diff options
| -rw-r--r-- | issues/metadata-caching-bug | 20 | ||||
| -rw-r--r-- | issues/remove_gn2_gn3_network_dependency.gmi | 23 |
2 files changed, 43 insertions, 0 deletions
diff --git a/issues/metadata-caching-bug b/issues/metadata-caching-bug index eea4a31..4fb382d 100644 --- a/issues/metadata-caching-bug +++ b/issues/metadata-caching-bug @@ -1,3 +1,5 @@ +# metadata caching bug + A user recently notified me of an error when doing a correlation of a BXD phenotype trait against other BXD phenotypes. The error is somehow being caused by the metadata caching (it's an error when loading the cached metadata JSON file), but it's not clear to me what the issue is (and I'm not sure how to locate it within such a large file, since the error message only gives the character position). @@ -32,3 +34,21 @@ return _default_decoder.decode(s) File "/gnu/store/p5fgysbcnnp8b1d91mrvjvababmczga0-python-3.9.6/lib/python3.9/json/decoder.py", line 340, in decode raise JSONDecodeError("Extra data", s, end) json.decoder.JSONDecodeError: Extra data: line 1 column 6765450 (char 6765449) + + + + +## Tags + +* assigned: alex, zachs +* keywords: correlation,caching,metadata +* type: bug +* status: completed +* priority: medium + + + +## Tasks + +* [X] fix for caching empty json files +* [X] delete invalid files and recreate new ones
\ No newline at end of file diff --git a/issues/remove_gn2_gn3_network_dependency.gmi b/issues/remove_gn2_gn3_network_dependency.gmi new file mode 100644 index 0000000..4f59762 --- /dev/null +++ b/issues/remove_gn2_gn3_network_dependency.gmi @@ -0,0 +1,23 @@ +# Gn3 network dependency + +occasionally while sending requests from gn3 from gn2 +for tools like ctl and wgcna users run into network +errors if the gn3 server is down or other issues.Idea +is to use gn3 as library to avoid the above + +## Tags + +* assigned: alex +* keywords: network_connections,ctl,wgcna +* type: bug +* status: in progress +* priority: medium + + + + +## Tasks + +* [] replace network connections by using gn3 as lib +* [] package the ctl and wgcna script in r + |