diff options
| -rw-r--r-- | etc/default_settings.py | 6 | ||||
| -rw-r--r-- | wqflask/utility/tools.py | 10 |
2 files changed, 6 insertions, 10 deletions
diff --git a/etc/default_settings.py b/etc/default_settings.py index 48d3f66b..6a218f26 100644 --- a/etc/default_settings.py +++ b/etc/default_settings.py @@ -24,6 +24,6 @@ SECRET_HMAC_CODE = '\x08\xdf\xfa\x93N\x80\xd9\\H@\\\x9f`\x98d^\xb4a;\xc6OM\x946a # Path overrides for Genenetwork GENENETWORK_FILES = "../../gn2_data" -PYLMM_RUN = os.popen("which pylmm_redis").read() -PLINK_RUN = os.popen("which plink2").read() -GEMMA_RUN = os.popen("which gemma").read() +PYLMM_COMMAND = os.popen("which pylmm_redis").read() +PLINK_COMMAND = os.popen("which plink2").read() +GEMMA_COMMAND = os.popen("which gemma").read() diff --git a/wqflask/utility/tools.py b/wqflask/utility/tools.py index d4c10c68..0f2e4d88 100644 --- a/wqflask/utility/tools.py +++ b/wqflask/utility/tools.py @@ -1,9 +1,5 @@ # Tools/paths finder resolves external paths from settings and/or environment # variables -# -# Currently supported: -# -# PYLMM_PATH finds the root of the git repository of the pylmm_gn2 tool import os import sys @@ -69,13 +65,13 @@ def valid_path(dir): return None def pylmm_command(guess=None): - return valid_bin(get_setting("PYLMM_RUN",guess)) + return valid_bin(get_setting("PYLMM_COMMAND",guess)) def gemma_command(guess=None): - return valid_bin(get_setting("GEMMA_RUN",guess)) + return valid_bin(get_setting("GEMMA_COMMAND",guess)) def plink_command(guess=None): - return valid_bin(get_setting("PLINK_RUN",guess)) + return valid_bin(get_setting("PLINK_COMMAND",guess)) def flat_files(subdir=None): base = get_setting("GENENETWORK_FILES") |