def install_gemini(env):
"""A lightweight db framework for disease and population genetics.
https://github.com/arq5x/gemini
"""
version = "0.6.4"
if versioncheck.up_to_date(env, "gemini -v", version,
stdout_flag="gemini"):
return
elif not shared._executable_not_on_path("gemini -v"):
env.safe_run("gemini update")
else:
iurl = "https://raw.github.com/arq5x/gemini/master/gemini/scripts/gemini_install.py"
data_dir = os.path.join(
env.system_install,
"local" if env.system_install.find("/local") == -1 else "",
"share", "gemini")
with _make_tmp_dir(ext="-gemini") as work_dir:
with cd(work_dir):
if env.safe_exists(os.path.basename(iurl)):
env.safe_run("rm -f %s" % os.path.basename(iurl))
installer = shared._remote_fetch(env, iurl)
env.safe_run("%s %s %s %s %s" %
(_python_cmd(env), installer, "" if env.use_sudo
else "--nosudo", env.system_install, data_dir))
env.safe_run("rm -f gemini_install.py")
def _gemini_install(env):
env.safe_sudo("{0} install --upgrade cython".format(_pip_cmd(env)))
env.safe_sudo("{0} install --upgrade distribute".format(_pip_cmd(env)))
_python_make(env)
env.safe_sudo("mkdir -p {0}".format(data_dir))
env.safe_sudo("chown {0} {1}".format(env.user, data_dir))
run("{0} gemini/install-data.py {1}".format(_python_cmd(env), data_dir))
env.safe_sudo("rm -rf gemini.egg-info")
def install_gemini(env):
"""A lightweight db framework for disease and population genetics.
https://github.com/arq5x/gemini
"""
version = "github"
installer = "https://raw.github.com/arq5x/gemini/master/gemini/scripts/gemini_install.py"
data_dir = os.path.join(env.system_install, "local", "share", "gemini")
with _make_tmp_dir() as work_dir:
with cd(work_dir):
env.safe_run("wget --no-check-certificate %s" % installer)
env.safe_run("%s gemini_install.py %s %s %s" %
(_python_cmd(env), "" if env.use_sudo else "--nosudo",
env.system_install, data_dir))
env.safe_run("rm -f gemini_install.py")
def install_gemini(env):
"""A lightweight db framework for disease and population genetics.
https://github.com/arq5x/gemini
"""
version = "github"
installer = "https://raw.github.com/arq5x/gemini/master/gemini/scripts/gemini_install.py"
data_dir = os.path.join(env.system_install, "local", "share", "gemini")
with _make_tmp_dir() as work_dir:
with cd(work_dir):
env.safe_run("wget --no-check-certificate %s" % installer)
env.safe_run("%s gemini_install.py %s %s %s" %
(_python_cmd(env), "" if env.use_sudo else "--nosudo",
env.system_install, data_dir))
env.safe_run("rm -f gemini_install.py")
def install_gemini(env):
"""A lightweight db framework for disease and population genetics.
https://github.com/arq5x/gemini
"""
version = "0.6.1"
if versioncheck.up_to_date(env, "gemini -v", version, stdout_flag="gemini"):
return
elif not shared._executable_not_on_path("gemini -v"):
env.safe_run("gemini update")
else:
iurl = "https://raw.github.com/arq5x/gemini/master/gemini/scripts/gemini_install.py"
data_dir = os.path.join(env.system_install,
"local" if env.system_install.find("/local") == -1 else "",
"share", "gemini")
with _make_tmp_dir(ext="-gemini") as work_dir:
with cd(work_dir):
if env.safe_exists(os.path.basename(iurl)):
env.safe_run("rm -f %s" % os.path.basename(iurl))
installer = shared._remote_fetch(env, iurl)
env.safe_run("%s %s %s %s %s" %
(_python_cmd(env), installer, "" if env.use_sudo else "--nosudo",
env.system_install, data_dir))
env.safe_run("rm -f gemini_install.py")