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JAL-3675 update release notes for JAL-3673 and tested merge of additional patch for JAL-2983

Merge branch 'bug/JAL-2983negativeSliderMin' into releases/Release_2_11_1_Branch

JAL-3705 JAL-3251 unused attribute repurposed/renamed to mappedFromId

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    /src/jalview/xml/binding/jalview/Mapping.java
JAL-3705 unit test and "fix" borrowing unused schema attribute

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    /src/jalview/project/Jalview2XML.java
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    /test/jalview/io/CrossRef2xmlTests.java
JAL-3706 handle e.g. mapped exon feature extending beyond mapped range

JAL-3371 more fine-grained slider; set Param slider to initial default

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    /src/jalview/gui/OptsAndParamsPage.java
JAL-3706 handle virtual feature extending to unmapped stop codon

JAL-3691 toUpperCase(Locale.ROOT) for all standard file format operations

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    /src/jalview/io/JnetAnnotationMaker.java
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    /src/jalview/io/packed/ParsePackedSet.java
Merge branch 'releases/Release_2_11_1_Branch' into patch/JAL-3691_No_score_models_available

JAL-3628 JAL-3708 call Cache.initLogger() before using Cache.log in static methods with no class-level guarantee logs are initialised

JAL-3490 match count independent of contiguous matches count

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    /src/jalview/datamodel/SearchResults.java
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    /test/jalview/analysis/FinderTest.java
JAL-3490 match count independent of contiguous matches count

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    /src/jalview/datamodel/SearchResults.java
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    /test/jalview/analysis/FinderTest.java
JAL-3691 Changed .toUppoerCase().startsWith(...) to .regionMatches(true,...) as upper-cased 'i' in Turkish is not 'I'.

JAL-3628 init log after loading testProps for each backupfile test

JAL-3628 init log after loading testProps for each backupfile test

Merge branch 'patch/JAL-3692enaEndpointFlatfile' into releases/Release_2_11_1_Branch

JAL-3692 unit test updated for ?gzip download endpoint URL

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    /test/jalview/ws/ebi/EBIFetchClientTest.java
JAL-3692 unit test updated for ?gzip download endpoint URL

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    /test/jalview/ws/ebi/EBIFetchClientTest.java
JAL-3692 parse multiline feature qualifiers and escaped quotes

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    /src/jalview/io/EmblFlatFile.java
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    /src/jalview/ws/ebi/EBIFetchClient.java
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    /test/jalview/io/EmblFlatFileTest.java
JAL-3692 parse multiline feature qualifiers and escaped quotes

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    /src/jalview/io/EmblFlatFile.java
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    /src/jalview/ws/ebi/EBIFetchClient.java
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    /test/jalview/io/EmblFlatFileTest.java
JAL-3675 release notes for JAL-3477, JAL-3667, JAL-3541, JAL-3685, JAL-3676, JAL-3677 and bumped release date for 2.11.1.1 to next Tuesday(ish)

doesn't matter for 2.11.1.1 but should be dropped for 2.11.2 unless it really is needed.

doesn't matter for 2.11.1.1 but should be dropped for 2.11.2 unless it really is needed.

Ben Soares - I don't think you need this. The logger provides a overload to pass exceptions which will give the full stack trace - e.g. catch (Exception ex) { Cache.log.debug("ignored raised except...

Ben Soares - I don't think you need this. The logger provides a overload to pass exceptions which will give the full stack trace - e.g. catch (Exception ex) { Cache.log.debug("ignored raised exception during blah",ex); }

JAL-3628 Cache.getStackTraceAsString
JAL-3628 Cache.getStackTraceAsString
Merge branch 'merge/JAL-3628+JAL-3608+JAL-3609+JAL-3541+Release_2_11_1_Branch' into releases/Release_2_11_1_Branch

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    /resources/lang/Messages.properties
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    /resources/lang/Messages_es.properties
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    /src/jalview/bin/Jalview.java
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