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
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
|
# Copyright 2013-2018 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 *
import inspect
class PerlBioPerl(PerlPackage):
"""Functional access to BioPerl for people who don't know objects"""
homepage = "http://search.cpan.org/~cjfields/BioPerl-1.007002/Bio/Perl.pm"
url = "http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.007002.tar.gz"
version('1.007002', 'a912c92b56d009198f1786b4cf560d5c')
depends_on('perl-module-build', type='build')
depends_on('perl-uri-escape', type=('build', 'run'))
depends_on('perl-io-string', type=('build', 'run'))
depends_on('perl-data-stag', type=('build', 'run'))
depends_on('perl-test-most', type=('build', 'run'))
def configure(self, spec, prefix):
# Overriding default configure method in order to cater to interactive
# Build.pl
self.build_method = 'Build.PL'
self.build_executable = Executable(
join_path(self.stage.source_path, 'Build'))
# Config questions consist of:
# Do you want to run the Bio::DB::GFF or Bio::DB::SeqFeature::Store
# live database tests? y/n [n]
#
# Install [a]ll BioPerl scripts, [n]one, or choose groups
# [i]nteractively? [a]
#
# Do you want to run tests that require connection to servers across
# the internet (likely to cause some failures)? y/n [n]
#
# Eventually, someone can add capability for the other options, but
# the current answers are the most practical for a spack install.
config_answers = ['n\n', 'a\n', 'n\n']
config_answers_filename = 'spack-config.in'
with open(config_answers_filename, 'w') as f:
f.writelines(config_answers)
with open(config_answers_filename, 'r') as f:
inspect.getmodule(self).perl('Build.PL', '--install_base=%s' %
self.prefix, input=f)
|
