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- JAL-4394
The 'alignment' option has become unclickable - JAL-4328
Some ensembl queries may not work reliably in 2.11.3.0, 2.11.4.0 - JAL-4168
Jalview service - JAL-4164
Alignment not working for multiple sequences. A window is appearing saying "Invalid JABA URLs in your web service preference" - JAL-4114
Jalview 2.11.2.5 not compatible with 3d-beacons api v2.0 - JAL-3937
PFAM services have a new certificate that JRE cacerts does not cover - JAL-3810
Annotation web services do not add annotations in JalviewJS - JAL-3809
Edit web service parameters dialog does not work in jalviewjs - JAL-3807
Migrate Jalview JPred Client to use Slivka's JPred Services - JAL-3799
Intermittent errors when running AACon - JAL-3736
JPred prediction for a sequence with start position greater than one is offset when added to a new view via 'Add Reference Annotation' - JAL-3627
don't have full access to the software. - JAL-2707
Ensembl / EnsemblGenomes id resolution at scale - JAL-2705
Jalview cannot connect to a JABAWS 2.2 virtual machine - JAL-2485
Exception while querying Uniprot via the REST API - JAL-2254
Fetch DBRefs from EMBL gives Illegal Text data found as child of: ROOT - JAL-2245
(unannounced) changes to ENA 1.2 XML format - JAL-2206
EnsemblGenomes queried with non-existent identifier takes a long time to report 'not found' - JAL-2096
BioJS export fails when BioJS templates can't be downloaded - JAL-1726
External service integration test for the PDB Solr API - JAL-1585
Problem connecting to Jabaws - JAL-1287
Web Service Connection Problem - JAL-994
jnet job queues forever if a very short sequence is submitted for prediction - JAL-703
CAth das server errors appear as features in the alignment - JAL-663
Muscle web service gives very poor alignment result - JAL-365
Job submission and result retrieval fails and server error logs fill with 'Too many open files' Exceptions - JAL-330
broken job statistics are under-estimates - JAL-293
WsDBFetch client fails on jon Manning's vaio - JAL-259
Log number and reason for jobs being killed due to exhaustion of allocated job resources - JAL-239
JNet error state not detected (blastpgp failure) - JAL-224
Scheduler killing jobs is logged as broken job - JAL-201
Web Service Job Status and Service Availability - JAL-186
Web Service Input Data Validation - JAL-184
errors due to jobs disk being full are not logged locally - JAL-165
JNet server code does not verify valid input to service - JAL-164
Empty Sequence In Multiple Sequence Alignment Submission - JAL-139
MuscleWS translates selenomethionine 'U' to unknown residue 'X' - JAL-138
Uracils in sequence alignment are not detected when a jnet job is submitted - JAL-134
Memory efficiency for SOAP Messages - JAL-119
JPred Client submission of MSA leads to HMMER error - JAL-118
JPred Client would hang after completion of jobs where homologs had non-unique Sequence IDs - JAL-88
Uniprot/SwissProt name inconsistencies. - JAL-71
EBI uniprot record PDB database reference format changed
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