github.com/ome/omero-blitz commits | Ecosyste.ms: OpenCollective

Merge pull request #5684 from mtbc/read-only

read-only server

de62512ab35f5e45a0e1ecde71aaf4d2fb347b52 authored over 6 years ago by Josh Moore <[email protected]>

Javadoc "since" annotation for new Blitz inner class

76d6d6f9f4c75ffc2d7532991706aca8e1ad6857 authored over 6 years ago by Mark Carroll <[email protected]>

OmeroReader: use RawPixelsStore.getTile to retrieve tiles

See
https://trello.com/c/2GKksxIS/59-omero-imagej-plugin-cannot-open-big-images

Instead of call...

6c9f78421302aa2d64ff7b05c707f4ffc986632d authored almost 7 years ago by Melissa Linkert <[email protected]>

have current sessions request use session provider

0577a0aee6b71ef07e6cbee2ed3d139ff5ac882f authored almost 7 years ago by Mark Carroll <[email protected]>

inject session provider bean into CurrentSessionsRequestI

0f20d97e50fa6ecbfbda0951a6bce52cea8cce95 authored almost 7 years ago by Mark Carroll <[email protected]>

ReadOnlyStatus.isAware protection for GraphModify2.dryRun

193bbad4f5c4621e5cb4de6a6fe879fafa53b1ef authored almost 7 years ago by Mark Carroll <[email protected]>

for DoAll use requests rather than pre-init(Helper) substeps

f9dba2c1621435159e6c2e1607825ea20fefb12a authored almost 7 years ago by Mark Carroll <[email protected]>

adjust Javadoc links to reflect changes in constructor args

2e5535c5244462fbdaaa23816224b87e88883f5c authored almost 7 years ago by Mark Carroll <[email protected]>

have various cmd requests report as being read-only

- CurrentSessionsRequest
- DiskUsage
- DiskUsage2
- FindParents
- FindChildren
- Fin...

dc52801493c887e103bb24de52a0afec8364cea9 authored almost 7 years ago by Mark Carroll <[email protected]>

have SkipHead propagate the read-only status of the request

941d6b46731b8690f081df9b4953aca28e3bdd42 authored almost 7 years ago by Mark Carroll <[email protected]>

have DoAll propagate the read-only status of its substeps

b1f7c8e07c24654f479785400f7af2afef2bb0be authored almost 7 years ago by Mark Carroll <[email protected]>

have handle use read-only status in setting up transaction

1a5bd08f98cc578e215b84267a072d7ec9477f23 authored almost 7 years ago by Mark Carroll <[email protected]>

remove unused import

02fed84393f0046768e73a47f83b0b9a3e74a557 authored almost 7 years ago by Mark Carroll <[email protected]>

inject read-only status into HandleI

7dbc54d0b066bd5f5ab8252b0d42b81ed6064abc authored almost 7 years ago by Mark Carroll <[email protected]>

tighten visibility on new inner classes for services

cf6f8579bb2d2c69e4f8566d033c5b030b8502d5 authored almost 7 years ago by Mark Carroll <[email protected]>

break handle's step-running work out into inner helper class

03068c996b78bd7d183ad6d6d6086971a56b34f2 authored almost 7 years ago by Mark Carroll <[email protected]>

deprecated Repository::pixels(string) as apparently unused

1e2b44a9bd054985123feb118264bf436a93edde authored almost 7 years ago by Mark Carroll <[email protected]>

protect permissions verifier from unloaded session owner

755ee1a7d13a288cf728a39a055529dea512bdd5 authored almost 7 years ago by Mark Carroll <[email protected]>

Merge pull request #5673 from waxenegger/masks_stats

Minimal Shape Stats - Masks

5982cb05e67371bf3bcc05d6b34d9e6686a637b6 authored almost 7 years ago by jean-marie burel <[email protected]>

check array length

bcb161e2ea2dac6dc352d3311693039542e40ca8 authored almost 7 years ago by Harald Waxenegger <[email protected]>

Merge remote-tracking branch 'origin/develop' into read-only

fa8daf455e045b8a2b39c16ebd82690fa1154421 authored almost 7 years ago by Mark Carroll <[email protected]>

fix Trac ticket URLs in code of Blitz component

a344cdd134339975ef6a33ee2ef6808bc2604e70 authored almost 7 years ago by Mark Carroll <[email protected]>

keep repository variable up to date with any changes

Also more clearly report when no repository is available,
which can happen in read-only situations.

