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close filehandles straight after parse, without setting an error
[jalview.git]
/
src
/
jalview
/
bin
/
2022-01-10
Ben Soares
JAL-3937 enable AIA download of intermediate certificat...
tree
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commitdiff
2021-12-15
Jim Procter
JAL-3933 remove obsolete Castor logging configuration
tree
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commitdiff
2021-12-15
Jim Procter
JAL-3933 configure root logger console appender to...
tree
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commitdiff
2021-12-14
Ben Soares
JAL-3933 Updated log4j jars with log4j-2.16.0 and compa...
tree
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commitdiff
2021-04-19
Ben Soares
JAL-3833 cap the scaling used by HiDPISetting for incor...
tree
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commitdiff
2021-02-05
Jim Procter
JAL-3813 NOIDENTIFIERSSERVICE preference disables jalvi...
tree
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commitdiff
2021-02-05
Jim Procter
JAL-3812 new argument ‘-nohtmltemplates’ and user prefe...
tree
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commitdiff
2021-02-05
Jim Procter
JAL-3811 document SHOW_JWS2_SERVICES user preference...
tree
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commitdiff
2021-02-05
Jim Procter
JAL-3814 NONEWS property
tree
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commitdiff
2020-09-24
Jim Procter
JAL-3757 JAL-3689 use AppletFormat.checkProtocol to...
tree
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commitdiff
2020-09-23
Ben Soares
JAL-3757 JAL-3689 Fixed checks for URLs by adding check...
tree
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commitdiff
2020-09-23
Ben Soares
JAL-3633 ensure check both or https:// for urls
tree
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commitdiff
2020-09-17
Jim Procter
JAL-3741 http to https (and jar to jvp for exampleFile...
tree
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commitdiff
2020-09-17
Jim Procter
JAL-3750 parse protocol before checking if argument...
tree
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commitdiff
2020-09-02
Ben Soares
JAL-3280 Test for remote release build_properties file...
tree
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commitdiff
2020-09-01
Ben Soares
JAL-3280 fixes after CR-JAL-241. Now only checking...
tree
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commitdiff
2020-08-31
Ben Soares
JAL-3280 Pass appbase and appdir from getdown to jalvew...
tree
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commitdiff
2020-08-25
Jim Procter
JAL-3671 hardwire log4j.root logger to INFO to supress...
tree
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commitdiff
2020-08-17
Jim Procter
Merge branch 'patch/JAL-3561_JAL-3660_fileformatexport_...
tree
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commitdiff
2020-08-12
Ben Soares
JAL-3608 Changes from code review CR-JAL-236
tree
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commitdiff
2020-08-05
Jim Procter
Merge branch 'merge/JAL-3628+JAL-3608+JAL-3609+JAL...
tree
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commitdiff
2020-08-04
Ben Soares
JAL-3477 Added -help text for jvmmempc and jvmmemmax...
tree
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commitdiff
2020-07-08
Ben Soares
Merge branch 'task/JAL-3609_HiDPI_support_in_java'...
tree
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commitdiff
2020-07-07
Ben Soares
JAL-3608 Changes from code review CR-JAL-236
tree
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commitdiff
2020-07-07
Ben Soares
JAL-3608 ex stacktraces now go to Cache.log.debug
tree
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commitdiff
2020-07-07
Ben Soares
JAL-3628 System.out/err -> Cache.log.info/error
tree
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commitdiff
2020-07-07
Ben Soares
Merge branch 'bug/JAL-3628_Unable_to_save_update_to_exi...
tree
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commitdiff
2020-07-07
Ben Soares
JAL-3628 System.out/err -> Cache.log.info/error
tree
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commitdiff
2020-07-07
Ben Soares
JAL-3628 Fixed oddly worded and non-formatted error...
tree
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commitdiff
2020-07-01
Ben Soares
Merge branch 'task/JAL-3608_property_set_laf_and_tests_...
tree
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commitdiff
2020-06-21
Ben Soares
JAL-3609 Report when scale setting used.
tree
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commitdiff
2020-06-21
Ben Soares
JAL-3609 New auto-scale 'formula' for linux HiDPI....
