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Rick Herrick rherrick Neuroinformatics Research Group St. Louis, Missouri

NrgXnat/container-service 10

XNAT Container Service

rherrick/lombok-issue 1

Demonstrates a build issue with lombok

rherrick/annex 0

git-annex test

rherrick/console2 0

Pulled from git://console.git.sourceforge.net/gitroot/console/console

rherrick/CTK 0

A set of common support code for medical imaging, surgical navigation, and related purposes.

rherrick/dcmjs 0

Javascript implementation of DICOM manipulation

rherrick/dicom-walker 0

DICOM metadata extractor and processor

rherrick/factorio-updater 0

Factorio update helper for headless servers

rherrick/hibernate-native-json 0

Persist an Object to JSON in an hibernate field

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Rick Herrick

commit sha d1cb003d2ca1f4fe3207f774c2c08c8754060d4f

Cleaned up XImgView.vm to clarify script flow, changed link in actions box to View in Legacy Viewer

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Erwin Vast

commit sha 983d5774440e0c4e3a0370e7f70d6ec13f08a4df

Improved method to detect and correctly parse SQ items

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Erwin Vast

commit sha 0edcc2d8feab8351c621691a26242efe18dd9d25

Removes secondary files (only on parsing, not from disk) from imaging datasets

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Erwin Vast

commit sha 4c7a651069ce36a63ed88f0a798a4f615d8829bd

scans of which the series description contain survey and have less than 20 slices are parsed with instance_ordering

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Erwin Vast

commit sha 67fd53091f8c6a71a543fa8ddfc8b4898eada046

added option to create both debug and release version of vm scripts. release version uses the minified javascripts which is much faster in the browser

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Erwin Vast

commit sha 45e2fb4928c62699368a995ffc1ac788dc1edf57

removed printline

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Erwin Vast

commit sha 92fa15203bcb7c45445feb0f3e5d74cb0d949b1f

removed debug/release directories from previous commit

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Erwin Vast

commit sha c2998df228578b22559c63cf68e2304212238055

ECMA compliant code, some comments fixed, bugfix parserDCM and minified version

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Rick Herrick

commit sha 17ea90b333780cacb1af7dd0283ea049d6d1ba19

Merge pull request #3 from evast/master Improved support for (mostly Philips) DICOMs

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Michael Hodge

commit sha 116249387d32a258108a2e71b66f27f2e00aaecf

Make scans resource aware and enable selection of resources. Enable scan viewing of NIFTI files

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Michael Hodge

commit sha ffa6e259908bdd1896a28c4fc85d416b6f07a80e

Actually add the modified files

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Michael Hodge

commit sha af2b82a8519a9051cf66233f5ae30280a3e86ca9

Revert XImgView.vm for now. Current one was hanging when dragging scans onto viewbox

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Michael Hodge

commit sha 5cd6ba4b7a74399a899dd65febb5ff7833e0f0ed

Modifications to support ConnectomeDB

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Michael Hodge

commit sha 47b10f2b02015edd6b6c6de5ff4cba5079fa049f

Add support for viewing experiment level resources with the filelist filtered by JSON stored in the config service

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Michael Hodge

commit sha f4efc3540c66cd9a7d00e7902a76d60c90850a66

Prevent slider refresh from causing stack overflows

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Michael Hodge

commit sha 132f387dce42fa065e051eceb15815f24f189016

Modify loading indicator to indicate when no imaging files have been found. Modify experimentResources config service path

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Kate Alpert

commit sha 47e7d8309f7026fe2c2fe84b4cd8b187f7526ddb

Add ExperimentReconstruction viewable type, small changes to show more progress bar and decrease refreshCount

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hodgem

commit sha bf7cb9a0864dc9b5a2befa5920add11fc8ca4ad8

Merge pull request #1 from kathrynalpert/master Add ExperimentReconstruction viewable type, small changes to show mor…

