1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
|
# 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 Canu(MakefilePackage):
"""A single molecule sequence assembler for genomes large and
small."""
homepage = "http://canu.readthedocs.io/"
url = "https://github.com/marbl/canu/archive/v1.5.tar.gz"
version('1.8', sha256='30ecfe574166f54f79606038830f68927cf0efab33bdc3c6e43fd1448fa0b2e4')
version('1.7.1', sha256='c314659c929ee05fd413274f391463a93f19b8337eabb7ee5de1ecfc061caafa')
version('1.7', sha256='c5be54b0ad20729093413e7e722a19637d32e966dc8ecd2b579ba3e4958d378a')
version('1.5', sha256='06e2c6d7b9f6d325b3b468e9c1a5de65e4689aed41154f2cee5ccd2cef0d5cf6')
depends_on('gnuplot', type='run')
depends_on('jdk', type='run')
depends_on('perl', type='run')
build_directory = 'src'
build_targets = ['clean']
def patch(self):
# Use our perl, not whatever is in the environment
filter_file(r'^#!/usr/bin/env perl',
'#!{0}'.format(self.spec['perl'].command.path),
'src/pipelines/canu.pl')
def install(self, spec, prefix):
with working_dir(self.build_directory):
make('all', 'TARGET_DIR={0}'.format(prefix))
|
