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Fix gb2_proxy_init error due to wrong HOME from gbasf2 setup script #141

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merged 1 commit into from
Oct 20, 2021
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Fix gb2_proxy_init error due to wrong HOME from gbasf2 setup script #141

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4 changes: 4 additions & 0 deletions b2luigi/batch/processes/gbasf2.py
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Original file line number Diff line number Diff line change
Expand Up @@ -928,6 +928,10 @@ def get_gbasf2_env(gbasf2_install_directory=None):
echo_gbasf2_env_command, check=True, stdout=subprocess.PIPE, encoding="utf-8"
).stdout
gbasf2_env = dict(line.split("=", 1) for line in gbasf2_env_string.splitlines())
# The gbasf2 setup script on sets HOME to /ext/home/ueda if it's unset,
# which later causes problems in the gb2_proxy_init subprocess. Therefore,
# reset it to the caller's HOME.
gbasf2_env["HOME"] = os.getenv("HOME")
return gbasf2_env


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