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Michael Hodge

commit sha b68f2aa4e48fe9b1ad268c7dbe1c1ea5ab1aa9eb

Consolidate REST calls for scans and experiment resources

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Michael Hodge

commit sha 9f6ea725aba87100824e0fa1e2a624e4f0495784

Fix when scan rest column list limits return type of scans

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Michael Hodge

commit sha ac5580249249898dcc610a6309e724da56206fa2

Improve performance of Histogram

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Erwin Vast

commit sha 983d5774440e0c4e3a0370e7f70d6ec13f08a4df

Improved method to detect and correctly parse SQ items

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Erwin Vast

commit sha 0edcc2d8feab8351c621691a26242efe18dd9d25

Removes secondary files (only on parsing, not from disk) from imaging datasets

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Erwin Vast

commit sha 4c7a651069ce36a63ed88f0a798a4f615d8829bd

scans of which the series description contain survey and have less than 20 slices are parsed with instance_ordering

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Erwin Vast

commit sha 67fd53091f8c6a71a543fa8ddfc8b4898eada046

added option to create both debug and release version of vm scripts. release version uses the minified javascripts which is much faster in the browser

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Erwin Vast

commit sha 45e2fb4928c62699368a995ffc1ac788dc1edf57

removed printline

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Erwin Vast

commit sha 92fa15203bcb7c45445feb0f3e5d74cb0d949b1f

removed debug/release directories from previous commit

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Erwin Vast

commit sha c2998df228578b22559c63cf68e2304212238055

ECMA compliant code, some comments fixed, bugfix parserDCM and minified version

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Rick Herrick

commit sha 17ea90b333780cacb1af7dd0283ea049d6d1ba19

Merge pull request #3 from evast/master Improved support for (mostly Philips) DICOMs

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Michael Hodge

commit sha 116249387d32a258108a2e71b66f27f2e00aaecf

Make scans resource aware and enable selection of resources. Enable scan viewing of NIFTI files

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Michael Hodge

commit sha ffa6e259908bdd1896a28c4fc85d416b6f07a80e

Actually add the modified files

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Michael Hodge

commit sha af2b82a8519a9051cf66233f5ae30280a3e86ca9

Revert XImgView.vm for now. Current one was hanging when dragging scans onto viewbox

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Michael Hodge

commit sha 5cd6ba4b7a74399a899dd65febb5ff7833e0f0ed

Modifications to support ConnectomeDB

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Michael Hodge

commit sha 47b10f2b02015edd6b6c6de5ff4cba5079fa049f

Add support for viewing experiment level resources with the filelist filtered by JSON stored in the config service

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Michael Hodge

commit sha f4efc3540c66cd9a7d00e7902a76d60c90850a66

Prevent slider refresh from causing stack overflows

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Michael Hodge

commit sha 132f387dce42fa065e051eceb15815f24f189016

Modify loading indicator to indicate when no imaging files have been found. Modify experimentResources config service path

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Kate Alpert

commit sha 47e7d8309f7026fe2c2fe84b4cd8b187f7526ddb

Add ExperimentReconstruction viewable type, small changes to show more progress bar and decrease refreshCount

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hodgem

commit sha bf7cb9a0864dc9b5a2befa5920add11fc8ca4ad8

Merge pull request #1 from kathrynalpert/master Add ExperimentReconstruction viewable type, small changes to show mor…

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Michael Hodge

commit sha b68f2aa4e48fe9b1ad268c7dbe1c1ea5ab1aa9eb

Consolidate REST calls for scans and experiment resources

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Michael Hodge

commit sha 9f6ea725aba87100824e0fa1e2a624e4f0495784

Fix when scan rest column list limits return type of scans

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Michael Hodge

commit sha ac5580249249898dcc610a6309e724da56206fa2

Improve performance of Histogram

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uar-darko-ljubic

commit sha 12553769828c4a75a466e6b97567cca13a7b9b01

Merge branch 'release/v2.0.2' into develop

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uar-darko-ljubic

commit sha ca5dc72b8713e85accbbf5443201095b68f8f864

Removed electron-settings dependencies and created migration to electron-store format

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uar-darko-ljubic

commit sha 3efa1edcf600b52bb0fd8f229009a502e7bd5f10

Merge branch 'FEATURES/TOOLS-472' into develop

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Dave Maffitt

commit sha 747620bc2ebf1136cecc76a055aff6046b96aca3

bump mizer to mizer-1.1.2.jar to fix anon of MediaStorageSOPInstanceUID.

