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davidhwyllie
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findNeighbour4
A server delivering large scale, incrementable, bacterial relatedness monitoring
MIT License
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Allow fn4 to recover database passwords from Vaults rather than flat files
#130
davidhwyllie
opened
2 years ago
0
allow fn4 to operate against rdbms other than oracle and sqlite
#129
davidhwyllie
opened
2 years ago
2
Fasterpca
#128
davidhwyllie
closed
2 years ago
0
When rendering phylogenetic trees with ete3, a core dump sometimes occurs
#127
davidhwyllie
opened
2 years ago
0
enable local store maintenance
#126
davidhwyllie
closed
2 years ago
1
Resolve #79
#125
davidhwyllie
closed
2 years ago
0
Issue114b
#124
davidhwyllie
closed
2 years ago
1
Benchmark
#123
davidhwyllie
closed
2 years ago
1
Trap sql errors and rollback
#122
davidhwyllie
closed
2 years ago
0
Not all database interactions ensure rollback if transaction fails
#121
davidhwyllie
closed
2 years ago
1
On generation of multisequence alignments from clusters, columns are included if they contain only N and an single base
#120
davidhwyllie
opened
2 years ago
5
On producing an interactive (bokeh) depiction of a cluster, a KeyError is raised
#119
davidhwyllie
opened
2 years ago
0
Allow faster restarts; address logging issues
#118
davidhwyllie
closed
2 years ago
1
Issues associated with starting catwalk
#117
davidhwyllie
closed
2 years ago
2
Gunicorn error logs are not written to the log directory
#116
davidhwyllie
closed
2 years ago
1
address issue #113 failure to shutdown lockmanager
#115
davidhwyllie
closed
2 years ago
0
Restarting the findneighbour4 server is slow when large numbers of samples are present
#114
davidhwyllie
closed
2 years ago
4
the fn4_shutdown.sh script can leave processes running
#113
davidhwyllie
closed
2 years ago
2
update catwalk client
#112
davidhwyllie
closed
2 years ago
0
Support new catwalk parameter (issue #110)
#111
davidhwyllie
closed
2 years ago
1
The python catwalk client does not currently offer the option to change the max_n_positions option on server startup.
#110
davidhwyllie
closed
2 years ago
2
Build phylogenetic tress for groups of samples identified by findneighbour4
#109
davidhwyllie
opened
2 years ago
2
trap database connection errors in lockmanager #101
#108
davidhwyllie
closed
2 years ago
0
Log server startup
#107
davidhwyllie
closed
2 years ago
0
Update catwalk git repository
#106
davidhwyllie
closed
2 years ago
0
allow load script wait time if server unavailable to be customised #104
#105
davidhwyllie
closed
2 years ago
0
Allow time multifasta load script waits on server unavailability to be customised
#104
davidhwyllie
closed
2 years ago
1
Catwalk repository has moved
#103
davidhwyllie
closed
2 years ago
1
Note server version on server startup
#102
davidhwyllie
closed
2 years ago
4
Ensure fn4_lockmonitor does not terminate if database connectivity fails
#101
davidhwyllie
closed
2 years ago
3
Increase permitted length of guid; standardise special sample-id names
#100
davidhwyllie
closed
2 years ago
0
Should sequence identifier (aka guid) as passed to /insert be validated
#99
davidhwyllie
opened
2 years ago
0
FN4LOCK.sequence_id field is not large enough to handle illumina guids
#98
jodugo
closed
2 years ago
2
Autorecover if web worker crashes and other updates
#97
davidhwyllie
closed
2 years ago
0
Combine catwalk client code into issue 92
#96
davidhwyllie
closed
2 years ago
0
Provide support for one new catwalk endpoint
#95
davidhwyllie
closed
2 years ago
0
Issue93
#94
davidhwyllie
closed
2 years ago
1
ensure CI works with versions of nim not available in ubuntu repos
#93
davidhwyllie
closed
2 years ago
5
deleting samples from findneighbour4
#92
davidhwyllie
opened
2 years ago
0
catwalk has been updated providing two new endpoints,
#91
davidhwyllie
closed
2 years ago
1
Use standardised terminology for reference and outgroup
#90
davidhwyllie
closed
2 years ago
1
with gunicorn, if a web worker times out, the insert semaphore can be left set
#89
davidhwyllie
closed
2 years ago
2
Issue86
#88
davidhwyllie
closed
2 years ago
0
Issue86
#87
davidhwyllie
closed
2 years ago
1
Raising 409 error by findNeighbour server when database lock is held is not done correctly
#86
davidhwyllie
closed
2 years ago
2
Need to create openapi documentation for the findneighbour4 server
#85
davidhwyllie
opened
2 years ago
0
During bulk loading with fn4_load_multifasta, dropped connections are not handled
#84
davidhwyllie
closed
2 years ago
2
Enable parallelised web workers in server
#83
davidhwyllie
closed
2 years ago
1
The exact_distance endpoint should return 404 if one of the samples does not exist
#82
davidhwyllie
closed
2 years ago
1
test for dead sessions
#81
davidhwyllie
closed
3 years ago
1
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