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Bug 472088 - sci-biology/vaal-45166 please stabilize
Summary: sci-biology/vaal-45166 please stabilize
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: [OLD] Keywording and Stabilization (show other bugs)
Hardware: All Linux
: Normal enhancement (vote)
Assignee: Gentoo Science Biology related packages
URL:
Whiteboard:
Keywords: STABLEREQ
Depends on: gcc-4.7-stable 488550
Blocks:
  Show dependency tree
 
Reported: 2013-06-02 12:08 UTC by Justin Lecher (RETIRED)
Modified: 2013-11-12 17:45 UTC (History)
0 users

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Package list:
Runtime testing required: ---

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Description Justin Lecher (RETIRED) gentoo-dev 2013-06-02 12:08:15 UTC 
Please stable
Comment 1 Justin Lecher (RETIRED) gentoo-dev 2013-06-02 12:10:38 UTC 
Testsuite:

mkdir test/2039F.2
cd test/2039F.2
wget ftp://ftp.broadinstitute.org/pub/crd/VAAL/bacterial_lanes/2039F.2.fasta.gz
wget ftp://ftp.broadinstitute.org/pub/crd/VAAL/bacterial_lanes/2039F.2.qual.gz
wget ftp://ftp.broadinstitute.org/pub/crd/VAAL/bacterial_references/E.coli.fasta.gz
for i in *gz; do gunzip $i; done
cd ..
VAALrun SOURCE=2039F.2 REF=E.coli VECSEQ=v
Comment 2 Agostino Sarubbo gentoo-dev 2013-06-29 09:51:22 UTC 
Failed...
configure: Configure failed with the error message: You must compile this with g++ 4.7 or higher.
configure: 
configure: Common error conditions in the build process are documented
configure: on our wiki page:
configure: http://www.broadinstitute.org/crd/wiki/index.php/Build_FAQ
configure: We also offer email support at crdhelp@broadinstitute.org
configure: error: in `/var/tmp/portage/sci-biology/vaal-45166/work/vaal-45166_build':
configure: error: Configure failed.
See `config.log' for more details
Comment 3 Justin Lecher (RETIRED) gentoo-dev 2013-06-30 16:32:35 UTC 
Then we need to wait for gcc-4.7. I don't know why but upstream things this is a good idea.
Comment 4 Justin Lecher (RETIRED) gentoo-dev 2013-11-12 17:45:53 UTC 
+  12 Nov 2013; Justin Lecher <jlec@gentoo.org> vaal-1.6.ebuild,
+  vaal-42179.ebuild, vaal-45166.ebuild, vaal-46233.ebuild:
+  Drop x86 as upstream gives no support and types are not easily fixable,
+  #458488, #472088 & #488550
+