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uar-darko-ljubic

commit sha acf88f360eeefb128daaa7c78e073c784b49d539

Merge branch 'master' into develop

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uar-darko-ljubic

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Version bump v2.0.4 after mizer-1.1.2 merge

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Merge branch 'develop'

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uar-darko-ljubic

commit sha 4201bf084e80b0442d2c254fea3b9f1aab81f8fa

Merge branch 'release/v2.0.2'

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uar-darko-ljubic

commit sha ca5dc72b8713e85accbbf5443201095b68f8f864

Removed electron-settings dependencies and created migration to electron-store format

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uar-darko-ljubic

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Merge branch 'FEATURES/TOOLS-472' into develop

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Dave Maffitt

commit sha 747620bc2ebf1136cecc76a055aff6046b96aca3

bump mizer to mizer-1.1.2.jar to fix anon of MediaStorageSOPInstanceUID.

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uar-darko-ljubic

commit sha acf88f360eeefb128daaa7c78e073c784b49d539

Merge branch 'master' into develop

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uar-darko-ljubic

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Version bump v2.0.4 after mizer-1.1.2 merge

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Joey Antonisse

commit sha 354d6588193c5fa682a9f670a33aef76ecd3de98

Update README.md Make it more clear how to login and go to the first XNAT site setup.

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Rick Herrick

commit sha 8534c2faa56177fe2b33f913c0f04a36dcee6ca4

Merge pull request #45 from JPAntonisse/patch-2 Update README.md

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PR merged NrgXnat/xnat-docker-compose

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Make it more clear how to login and go to the first XNAT site setup.

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uar-darko-ljubic

commit sha 4afde275b7fb5c13a6b305a064e48c0e146dc55d

Text fix TOOLS-421

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uar-darko-ljubic

commit sha 1d9c4cb1364ec1597a57ddf2a42bca708d1c658b

Text fix TOOLS-421 - take 2

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uar-darko-ljubic

commit sha 891345f90f4248b09c1d1a873a1bc9c86b38603c

DYLD_LIBRARY_PATH test

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uar-darko-ljubic

commit sha d29343187bfc4dc28acba116c7b7446a82f444bc

DYLD_LIBRARY_PATH update

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Rick Herrick

commit sha 3d2491ef17ee52a4c7ad232b2ac193f9b943892c

Merge commit 'd29343187bfc4dc28acba116c7b7446a82f444bc' into develop

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uar-darko-ljubic

commit sha 8b25d331a82e1e56b80aa1648a9696a981db34e3

Test multiple sudo commands

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Test multiple sudo commands 2

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Test multiple sudo commands 3

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uar-darko-ljubic

commit sha 7125508a752555d32833ee9da5662397a1ec5240

Refactored main.js

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uar-darko-ljubic

commit sha f4bf96af5d94cef03ee85706538d4b35ae2bf169

Update get CSRF method

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uar-darko-ljubic

commit sha 8098f4a88fdcdf393e5bfc8553fedf3aea48f608

MacOS path fix

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uar-darko-ljubic

commit sha 97343be6d7ebe4e4b1df037f8ca7d08c099e311b

MacOS path fix 2

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MacOS path fix 3

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MacOS path fix 4

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Rick Herrick

commit sha d9ab64ae5e0aa75a2e67a25995ecc3d6fe6003e1

Added cache versioning. Changed to downloading and installing JRE. Added explicit set of JAVA_HOME with libexec call (necessary for OSX to successfully call through JNI).

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Dave Maffitt

commit sha bd3fbef77036b52c9dcdf8d6926260b2e8253d75

Add dcm4che dependencies needed for pixelEdit.

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Dave Maffitt

commit sha 9b7ecb79d9132a9164011678d90566dc2aa96908

Add the native libs for opencv.

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Rick Herrick

commit sha 65cd6be7cc38fadbe50cd7fdd5c8d1c7ea28e655

Updated jars and classpath for mizer to update latest pixel editor functionality

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Rick Herrick

commit sha c6e4aad3a466a7365a1a11855e054b026911b4c8

Added notarize step to electron-build, fixes to remove read-only files in JRE and path issues for fix-java-libdir.sh

