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| author | Pjotr Prins | 2017-12-20 10:02:43 -0600 |
|---|---|---|
| committer | Pjotr Prins | 2017-12-20 10:02:43 -0600 |
| commit | 8ae775f831c278a3ad97372ad90cba5845e8e6ca (patch) | |
| tree | 71f61ba9cd61c73206e581d21e426f4f599b3a51 /wqflask | |
| parent | 837ce8b9c779b1da6e4390220ccd353b289c1fca (diff) | |
| download | genenetwork2-8ae775f831c278a3ad97372ad90cba5845e8e6ca.tar.gz | |
tools: find path for JS and gemma_wrapper
Diffstat (limited to 'wqflask')
| -rw-r--r-- | wqflask/utility/tools.py | 17 |
1 files changed, 9 insertions, 8 deletions
diff --git a/wqflask/utility/tools.py b/wqflask/utility/tools.py index 63b7149c..57f97a81 100644 --- a/wqflask/utility/tools.py +++ b/wqflask/utility/tools.py @@ -105,7 +105,7 @@ def js_path(module=None): try_guix = get_setting("JS_GUIX_PATH")+"/"+module if valid_path(try_guix): return try_guix - raise "No JS path found for "+module+" (check JS_GN_PATH)" + raise "No JS path found for "+module+" (if not in Guix check JS_GN_PATH)" def pylmm_command(guess=None): return assert_bin(get_setting("PYLMM_COMMAND",guess)) @@ -247,13 +247,14 @@ USE_GN_SERVER = get_setting_bool('USE_GN_SERVER') GENENETWORK_FILES = get_setting('GENENETWORK_FILES') JS_GUIX_PATH = get_setting('JS_GUIX_PATH') -# assert_dir(JS_GUIX_PATH) - don't enforce right now +assert_dir(JS_GUIX_PATH) JS_GN_PATH = get_setting('JS_GN_PATH') # assert_dir(JS_GN_PATH) PYLMM_COMMAND = app_set("PYLMM_COMMAND",pylmm_command()) GEMMA_COMMAND = app_set("GEMMA_COMMAND",gemma_command()) PLINK_COMMAND = app_set("PLINK_COMMAND",plink_command()) +GEMMA_WRAPPER_COMMAND = gemma_wrapper_command() TEMPDIR = tempdir() # defaults to UNIX TMPDIR assert_dir(TEMPDIR) @@ -276,9 +277,9 @@ if os.environ.get('WQFLASK_OVERRIDES'): OVERRIDES[k] = cmd logger.debug(OVERRIDES) -assert_file(PHEWAS_FILES+"/auwerx/PheWAS_pval_EMMA_norm.RData") -assert_dir(get_setting("JS_BIODALLIANCE")) -assert_file(get_setting("JS_BIODALLIANCE")+"/build/dalliance-all.js") -assert_file(get_setting("JS_BIODALLIANCE")+"/build/worker-all.js") -assert_dir(get_setting("JS_TWITTER_POST_FETCHER")) -assert_file(get_setting("JS_TWITTER_POST_FETCHER")+"/js/twitterFetcher_min.js") +# assert_file(PHEWAS_FILES+"/auwerx/PheWAS_pval_EMMA_norm.RData") +# assert_dir(get_setting("JS_BIODALLIANCE")) +# assert_file(get_setting("JS_BIODALLIANCE")+"/build/dalliance-all.js") +# assert_file(get_setting("JS_BIODALLIANCE")+"/build/worker-all.js") +# assert_dir(get_setting("JS_TWITTER_POST_FETCHER")) +assert_file(JS_TWITTER_POST_FETCHER_PATH+"/js/twitterFetcher_min.js") |