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authorMunyoki Kilyungi2022-08-29 12:11:41 +0300
committerBonfaceKilz2022-08-31 23:14:30 +0300
commit8c06a9534d3340ff0287b5c70f63b2000b6eb612 (patch)
tree799c07875ea3fee05b444b3375cfb69c5c277092 /wqflask/db
parent404d750ca24b3bb5c6284af354776b9bdb7fcef8 (diff)
downloadgenenetwork2-8c06a9534d3340ff0287b5c70f63b2000b6eb612.tar.gz
Remove usage of "logger" and un-necessary comments wrt the same
Logging is used to introspect variables or notify the commencement of a given operation. Logging should only be used to log errors. Also, most of the logging is either "logger.debug" or "logger.info"; and this won't show up in production/testing since we need a logging level above "WARNING" for them to show up. * wqflask/base/data_set.py (create_datasets_list): Remove logger. (Markers.add_pvalues): Ditto. (DataSet.retrieve_other_names): Ditto. * wqflask/base/mrna_assay_tissue_data.py: Ditto. * wqflask/base/webqtlCaseData.py: Ditto. * wqflask/db/call.py (fetch1): Ditto. (gn_server): Ditto. * wqflask/db/gn_server.py: Ditto. * wqflask/maintenance/set_resource_defaults.py: Ditto. * wqflask/utility/Plot.py (find_outliers): Ditto. * wqflask/utility/gen_geno_ob.py: Ditto. * wqflask/utility/helper_functions.py: Ditto. * wqflask/utility/pillow_utils.py: Ditto. * wqflask/utility/redis_tools.py: Ditto. * wqflask/wqflask/api/gen_menu.py (get_groups): Ditto. * wqflask/wqflask/api/mapping.py: Ditto. * wqflask/wqflask/api/router.py (get_dataset_info): Ditto. * wqflask/wqflask/collect.py (report_change): Ditto. * wqflask/wqflask/correlation/corr_scatter_plot.py: Ditto. * wqflask/wqflask/ctl/ctl_analysis.py (CTL): Ditto. (CTL.__init__): Ditto. (CTL.run_analysis): Ditto. (CTL.process_results): Ditto. * wqflask/wqflask/db_info.py: Ditto. * wqflask/wqflask/do_search.py (DoSearch.execute): Ditto. (DoSearch.mescape): Ditto. (DoSearch.get_search): Ditto. (MrnaAssaySearch.run_combined): Ditto. (MrnaAssaySearch.run): Ditto. (PhenotypeSearch.run_combined): Ditto. (GenotypeSearch.get_where_clause): Ditto. (LrsSearch.get_where_clause): Ditto. (MeanSearch.run): Ditto. (RangeSearch.get_where_clause): Ditto. (PvalueSearch.run): Ditto. * wqflask/wqflask/docs.py: Ditto. * wqflask/wqflask/export_traits.py: Ditto. * wqflask/wqflask/external_tools/send_to_bnw.py: Ditto. * wqflask/wqflask/external_tools/send_to_geneweaver.py: Ditto. * wqflask/wqflask/external_tools/send_to_webgestalt.py: Ditto. * wqflask/wqflask/gsearch.py (GSearch.__init__): Ditto. * wqflask/wqflask/heatmap/heatmap.py: Ditto. * wqflask/wqflask/marker_regression/display_mapping_results.py (DisplayMappingResults): Ditto. * wqflask/wqflask/marker_regression/gemma_mapping.py: Ditto. * wqflask/wqflask/marker_regression/plink_mapping.py (run_plink): Ditto. * wqflask/wqflask/marker_regression/qtlreaper_mapping.py (run_reaper): Ditto. * wqflask/wqflask/marker_regression/rqtl_mapping.py: Ditto. * wqflask/wqflask/marker_regression/run_mapping.py (RunMapping.__init__): Ditto. * wqflask/wqflask/parser.py (parse): Ditto. * wqflask/wqflask/search_results.py (SearchResultPage.__init__): Ditto. * wqflask/wqflask/update_search_results.py (GSearch.__init__): Ditto. * wqflask/wqflask/user_login.py (send_email): Ditto. (logout): Ditto. (forgot_password_submit): Ditto. (password_reset): Ditto. (password_reset_step2): Ditto. (register): Ditto. * wqflask/wqflask/user_session.py (create_signed_cookie): Ditto.
Diffstat (limited to 'wqflask/db')
-rw-r--r--wqflask/db/call.py4
-rw-r--r--wqflask/db/gn_server.py3
2 files changed, 0 insertions, 7 deletions
diff --git a/wqflask/db/call.py b/wqflask/db/call.py
index 1fe0772b..a6bbda54 100644
--- a/wqflask/db/call.py
+++ b/wqflask/db/call.py
@@ -31,9 +31,6 @@ GN_SERVER result when set (which should return a Tuple)
res2 = func(result)
else:
res2 = result,
- if LOG_SQL:
- logger.debug("Replaced SQL call", query)
- logger.debug(path, res2)
return res2
else:
return fetchone(query)
@@ -75,5 +72,4 @@ def gn_server(path):
res = urllib2.urlopen(GN_SERVER_URL + path)
rest = res.read()
res2 = json.loads(rest)
- logger.debug(res2)
return res2
diff --git a/wqflask/db/gn_server.py b/wqflask/db/gn_server.py
index f9b01658..af6682ba 100644
--- a/wqflask/db/gn_server.py
+++ b/wqflask/db/gn_server.py
@@ -2,9 +2,6 @@
from db.call import gn_server
-from utility.logger import getLogger
-logger = getLogger(__name__)
-
def menu_main():
return gn_server("/int/menu/main.json")