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Rick Herrick

commit sha 490f2b178ae0f5b23ee22fe5e475fb0a1b4df359

Expanded monkey patch for node-java, got app running with packaged JRE

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uar-darko-ljubic

commit sha 1588ce5a7a1a3e8cbd1189c593ceb188f5f7e010

Disable building Windows installer on CircleCI

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uar-darko-ljubic

commit sha 2749d6c3d34edb8bfb459742439f03ab8ddc3c4b

Update version number to 2.0.1

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uar-darko-ljubic

commit sha c1a6d6282441d8ecd694511303a62bea50b33b07

Merge branch 'release/v2.0.1' into develop

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uar-darko-ljubic

commit sha a1358de661a7b07f1d155bd161b5cdb44e1b26f4

Merge branch 'develop' of bitbucket.org:xnatdev/xnat-desktop-client into develop

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uar-darko-ljubic

commit sha eeab0d8af91d768eee89ad819080e3ad106b87c0

Remove Image Viewer link from main menu

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uar-darko-ljubic

commit sha 44d4f4ae9a2219cbc49155278fcd0fc8b9a5164b

TOOLS-523: Allow application to recover in case the Settings file gets corrupted

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uar-darko-ljubic

commit sha 19331db09e3440bfb7204c036c2476f97f641ea8

TOOLS-529: Modified wording on PHI review page

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uar-darko-ljubic

commit sha 8fac8e2a019cbbe28c6cdeea74fbdabbdc18329d

TOOLS-527: Fixed misalignment on progress monitor table headers

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commit sha dd9f701498594859aa27d790d7608b8a02def3d1

TOOLS-528: Replaced cornerstone-core library with its fork with different canvas and image backgrounds

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uar-darko-ljubic

commit sha 030516eabdb1a4df6c15744068eb83d2018fbfe3

isPlainObject load updated

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commit sha 3dd600be30543c32b0462758856d3febac6719ba

Multi-frame source

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uar-darko-ljubic

commit sha 073a203a3437ae972074bfc11306a11a845b7927

Cast logins setting as array if undefined

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uar-darko-ljubic

commit sha 56e92effc8fa9c4e43bbcc121031c19d3362cfaf

Multi frame support

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uar-darko-ljubic

commit sha 1588ce5a7a1a3e8cbd1189c593ceb188f5f7e010

Disable building Windows installer on CircleCI

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uar-darko-ljubic

commit sha 2749d6c3d34edb8bfb459742439f03ab8ddc3c4b

Update version number to 2.0.1

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commit sha c1a6d6282441d8ecd694511303a62bea50b33b07

Merge branch 'release/v2.0.1' into develop

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uar-darko-ljubic

commit sha a1358de661a7b07f1d155bd161b5cdb44e1b26f4

Merge branch 'develop' of bitbucket.org:xnatdev/xnat-desktop-client into develop

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uar-darko-ljubic

commit sha eeab0d8af91d768eee89ad819080e3ad106b87c0

Remove Image Viewer link from main menu

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uar-darko-ljubic

commit sha 50439b2bfc9dc935e377adddf07abfac2dd48aa3

Updated range selector and thumbnail generation

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commit sha 85806d03d6d18be05d3f8e065743fc9a8159be05

Removed unneeded file

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Merged develop branch changes

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Merge branch 'release/v2.0.2' into develop

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Rick Herrick

commit sha 403a01739b1c30a581f0a9066e7a206dc3686f07

Updated to 2.0.1-alpha, updated build config to work with changes to node-java-build container. Changed ref to image to test latest image.

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Rick Herrick

commit sha cbec59786793475c505438b1f12a8e97b8fb385c

Updated image tag to 6-develop to test latest change

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Rick Herrick

commit sha 33922f7d5bba203fc92a3c0a87f1a4e2430467a6

Updated image tag to latest to revert to standard build image

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Rick Herrick

commit sha 4cc7be5559a232a441f95cda591fd3f856f46ceb

Reverted to using httpie instead of curl

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Rick Herrick

commit sha c6e4aad3a466a7365a1a11855e054b026911b4c8

Added notarize step to electron-build, fixes to remove read-only files in JRE and path issues for fix-java-libdir.sh

