diff options
Diffstat (limited to 'wqflask/utility/tools.py')
| -rw-r--r-- | wqflask/utility/tools.py | 54 |
1 files changed, 36 insertions, 18 deletions
diff --git a/wqflask/utility/tools.py b/wqflask/utility/tools.py index d3113302..ea216a35 100644 --- a/wqflask/utility/tools.py +++ b/wqflask/utility/tools.py @@ -54,7 +54,7 @@ def get_setting(command_id,guess=None): # print("Looking for "+command_id+"\n") command = value(os.environ.get(command_id)) if command is None or command == "": - command = OVERRIDES.get(command_id) + command = OVERRIDES.get(command_id) # currently not in use if command is None: # ---- Check whether setting exists in app command = value(app.config.get(command_id)) @@ -220,7 +220,7 @@ def show_settings(): logger.info(OVERRIDES) logger.info(BLUE+"Mr. Mojo Risin 2"+ENDC) - print "runserver.py: ****** Webserver configuration ******" + print "runserver.py: ****** Webserver configuration - k,v pairs from app.config ******" keylist = app.config.keys() keylist.sort() for k in keylist: @@ -251,6 +251,31 @@ assert_dir(JS_GUIX_PATH) JS_GN_PATH = get_setting('JS_GN_PATH') # assert_dir(JS_GN_PATH) +GITHUB_CLIENT_ID = get_setting('GITHUB_CLIENT_ID') +GITHUB_CLIENT_SECRET = get_setting('GITHUB_CLIENT_SECRET') +GITHUB_AUTH_URL = None +if GITHUB_CLIENT_ID != 'UNKNOWN' and GITHUB_CLIENT_SECRET: + GITHUB_AUTH_URL = "https://github.com/login/oauth/authorize?client_id=" + \ + GITHUB_CLIENT_ID+"&client_secret="+GITHUB_CLIENT_SECRET + GITHUB_API_URL = get_setting('GITHUB_API_URL') + +ORCID_CLIENT_ID = get_setting('ORCID_CLIENT_ID') +ORCID_CLIENT_SECRET = get_setting('ORCID_CLIENT_SECRET') +ORCID_AUTH_URL = None +if ORCID_CLIENT_ID != 'UNKNOWN' and ORCID_CLIENT_SECRET: + ORCID_AUTH_URL = "https://sandbox.orcid.org/oauth/authorize?response_type=code&scope=/authenticate&show_login=true&client_id=" + \ + ORCID_CLIENT_ID+"&client_secret="+ORCID_CLIENT_SECRET + ORCID_TOKEN_URL = get_setting('ORCID_TOKEN_URL') + +ELASTICSEARCH_HOST = get_setting('ELASTICSEARCH_HOST') +ELASTICSEARCH_PORT = get_setting('ELASTICSEARCH_PORT') +import utility.elasticsearch_tools as es +es.test_elasticsearch_connection() + +SMTP_CONNECT = get_setting('SMTP_CONNECT') +SMTP_USERNAME = get_setting('SMTP_USERNAME') +SMTP_PASSWORD = get_setting('SMTP_PASSWORD') + PYLMM_COMMAND = app_set("PYLMM_COMMAND",pylmm_command()) GEMMA_COMMAND = app_set("GEMMA_COMMAND",gemma_command()) assert(GEMMA_COMMAND is not None) @@ -260,23 +285,16 @@ TEMPDIR = tempdir() # defaults to UNIX TMPDIR assert_dir(TEMPDIR) # ---- Handle specific JS modules +JS_GUIX_PATH = get_setting("JS_GUIX_PATH") +assert_dir(JS_GUIX_PATH) +assert_dir(JS_GUIX_PATH+'/cytoscape-panzoom') +CSS_PATH = "UNKNOWN" +# assert_dir(JS_PATH) JS_TWITTER_POST_FETCHER_PATH = get_setting("JS_TWITTER_POST_FETCHER_PATH",js_path("Twitter-Post-Fetcher")) assert_dir(JS_TWITTER_POST_FETCHER_PATH) - -from six import string_types - -if os.environ.get('WQFLASK_OVERRIDES'): - jsonfn = get_setting('WQFLASK_OVERRIDES') - logger.info("WQFLASK_OVERRIDES: %s" % jsonfn) - with open(jsonfn) as data_file: - overrides = json.load(data_file) - for k in overrides: - cmd = overrides[k] - if isinstance(cmd, string_types): - OVERRIDES[k] = eval(cmd) - else: - OVERRIDES[k] = cmd - logger.debug(OVERRIDES) +assert_file(JS_TWITTER_POST_FETCHER_PATH+"/js/twitterFetcher_min.js") +JS_CYTOSCAPE_PATH = get_setting("JS_CYTOSCAPE_PATH",js_path("cytoscape")) +assert_dir(JS_CYTOSCAPE_PATH) +assert_file(JS_CYTOSCAPE_PATH+'/cytoscape.min.js') # assert_file(PHEWAS_FILES+"/auwerx/PheWAS_pval_EMMA_norm.RData") -assert_file(JS_TWITTER_POST_FETCHER_PATH+"/js/twitterFetcher_min.js") |