old_contents: # Copyright 2013-2021 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 NcbiRmblastn(AutotoolsPackage):
      """RMBlast search engine for NCBI"""
  
      homepage = "http://www.repeatmasker.org/RMBlast.html"
      url      = "ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.9.0/ncbi-blast-2.9.0+-src.tar.gz"
  
      version('2.11.0', sha256='d88e1858ae7ce553545a795a2120e657a799a6d334f2a07ef0330cc3e74e1954')
      version('2.9.0', sha256='a390cc2d7a09422759fc178db84de9def822cbe485916bbb2ec0d215dacdc257')
  
      # There is a corresponding gzipped patch file associated with each version.
      # According to the documentation, http://www.repeatmasker.org/RMBlast.html,
      # Download NCBI Blast+ and rmblast patch file:
      #   ncbi-blast-2.11.0+-src.tar.gz
      #   isb-2.11.0+-rmblast.patch.gz
      # The patch is downloaded and unzipped in the ncbi-rmblastn Spack package
      # directory to make it available for the patch directive.
      patch(
          'http://www.repeatmasker.org/isb-2.11.0+-rmblast.patch.gz',
          sha256='ce985abd3512834adb9ad3e4078fbf9608a33a2ee6538a1e94b641490c92f899',
          archive_sha256='0fc27781c2ea2f17645247e2f3775b5d18c56f0b62761a865347be745ea4f6be',
          when='@2.11.0'
      )
      patch(
          'http://www.repeatmasker.org/isb-2.9.0+-rmblast.patch.gz',
          sha256='ffa0845801aed11f4215b452532f3ff5b3dcb49ac8c14169568aaa585b9450ed',
          archive_sha256='e746ee480ade608052306fd21f015c8a323f27029f65399275216f9a4c882d59',
          when='@2.9.0'
      )
  
      configure_directory = 'c++'
  
      def url_for_version(self, version):
          url = "ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/{0}/ncbi-blast-{1}+-src.tar.gz"
          return url.format(version, version)
  
      def configure_args(self):
          args = [
              "--with-mt",
              "--without-debug",
              "--without-krb5",
              "--without-openssl",
              "--with-projects=scripts/projects/rmblastn/project.lst"]
          return args
  
new_contents: # Copyright 2013-2021 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 NcbiRmblastn(AutotoolsPackage):
      """RMBlast search engine for NCBI"""
  
      homepage = "http://www.repeatmasker.org/RMBlast.html"
      url      = "ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.9.0/ncbi-blast-2.9.0+-src.tar.gz"
  
      version('2.11.0', sha256='d88e1858ae7ce553545a795a2120e657a799a6d334f2a07ef0330cc3e74e1954')
      version('2.9.0', sha256='a390cc2d7a09422759fc178db84de9def822cbe485916bbb2ec0d215dacdc257')
  
      # There is a corresponding gzipped patch file associated with each version.
      # According to the documentation, http://www.repeatmasker.org/RMBlast.html,
      # Download NCBI Blast+ and rmblast patch file:
      #   ncbi-blast-2.11.0+-src.tar.gz
      #   isb-2.11.0+-rmblast.patch.gz
      # The patch is downloaded and unzipped in the ncbi-rmblastn Spack package
      # directory to make it available for the patch directive.
      patch(
          'http://www.repeatmasker.org/isb-2.11.0+-rmblast.patch.gz',
          sha256='ce985abd3512834adb9ad3e4078fbf9608a33a2ee6538a1e94b641490c92f899',
          archive_sha256='0fc27781c2ea2f17645247e2f3775b5d18c56f0b62761a865347be745ea4f6be',
          when='@2.11.0'
      )
      patch(
          'http://www.repeatmasker.org/isb-2.9.0+-rmblast.patch.gz',
          sha256='ffa0845801aed11f4215b452532f3ff5b3dcb49ac8c14169568aaa585b9450ed',
          archive_sha256='e746ee480ade608052306fd21f015c8a323f27029f65399275216f9a4c882d59',
          when='@2.9.0'
      )
      depends_on('cpio', type='build')
  
      configure_directory = 'c++'
  
      def url_for_version(self, version):
          url = "ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/{0}/ncbi-blast-{1}+-src.tar.gz"
          return url.format(version, version)
  
      def configure_args(self):
          args = [
              "--with-mt",
              "--without-debug",
              "--without-krb5",
              "--without-openssl",
              "--with-projects=scripts/projects/rmblastn/project.lst"]
          return args
  
subject: add build dependency on cpio (#24963)