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Rick Herrick

commit sha 490f2b178ae0f5b23ee22fe5e475fb0a1b4df359

Expanded monkey patch for node-java, got app running with packaged JRE

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uar-darko-ljubic

commit sha 44d4f4ae9a2219cbc49155278fcd0fc8b9a5164b

TOOLS-523: Allow application to recover in case the Settings file gets corrupted

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uar-darko-ljubic

commit sha 19331db09e3440bfb7204c036c2476f97f641ea8

TOOLS-529: Modified wording on PHI review page

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uar-darko-ljubic

commit sha 8fac8e2a019cbbe28c6cdeea74fbdabbdc18329d

TOOLS-527: Fixed misalignment on progress monitor table headers

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uar-darko-ljubic

commit sha dd9f701498594859aa27d790d7608b8a02def3d1

TOOLS-528: Replaced cornerstone-core library with its fork with different canvas and image backgrounds

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uar-darko-ljubic

commit sha 030516eabdb1a4df6c15744068eb83d2018fbfe3

isPlainObject load updated

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uar-darko-ljubic

commit sha 3dd600be30543c32b0462758856d3febac6719ba

Multi-frame source

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uar-darko-ljubic

commit sha 073a203a3437ae972074bfc11306a11a845b7927

Cast logins setting as array if undefined

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uar-darko-ljubic

commit sha 56e92effc8fa9c4e43bbcc121031c19d3362cfaf

Multi frame support

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uar-darko-ljubic

commit sha 1588ce5a7a1a3e8cbd1189c593ceb188f5f7e010

Disable building Windows installer on CircleCI

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uar-darko-ljubic

commit sha 2749d6c3d34edb8bfb459742439f03ab8ddc3c4b

Update version number to 2.0.1

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commit sha c1a6d6282441d8ecd694511303a62bea50b33b07

Merge branch 'release/v2.0.1' into develop

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commit sha a1358de661a7b07f1d155bd161b5cdb44e1b26f4

Merge branch 'develop' of bitbucket.org:xnatdev/xnat-desktop-client into develop

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commit sha eeab0d8af91d768eee89ad819080e3ad106b87c0

Remove Image Viewer link from main menu

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Merge branch 'develop'

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Archive

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Log errors

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Rick Herrick

commit sha ad12e04e5ff20b8bc222344ef2baadebd8257f23

Incremented develop version to 1.0.41. Restored Bitbucket upload functionality for master branch builds.

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uar-darko-ljubic

commit sha 4afde275b7fb5c13a6b305a064e48c0e146dc55d

Text fix TOOLS-421

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commit sha 1d9c4cb1364ec1597a57ddf2a42bca708d1c658b

Text fix TOOLS-421 - take 2

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DYLD_LIBRARY_PATH test

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DYLD_LIBRARY_PATH update

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Rick Herrick

commit sha 3d2491ef17ee52a4c7ad232b2ac193f9b943892c

Merge commit 'd29343187bfc4dc28acba116c7b7446a82f444bc' into develop

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commit sha 8b25d331a82e1e56b80aa1648a9696a981db34e3

Test multiple sudo commands

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Test multiple sudo commands 2

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Test multiple sudo commands 3

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issue commentNrgXnat/xnat-docker-compose

Project License - Upload a license.md?

All projects developed by the XNAT team are open source and licensed under the simplified BSD license. I've added a license file in both the master and features/dependency-mgmt branches to clarify this.

ktunallux

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Project License - Upload a license.md?

Hi, Can i know what license this falls under? is this open source too like XNAT?

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issue commentNrgXnat/xnat-docker-compose

[BUG] XNAT-Web failed to build on Windows

@aditsanghvi94 Since you got to the point you did in issue #43, does that mean you resolved whatever was causing this problem? If you did anything in particular to get that working, it'd be helpful if you could add a comment explaining the problem and close the issue. Thanks!

aditsanghvi94

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issue closedNrgXnat/xnat-docker-compose

[BUG] Too many redirects when trying to access localhost due to security channel change

I was able to access xnat on my linux machine on localhost.

I made a stupid mistake in site admin -> security ->General Site Security Settings where i changed security channel from 'Any' to https only.

Now whenever i try to go to https://localhost, i am stuck in a redirect loop.

Do you know how I can change this setting back to any now that I can't access the web UI?