tree
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commitdiff
2020-06-16
Ben Soares
JAL-3608 non-JS cherry-pick
tree
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commitdiff
2020-06-16
Jim Procter
Merge branch 'bug/JAL-3561_translatefileformats' into...
patch/JAL-3561_JAL-3660_fileformatexport_CLI
tree
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commitdiff
2020-06-16
Jim Procter
JAL-3660 JAL-3561 output alignment as requested file...
bug/JAL-3561_translatefileformats
tree
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commitdiff
2020-06-16
Ben Soares
JAL-3608 formatting save only
tree
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commitdiff
2020-06-16
Ben Soares
JAL-3608 formatting save only
tree
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commitdiff
2020-05-22
soares
JAL-3609 corrected maxdimension to mindimension. Adjust...
tree
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commitdiff
2020-05-20
Ben Soares
JAL-3609 removed debugging prints
tree
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commitdiff
2020-05-19
Ben Soares
JAL-3609 changed property names to something more palat...
tree
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commitdiff
2020-05-19
Ben Soares
JAL-3609 system properties to force a scale, or automat...
tree
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commitdiff
2020-05-19
Ben Soares
JAL-3609 Added a -DforceHiDPISetting=true option mainly...
tree
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commitdiff
2020-05-15
Ben Soares
JAL-3609 HiDPI scale setting done via system prop in...
tree
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commitdiff
2020-04-21
Jim Procter
JAL-3407 add GPL license to Jalview source files
tree
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commitdiff
2020-02-27
Ben Soares
JAL-3543 remove debugging output
improvement/JAL-3543_dont_report_null_versions_in_java_console
tree
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commitdiff
2020-02-27
Ben Soares
Merge branch 'develop' into improvement/JAL-3543_dont_r...
tree
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commitdiff
2020-02-27
Ben Soares
JAL-3543 Conditional reporting of Install4j and Getdown...
tree
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commitdiff
2020-02-26
Jim Procter
Merge branch 'bug/JAL-3477_memory_max_allocation' into...
tree
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commitdiff
2020-01-10
Ben Soares
JAL-3477 Javadoc, addition of -jvmmempc and -jvmmemmax...
tree
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commitdiff
2020-01-09
Ben Soares
JAL-3477 Refactoring based on CR-JAL-189
tree
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commitdiff
2020-01-09
Ben Soares
JAL-3477 Javadoc, refactoring and slight changes to...
tree
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commitdiff
2019-12-06
Ben Soares
JAL-3449 Added more versions to getdown splashscreen...
tree
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commitdiff
2019-11-22
Ben Soares
JAL-3449 install4j version, install4j template version...
tree
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commitdiff
2019-11-20
Ben Soares
JAL-3477 A bit of refactoring for the better
tree
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commitdiff
2019-11-19
Ben Soares
JAL-3210 removing overly complicated logging. Settling...
tree
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commitdiff
2019-11-18
Ben Soares
JAL-3477 New jvmmemmax config option in getdown and...
tree
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commitdiff
2019-11-18
Ben Soares
JAL-3477 New sensible default decisions on memory,...
tree
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commitdiff
2019-07-02
Jim Procter
Merge branch 'develop' into tasks/JAL-3311_removeVamsasMenu
tree
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commitdiff
2019-06-26
Jim Procter
JAL-3334 fix - always load full SO to resolve the seque...
tree
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commitdiff
2019-06-26
Jim Procter
JAL-3111 get rid of nasty tab characters
tree
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commitdiff
2019-06-19
Ben Soares
JAL-3321 Last pieces of the getdown-launcher.jar upgrad...
tree
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commitdiff
2019-06-17
Ben Soares
JAL-3310 JAL-3300 two getdown fixes merged
tree
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commitdiff
2019-06-17
Jim Procter
JAL-3311 remove menus and documentation relating to...
tasks/JAL-3311_removeVamsasMenu
tree
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commitdiff
2019-06-14
Ben Soares
JAL-3278 A system.out.println turned into a cache.log...
tree
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commitdiff
2019-06-14
Jim Procter
JAL-3111 report build type and commit in stdout from...
