the latest version and injected it into the Git
<br>repository but I realised that it does not build because of:
<br><br><br>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
<br>In file included from DotWriter.cpp:5:0:
<br>../Graph/ContigGraphAlgorithms.h: In function 'OutIt assemble_if(Graph&, OutIt, Predicate)':
<br>../Graph/ContigGraphAlgorithms.h:202:44: error: typedef 'vertex_descriptor' locally defined but not used [-Werror=unused-local-typedefs]
<br> typedef typename Graph::vertex_descriptor vertex_descriptor;
<br> ^
<br>cc1plus: all warnings being treated as errors
<br>make[3]: *** [libassembly_a-DotWriter.o] Error 1
<br>make[3]: Leaving directory `/tmp/buildd/abyss-1.3.6/Assembly'
<br>make[2]: *** [all-recursive] Error 1
<br>make[2]: Leaving directory `/tmp/buildd/abyss-1.3.6'
<br>make[1]: *** [all] Error 2
<br>make[1]: Leaving directory `/tmp/buildd/abyss-1.3.6'
<br>dh_auto_build: make -j1 returned exit code 2
<br><br><br>Since you are upstream dealing with things like this would be way
<br>simpler if you just fix these things upstream rather than leaving us
<br>poor packagers alone with patching.
<br><br>Kind regards
<br><br> Andras.
<br><br>--
<br>http://fam-tille.de
<br></p></blockquote></div><br>