Please help :(

closed time in 2 months

aditsanghvi94

issue commentNrgXnat/xnat-docker-compose

[BUG] Too many redirects when trying to access localhost due to security channel change

You’ll need to change the setting in the database. You can do this with the following command:

$ docker exec xnat-db psql --username=xnat --command="UPDATE xhbm_preference SET value = 'any' WHERE name = 'securityChannel'"

Because this setting is injected into the security framework on system start-up, you’ll need to restart XNAT. You just do docker-compose down and up again, or you can restart just the xnat-web container:

$ docker-compose restart xnat-web
aditsanghvi94

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issue commentjoeferner/node-java

Issues with jvm_dll_path.json

@Petros99 We've been struggling with this issue for quite some time and had finally settled on "You have to install adoptopenjdk-8.jdk in /Library/Java/JavaVirtualMachines to run our application because that's what's on the Mac Xcode image on CircleCI". I finally found a workaround for the problem, at least on OS X for now. I hesitate to share this because it's so hacky, but... it works.

It seems the most intransigent issue here is not jvm_dll_path.json but really nodejavabridge_bindings.node, because the path to the JLI library gets hard-coded into the node file. I'm not familiar enough with how node-gyp works to know if this is absolutely necessary, but it's definitely very brittle, as evidenced by this exact case: it requires every machine on which an application is installed to have its native library dependency installed in exactly the same place. Getting jvm_dll_path.json to have a different path was a bit tricky, but getting nodejavabridge_bindings.node to include a different path required dirty nasty deeds.

Anyway, everything is in this commit, at least the relevant changes. I had previously tried monkey-patching the find_java_libdir.sh script in node-java, which actually ended up not fixing anything (I think because I actually managed to apply the patch after the script had already been run: one of the changes in this commit is applying the patch in postinstall rather than prepublish). The changes here do two things:

  • Replaces the path returned from postInstall.js to point to the location of the JRE integrated into the application. This changes the location stored in jvm_dll_path.json, but not the location that gets hard-coded into nodejavabridge_bindings.node.
  • Sets the include and library dirs in binding.gyp to point to the location of the JRE integrated into the application. This changes the location that gets hard-coded into nodejavabridge_bindings.node, but not the location stored in jvm_dll_path.json.

I think you need to change both of those locations or the fix won't work. I tested it with just the first and just the second and got different errors in each case.

The really big trick here though is copy a JDK (not just JRE, because you need the header files) into the installation location of the application. I did this manually on my local system while working on this, but it's reflected in the change to the CircleCI build configuration. It copies the JDK installed on the build image to the application install path, /Applications/XNAT-Desktop-Client.app in our case. AdoptOpenJDK, Zulu, Oracle, etc., all have the standard JDK layout (i.e. bin, include, lib, jre folders) in Contents/Home, but the JRE we bundle with the application gets installed to Contents/Resources in the installed application structure. This copies Contents/Home to Contents/Resources so that this resolves properly.

Note that I don't change JAVA_HOME or the path to use this copy of the JDK. Having the include headers in the correct place seems to be adequate. At one point I did actually configure the build to use the copy and had to modify Contents/_CodeSignature/CodeResources to change references from <key>Home/<file></key> to <key>Resources/<file></key> but I think I had changed JAVA_HOME and my path to use the JDK copy at that point. Also the JDK on the CircleCI Mac Xcode image doesn't even have the Contents/_CodeSignature folder so there's nothing to do there.

This is admittedly ghastly and it also means that you can't install the application anywhere other than /Applications, but I think that's easier to live with than requiring our users to install a JDK (they may even be able to install a JDK, since many of them don't have administrator permissions on their machines. I haven't even started trying this with our Windows build yet. Hopefully someone else on our team (someone with a working Windows machine maybe 😄 ) will do that instead.

Really, I'd love to have functionality in this module that could locate the JRE/JDK relative to the application structure and/or have the path be configurable so installing the JRE along with the application could be optional. That said, it seems at least in part the issue goes down to the node-gyp level, but again I'm not at all familiar with that so maybe someone who understands it could figure out a better (real) solution. Hopefully this helps though.

malathkar

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Step

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issue commentNrgXnat/xnat-docker-compose

Errors during DB Initialisation

That’s normal. Those queries are made by initialization tasks in XNAT. Those tasks start automatically along with other services in XNAT and, in an uninitialized system, might be querying tables and views that don’t yet exist. Those tasks catch the errors and defer execution for a period of time. They’ll keep doing that until the tables they’re trying to check exist, at which point the initialization task proceeds. In a traditional server deployment, you would only see that if you’re monitoring the database logs, but of course the docker-compose console combines the logs from all of the containers, so you get to see the messy side of how XNAT starts up 😊

Once you’ve initialized the system and the database schema is all there, you shouldn’t see those messages any more (or least not that often).

