diff options
Diffstat (limited to 'var/spack/repos/builtin/packages/snpeff/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/snpeff/package.py | 7 |
1 files changed, 3 insertions, 4 deletions
diff --git a/var/spack/repos/builtin/packages/snpeff/package.py b/var/spack/repos/builtin/packages/snpeff/package.py index 44652ccee0..2d8c7900ce 100644 --- a/var/spack/repos/builtin/packages/snpeff/package.py +++ b/var/spack/repos/builtin/packages/snpeff/package.py @@ -24,7 +24,6 @@ ############################################################################## from spack import * import os.path -from shutil import copyfile class Snpeff(Package): @@ -45,13 +44,13 @@ class Snpeff(Package): # Set up a helper script to call java on the jar file, # explicitly codes the path for java and the jar file. script_sh = join_path(os.path.dirname(__file__), "snpEff.sh") - script = join_path(prefix.bin, "snpEff") - copyfile(script_sh, script) + script = prefix.bin.snpEff + install(script_sh, script) set_executable(script) # Munge the helper script to explicitly point to java and the # jar file. - java = join_path(self.spec['java'].prefix.bin, 'java') + java = self.spec['java'].prefix.bin.java kwargs = {'backup': False} filter_file('^java', java, script, **kwargs) filter_file('snpEff.jar', join_path(prefix.bin, 'snpEff.jar'), |