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De novo assembly of whole-genome shotgun microreads



# ChangeLog for sci-biology/allpathslg
# Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2
# (auto-generated from git log)

*allpathslg-52415 (09 Aug 2015)
*allpathslg-47093 (09 Aug 2015)
*allpathslg-42337 (09 Aug 2015)

09 Aug 2015; Robin H. Johnson <> +allpathslg-42337.ebuild,
+allpathslg-47093.ebuild, +allpathslg-52415.ebuild,
+files/allpathslg-47093-gcc4.9.patch, +metadata.xml:
proj/gentoo: Initial commit

This commit represents a new era for Gentoo:
Storing the gentoo-x86 tree in Git, as converted from CVS.

This commit is the start of the NEW history.
Any historical data is intended to be grafted onto this point.

Creation process:
1. Take final CVS checkout snapshot
2. Remove ALL ChangeLog* files
3. Transform all Manifests to thin
4. Remove empty Manifests
5. Convert all stale $Header$/$Id$ CVS keywords to non-expanded Git $Id$
5.1. Do not touch files with -kb/-ko keyword flags.

Signed-off-by: Robin H. Johnson <>
X-Thanks: Alec Warner <> - did the GSoC 2006 migration
X-Thanks: Robin H. Johnson <> - infra guy, herding this
X-Thanks: Nguyen Thai Ngoc Duy <> - Former Gentoo
developer, wrote Git features for the migration
X-Thanks: Brian Harring <> - wrote much python to improve
X-Thanks: Rich Freeman <> - validation scripts
X-Thanks: Patrick Lauer <> - Gentoo dev, running new 2014
work in migration
X-Thanks: Michał Górny <> - scripts, QA, nagging
X-Thanks: All of other Gentoo developers - many ideas and lots of paint on
the bikeshed

24 Aug 2015; Justin Lecher <> metadata.xml:
Use https by default

Convert all URLs for sites supporting encrypted connections from http to

Signed-off-by: Justin Lecher <>

24 Aug 2015; Mike Gilbert <> metadata.xml:
Revert DOCTYPE SYSTEM https changes in metadata.xml

repoman does not yet accept the https version.
This partially reverts eaaface92ee81f30a6ac66fe7acbcc42c00dc450.


*allpathslg-52488 (23 Dec 2015)

23 Dec 2015; Justin Lecher <> +allpathslg-52488.ebuild,
Version bump and fix bug 568440.

Package-Manager: portage-2.2.26

23 Dec 2015; Justin Lecher <> allpathslg-52488.ebuild:
default_src_configure doesn't support myeconfargs

Package-Manager: portage-2.2.26
Signed-off-by: Justin Lecher <>

23 Dec 2015; Justin Lecher <> -allpathslg-47093.ebuild,
Drop old

Package-Manager: portage-2.2.26
Signed-off-by: Justin Lecher <>

29 Dec 2015; Justin Lecher <> allpathslg-52488.ebuild:
Block sci-biology/vaal as it is nicluded in this release


Package-Manager: portage-2.2.26
Signed-off-by: Justin Lecher <>

*allpathslg-52488-r1 (17 Jan 2016)

17 Jan 2016; David Seifert <> -allpathslg-52488.ebuild,
Add blocking packages to RDEPEND too

Package-Manager: portage-2.2.26

24 Jan 2016; Michał Górny <> metadata.xml:
Replace all herds with appropriate projects (GLEP 67)

Replace all uses of herd with appropriate project maintainers, or no
maintainers in case of herds requested to be disbanded.

24 Jan 2016; Michał Górny <> metadata.xml:
Set appropriate maintainer types in metadata.xml (GLEP 67)

05 May 2016; David Seifert <>
replace isnan macro with proper std::isnan function

Gentoo-Bug: 580086

Package-Manager: portage-2.2.28

*allpathslg-52488-r2 (13 Aug 2016)

13 Aug 2016; David Seifert <> -allpathslg-52488-r1.ebuild,
Unconditionally require OpenMP support

Gentoo-bug: 591166
* The configure script of sci-biology/allpathslg allows for
specifying --enable/--disable-openmp, without it actually
being optional.

Package-Manager: portage-2.3.0