From 691a2f4b716cea8647b2d08c4f99f0870aba0fb2 Mon Sep 17 00:00:00 2001 From: Sinan Date: Mon, 25 Feb 2019 00:44:05 -0800 Subject: py-unicycler: new package (#7727) --- .../repos/builtin/packages/py-unicycler/package.py | 35 ++++++++++++++++++++++ 1 file changed, 35 insertions(+) create mode 100644 var/spack/repos/builtin/packages/py-unicycler/package.py diff --git a/var/spack/repos/builtin/packages/py-unicycler/package.py b/var/spack/repos/builtin/packages/py-unicycler/package.py new file mode 100644 index 0000000000..4018baa4ba --- /dev/null +++ b/var/spack/repos/builtin/packages/py-unicycler/package.py @@ -0,0 +1,35 @@ +# Copyright 2013-2019 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack import * + + +class PyUnicycler(PythonPackage): + """Unicycler is an assembly pipeline for bacterial genomes. It can + assemble Illumina-only read sets where it functions as a SPAdes-optimiser. + It can also assembly long-read-only sets (PacBio or Nanopore) where it + runs a miniasm+Racon pipeline. For the best possible assemblies, give it + both Illumina reads and long reads, and it will conduct a hybrid assembly. + """ + + homepage = "https://github.com/rrwick/Unicycler" + url = "https://github.com/rrwick/Unicycler/archive/v0.4.5.tar.gz" + + version('0.4.7', '10ee4fef4bd9a46702de83537a902164') + version('0.4.6', '78633a5f557af23e62d6b37d1caedf53') + version('0.4.5', 'f7b4f6b712fee6a4fa86a046a6781768') + + depends_on('python@3.4:', type=('build', 'link', 'run')) + depends_on('py-setuptools', type=('build', 'run')) + depends_on('spades', type='run') + depends_on('pilon', type='run') + depends_on('jdk', type=('build', 'run')) + depends_on('bowtie2', type='run') + depends_on('samtools@1.0:', type=('build', 'link', 'run')) + depends_on('racon', type=('build', 'link', 'run')) + depends_on('blast-plus', type='run') + + conflicts('%gcc@:4.9.0') + conflicts('%clang@:3.4.2') -- cgit v1.2.3-70-g09d2