77a0c0866da747006b5eedd915f1bcbc40dacc7b authored almost 7 years ago by Mark Carroll <[email protected]>

deprecate various constructors

Attempts to resist accretion of many argument combinations.

4cb564b25a66a9df17f42988e29c260f2b4c0d80 authored almost 7 years ago by Mark Carroll <[email protected]>

Fix 2017-SV6

See https://www.openmicroscopy.org/security/advisories/2017-SV6-job-file-link/ for more information

9aac871f92f11aff852cd20d31504c539378150e authored almost 7 years ago by jean-marie burel <[email protected]>

include session provider in Blitz configuration

Has permissions verifier use it for looking up session by UUID.

2d31bf8efe4a2e7f88ee23a24dd593b35b2914de authored almost 7 years ago by Mark Carroll <[email protected]>

pass isReadOnlyRepo to filesystem services

4387c470ba04164190a50ebd6add054605305c30 authored almost 7 years ago by Mark Carroll <[email protected]>

in read-only file maker must cope with missing repo ID file

4c60f0a9eb5489234731809a02e76306d96fac03 authored almost 7 years ago by Mark Carroll <[email protected]>

cannot forcibly close abandoned jobs if database is read-only

458ed95054e535c90fa00b7f6f681ea7ac22e346 authored almost 7 years ago by Mark Carroll <[email protected]>

Merge pull request #5635 from jburel/workflows

Workflows

3fc99d9d400d334c65c7a4fa907e0246374f5e91 authored almost 7 years ago by jean-marie burel <[email protected]>

Use rtime instead of long

7a99b76d155c1152023269c4d2e947a2f9d98211 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Allow little, big or both

f55a6d9ecd8da983510f2b326c3e5ed688dac1ad authored almost 7 years ago by jmoore <[email protected]>

Handle unknown images

adbe56c0b25c01501ed7021ea7d6aa62058ad4f1 authored almost 7 years ago by jmoore <[email protected]>

enable stats querying for masks

22475fa137b0816e7b87bbb70797f8d228ee5454 authored almost 7 years ago by Harald Waxenegger <[email protected]>

adjust whitespace in AbstractRepositoryI.GetOrCreateRepo

46dba67050b3f45292efe413c9a77d76ea0476e8 authored almost 7 years ago by Mark Carroll <[email protected]>

AbstractRepositoryI.GetOrCreateRepo runs read-only or -write

15f5541a1de622fdf18995281d3835dbf447b0fd authored almost 7 years ago by Mark Carroll <[email protected]>

create and use AbstractRepositoryI.GetOrCreateRepo.sf field

18114d588a18d9fe64c2f82d84245650932bc67b authored almost 7 years ago by Mark Carroll <[email protected]>

break AbstractRepositoryI.GetOrCreateRepo into helpers

follows @joshmoore's pattern of metadata53 changes

5fa71a87e48f2179576789acc96de03411c33ee4 authored almost 7 years ago by Mark Carroll <[email protected]>

have abstract repo pass read-only repo status on to FileMaker

0d46faeee7a0ea86e7e71790557e29ba984d1dc6 authored almost 7 years ago by Mark Carroll <[email protected]>

skip repo's move to common space as is also done after "if"

47b97a9a9a22c6d98090eb0135ab97b99e1fa804 authored almost 7 years ago by Mark Carroll <[email protected]>

remove constructor arg indices in repo Spring beans

668c3e5b6160921731891e81ea85deadbb179b62 authored almost 7 years ago by Mark Carroll <[email protected]>

inject read-only status into repository implementations

ba3e0d7c64f1dd4d5e648b86765e03b826ac5f82 authored almost 7 years ago by Mark Carroll <[email protected]>

adopt @joshmoore's expansion of log message

eb436477f3b4c51a7516b67f24221c39a3b7bcfd authored almost 7 years ago by Mark Carroll <[email protected]>

have FileMaker adapt for read-only

based on @joshmoore's work

99db1e1c790a800b634794dd3ca9047d3e057c09 authored almost 7 years ago by Mark Carroll <[email protected]>

add repo impl constructors for noting read-only status

12ea4dcacfbb10d0fb2206111917d92ab4810476 authored almost 7 years ago by Mark Carroll <[email protected]>

add state var about read-only to FileMaker

b780ca43ee657f3fd96f28bb901cbdb6ae02ca74 authored almost 7 years ago by Mark Carroll <[email protected]>