tree
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commitdiff
2019-06-14
Jim Procter
JAL-3299 JAL-3280 javadoc on BuildDetails bean
tree
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commitdiff
2019-05-21
Ben Soares
JAL-3247 Launcher start improvements. RPM and DEB no...
tree
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commitdiff
2019-05-20
Ben Soares
JAL-3254 Improved memory setting (allows mem for OS...
tree
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commitdiff
2019-04-26
Ben Soares
JAL-3233 Added isAMac check for -Xdock:icon addition...
tree
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commitdiff
2019-04-25
Ben Soares
JAL-3224 JAL-3225 Some fixes in install4j template...
tree
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commitdiff
2019-04-25
Ben Soares
JAL-3224 JAL-3225 Added lines to check for updates...
tree
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commitdiff
2019-04-24
Jim Procter
Merge branch 'task/JAL-3225_Integration_Gradle_building...
tree
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commitdiff
2019-04-15
Ben Soares
JAL-3130 Helper classes to take Class Exceptions when...
tree
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commitdiff
2019-04-01
Ben Soares
JAL-3130 JAL-3007 Added gradle build for Java 11 and...
tree
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commitdiff
2019-03-20
Ben Soares
JAL-3130 Lots of deprecation fixes. See utils/deprecat...
tree
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commitdiff
2019-03-11
gmungoc
Merge branch 'feature/JAL-3127_seqidChainshading' into...
tree
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commitdiff
2019-03-06
gmungoc
Merge branch 'tasks/JAL-3035_remove_dasobert_dependency...
tree
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commitdiff
2019-03-06
gmungoc
JAL-3035 more das bits removed
tree
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commitdiff
2019-03-04
gmungoc
Merge remote-tracking branch 'origin/tasks/JAL-3035_rem...
tree
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commitdiff
2018-10-19
Ben Soares
JAL-3141 Backup files being created with default suffix...
tree
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commitdiff
2018-10-09
Jim Procter
JAL-3127 pass reference to AlignViewportI when creating...
tree
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commitdiff
2018-09-18
Jim Procter
JAL-3035 more dedasification
tree
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commitdiff
2018-09-11
Jim Procter
Merge branch 'develop' into releases/Release_2_11_Branch
tree
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commitdiff
2018-09-05
Jim Procter
JAL-3065 - amended commit 4906697ab6e5a79fbce3baae89f7...
bug/JAL-3065_DH_keyPair_Exception_nogroovysettings
tree
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commitdiff
2018-07-17
bsoares
JAL-3065
tree
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commitdiff
2018-06-26
Jim Procter
JAL-3035 - jalview-das is no more !
tree
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commitdiff
2018-05-09
Jim Procter
JAL-2976 fixed bad equivalence check and implemented...
tree
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commitdiff
2018-05-02
Jim Procter
JAL-2976 fallback to Vaqua for Macs that don’t work...
tree
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commitdiff
2018-03-13
gmungoc
JAL-2913 use FIGURE_FIXEDIDWIDTH (not FIGURE_USERIDWIDTH)
tree
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commitdiff
2018-03-07
gmungoc
JAL-2913 use FIGURE_USERIDWIDTH for fixed id width...
tree
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commitdiff
2018-02-27
Jim Procter
Merge branch 'feature/JAL-2759' into merge/JAL-2759_2104
tree
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commitdiff
2018-01-16
gmungoc
JAL-1270 JAL-2885 clear properties before load
tree
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commitdiff
2018-01-15
kiramt
JAL-2759 Refactor of hideInsertionsFor after review
tree
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commitdiff
2017-10-03
gmungoc
JAL-2738 copy to spikes/mungo
tree
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commitdiff
2017-08-16
Jim Procter
JAL-2418 source formatting
tree
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commitdiff
2017-06-09
gmungoc
JAL-2446 merged to spike branch
tree
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commitdiff
2017-05-05
kiramt
Merge remote-tracking branch 'origin/develop' into
features/JAL-2388hiddencolumnschanges
tree
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commitdiff
2017-04-24
kiramt
JAL-2388 Hidden cols separated from column selection...
tree
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commitdiff
2017-03-24
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-03-24
Jim Procter
JAL-2360 fix applet build by separating castor XML...
tree
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commitdiff
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