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Diffstat (limited to 'var/spack/repos/builtin/packages/trinotate/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/trinotate/package.py | 42 |
1 files changed, 42 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/trinotate/package.py b/var/spack/repos/builtin/packages/trinotate/package.py new file mode 100644 index 0000000000..718a061ba8 --- /dev/null +++ b/var/spack/repos/builtin/packages/trinotate/package.py @@ -0,0 +1,42 @@ +# 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 os + + +class Trinotate(Package): + """Trinotate is a comprehensive annotation suite designed for + automatic functional annotation of transcriptomes, particularly + de novo assembled transcriptomes, from model or non-model organisms""" + + homepage = "https://trinotate.github.io/" + url = "https://github.com/Trinotate/Trinotate/archive/Trinotate-v3.1.1.tar.gz" + + version('3.1.1', sha256='f8af0fa5dbeaaf5a085132cd4ac4f4206b05cc4630f0a17a672c586691f03843') + + depends_on('trinity', type='run') + depends_on('transdecoder', type='run') + depends_on('sqlite', type='run') + depends_on('ncbi-rmblastn', type='run') + depends_on('hmmer', type='run') + depends_on('perl', type='run') + depends_on('lighttpd', type='run') + depends_on('perl-dbi', type='run') + depends_on('perl-dbd-mysql', type='run') + depends_on('perl-cgi', type='run') + + def install(self, spec, prefix): + # most of the perl modules have local deps, install the whole tree + mkdirp(prefix.lib) + install_tree('.', join_path(prefix.lib, 'trinotate')) + + mkdirp(prefix.bin) + os.symlink(join_path(prefix.lib, 'trinotate/Trinotate'), + join_path(prefix.bin, 'Trinotate')) + + os.symlink(join_path(prefix.lib, + 'trinotate/run_TrinotateWebserver.pl'), + join_path(prefix.bin, 'run_TrinotateWebserver.pl')) |