diff options
Diffstat (limited to 'var')
| -rw-r--r-- | var/spack/repos/builtin/packages/repeatmasker/package.py | 33 |
1 files changed, 23 insertions, 10 deletions
diff --git a/var/spack/repos/builtin/packages/repeatmasker/package.py b/var/spack/repos/builtin/packages/repeatmasker/package.py index f91f71aaba..bac7eb8377 100644 --- a/var/spack/repos/builtin/packages/repeatmasker/package.py +++ b/var/spack/repos/builtin/packages/repeatmasker/package.py @@ -4,7 +4,6 @@ # SPDX-License-Identifier: (Apache-2.0 OR MIT) from spack import * -import inspect class Repeatmasker(Package): @@ -14,6 +13,7 @@ class Repeatmasker(Package): homepage = "http://www.repeatmasker.org" url = "http://www.repeatmasker.org/RepeatMasker-open-4-0-7.tar.gz" + version('4.0.9', sha256='8d67415d89ed301670b7632ea411f794c6e30d8ed0f007a726c4b0a39c8638e5') version('4.0.7', '4dcbd7c88c5343e02d819f4b3e6527c6') variant('crossmatch', description='Enable CrossMatch search engine', @@ -50,24 +50,37 @@ class Repeatmasker(Package): # Repeatmasker? (Y/N) # Add a Search Engine: Done - config_answers = ['\n', '%s\n' % self.spec['perl'].command.path, - '%s\n' % self.stage.source_path, - '%s\n' % self.spec['trf'].prefix.bin.trf, '2\n', - '%s\n' % self.spec['ncbi-rmblastn'].prefix.bin, - 'Y\n'] + config_answers = [] + if spec.satisfies('@4.0.9:'): + # 4.0.9 removes a bunch of the interactive options + config_answers.append('') + else: + config_answers.extend(['', + self.spec['perl'].command.path, + self.stage.source_path, + self.spec['trf'].prefix.bin.trf]) + + # add crossmatch search if '+crossmatch' in spec: crossmatch = self.spec['phrap-crossmatch-swat'].prefix.bin - config_answers.extend(['1\n', '%s\n' % crossmatch, 'N\n']) + config_answers.extend(['1', crossmatch, 'N']) + + # set default BLAST search + config_answers.extend(['2', + self.spec['ncbi-rmblastn'].prefix.bin, + 'Y']) - config_answers.append('5\n') + # end configuration + config_answers.append('5') config_answers_filename = 'spack-config.in' with open(config_answers_filename, 'w') as f: - f.writelines(config_answers) + f.write('\n'.join(config_answers)) with open(config_answers_filename, 'r') as f: - inspect.getmodule(self).perl('configure', input=f) + perl = which('perl') + perl('configure', input=f) install_tree('.', prefix.bin) |