-- Rick Herrick Sr. Programmer/Analyst Neuroinformatics Research Group Washington University School of Medicine Phone: +1 (314) 273-1645

From: srinhari notifications@github.com Reply-To: NrgXnat/xnat-docker-compose reply@reply.github.com Date: Friday, July 31, 2020 at 9:53 AM To: NrgXnat/xnat-docker-compose xnat-docker-compose@noreply.github.com Cc: Subscribed subscribed@noreply.github.com Subject: [NrgXnat/xnat-docker-compose] Errors during DB Initialisation (#41)

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I get the following errors durign the xnat db initialisation (upon running docker-compose up):

xnat-db_1 | ERROR: relation "arc_archivespecification" does not exist at character 22 xnat-db_1 | STATEMENT: select count(*) from arc_archivespecification xnat-web_1 | SOURCE: /usr/local/tomcat/webapps/ROOT/ xnat-web_1 | =========================== xnat-web_1 | New Database -- BEGINNING Initialization xnat-web_1 | =========================== xnat-db_1 | ERROR: relation "xdat_element_security" does not exist at character 74 xnat-db_1 | STATEMENT: SELECT xdat_element_security.element_name AS xdat_element_security0 FROM xdat_element_security xdat_element_security xnat-db_1 | ERROR: relation "xdat_user" does not exist at character 28 xnat-db_1 | STATEMENT: SELECT login, enabled FROM xdat_user WHERE login NOT IN (SELECT xdat_username FROM xhbm_xdat_user_auth) xnat-db_1 | ERROR: relation "xdat_usergroup" does not exist at character 30 xnat-db_1 | STATEMENT: SELECT tag, displayname FROM xdat_usergroup WHERE tag IS NOT NULL AND substr(id, length(tag)+2) LIKE E'%_%'

Host: CentOS-7 Docker: 19.03

However, I am able to open up the Xnat website.

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srinhari

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issue commentmplushnikov/lombok-intellij-plugin

class de.plushnikov.intellij.plugin.psi.LombokLightMethodBuilder #JAVA because: psi is outdated invalidated at: no info [Plugin: Lombook Plugin]

Same issue here on OSX:

IntelliJ IDEA 2020.2 (Ultimate Edition)
Build #IU-202.6397.94, built on July 27, 2020
Licensed to xxx
Subscription is active until November 22, 2020
Runtime version: 11.0.7+10-b944.20 x86_64
VM: OpenJDK 64-Bit Server VM by JetBrains s.r.o.
macOS 10.15.6
GC: G1 Young Generation, G1 Old Generation
Memory: 3072M
Cores: 8
Registry: ide.balloon.shadow.size=0
Non-Bundled Plugins: com.chrisrm.idea.MaterialThemeUI, com.daylerees.rainglow, com.intellij.ideolog, CheckStyle-IDEA, Lombook Plugin, VisualVMLauncher, YourKit Java Profiler 2019.8-b138 Integration, com.ldriscoll.slf4jlogformat.intention.plugin, org.jetbrains.plugins.spotbugs, org.scalafmt.ScalaFmt, com.jetbrains.plugins.ini4idea, com.intellij.plugins.watcher, com.mallowigi, com.tobszarny.activetabhighlighter.plugin.id, net.ashald.envfile, net.seesharpsoft.intellij.plugins.csv, net.vektah.codeglance, org.antlr.intellij.plugin, org.jetbrains.plugins.go-template, org.jetbrains.plugins.vagrant, com.intellij.kubernetes, org.nik.presentation-assistant, some.awesome, cucumber-javascript, com.intellij.plugins.html.instantEditing, org.intellij.scala, izhangzhihao.rainbow.brackets, ru.adelf.idea.dotenv, org.asciidoctor.intellij.asciidoc

I actually got a number of different errors. I suspect they're all the same root cause but thought the different contexts might provide more info to track the issue down.

Could it be as simple as a typo? Here's part of the message:

invalidated at: no info [Plugin: ***LombookPlugin]*

Lombook rather than Lombok?

stacktraces.zip

fushengruomengzhang

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