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| author | pjotrp | 2016-02-24 09:25:43 +0000 |
|---|---|---|
| committer | Pjotr Prins | 2016-04-20 09:01:42 +0000 |
| commit | 92fda7557645199276bf4f8a65c40252c4d83c21 (patch) | |
| tree | 824940fb4a5a768128a8ba4d4a804558628f31d6 /wqflask/utility | |
| parent | e5951ad5f3bb244e4dc53cd04c291dcbdef544a0 (diff) | |
| download | genenetwork2-92fda7557645199276bf4f8a65c40252c4d83c21.tar.gz | |
Settled on the _COMMAND syntax over _RUN
Diffstat (limited to 'wqflask/utility')
| -rw-r--r-- | wqflask/utility/tools.py | 10 |
1 files changed, 3 insertions, 7 deletions
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") |