Add limit option

1f568d2cc6a88fb4390c0c2a646718d506003265 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

use bean instantiation guard for admin privs, params cache

Timed triggering of background tasks for admin privs cleanup
and script params cache should be s...

bbf9ae5428292b4215bc3f55e88715df6519253e authored almost 7 years ago by Mark Carroll <[email protected]>

add TODO

340a9bd28f8c470940ae17455d09644df554ac2f authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Adjust variable name

58aadcf45f0504f9fe28df12ae81cf12cbdfc89f authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Fix variable name

0a9c6b055e17688ecdf9415732876a815b72e99a authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Handle error during buffer init if image is invalid

3409320ef60639bc8205d0b86326288508a79fb6 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Add method to access Pixels directory

6227302301d093ec5dc497e18447acfc68d7bec2 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Merge pull request #5645 from joshmoore/import-non-ssl

CLImporter: allow forcing encrypted connection

bc9e723fac971a764559cbd218d3acf66efed94a authored almost 7 years ago by jean-marie burel <[email protected]>

Add null check

1743393e90af8bd7c20b6f517158565635bcb915 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Retrieve pixels dir from service

cf52b6fb3faa1f1d29b1101d30c4c330caff1bd2 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Remove logger

2bbc52e7294bce876790476bd99b52d84c4e5568 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Fix doc

ec56b3c5a41ece47fdaadd6e0e6368d9e6700c67 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Handle checkEmptyFile option

8b78e1b03829ddfeb9c30c1e1e100f9b490fa63e authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Add new class and option to delete thumbnail

5569e15d383db542dc2ec3b2aeb8916a7731c20d authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Fix doc

b1b82dc6ce7c90fbbc4810108327fadc7b6130d7 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Handle option to delete thumbnails

b60a1c9e2ac3d4b9cf2c255b3a49e46dd0c7767f authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Handle new class generation

5a47ec8c237e997b00a25672b7df54aaf6d3b86d authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Find pyramids

66e9202057927d49b74edb403a8222440bb729fe authored almost 7 years ago by Jean-Marie Burel <[email protected]>

Merge tag 'v5.4.2' into workflows

Tag 5.4.2 bug fix

21e3df07173e90c86b720d6ebee08740effb6cd1 authored almost 7 years ago by Jean-Marie Burel <[email protected]>

fix unit tests to again use session manager implementation

includes provision of in-database session and node providers

baca8c01716d61195266cdbecec41fc402663d90 authored almost 7 years ago by Mark Carroll <[email protected]>

restore SessionManagerImpl code and break out SessionProvider

SessionProvider provides implementations that differ between
BaseSessionManager's concrete subcl...

941aa697fa96b00f9390f7f17b668d33eb248979 authored almost 7 years ago by Mark Carroll <[email protected]>

Fix encrytped typo

152a97d1e4ac85e66256a37a584ab7aaa648960a authored almost 7 years ago by Josh Moore <[email protected]>

Merge pull request #5550 from chris-allan/lut-provider

Switch to lookup table provider service

a46831f8e01817ae6c4b9d64063513722ea1dd51 authored almost 7 years ago by jean-marie burel <[email protected]>

adopt Glencoe's read-only Ring.getManagerList implementation

3dd17de4ed6e9b05a6dc5527ad9c020f312741a9 authored almost 7 years ago by Mark Carroll <[email protected]>

have Ring use NodeProvider

01332c4aba0affcb7ee1e38634251796182c3512 authored almost 7 years ago by Mark Carroll <[email protected]>

Bugfix: Connector for other group using args constructor fails

If the LoginCredentials(String[] args) constructor is used to
log in, the creation of connectors...

d1bea987d06ca0372a756a7ff00ff8e9732dac64 authored almost 7 years ago by Dominik Lindner <[email protected]>

Added public getter for pixel values

8f412658019eb6dd782aba97b15c3b6977b419f7 authored almost 7 years ago by Dominik Lindner <[email protected]>

provide node provider to session manager and ring

Just using in-DB node provider for now until wrapped.

533638e5f5e993d62cadac95812fe23fc12d5b9c authored almost 7 years ago by Mark Carroll <[email protected]>

fix construction of mock ring and node provider for tests

9d311ddf578537e6c3a34e8a15685800aa75e023 authored almost 7 years ago by Mark Carroll <[email protected]>

CLImporter: allow forcing encrypted connection

By default, the CLI importer uses the TCP port (unencrypted)
for performance reasons. If no TCP ...

fab41527e0da1b0984e6ce756d62b61e6a3e67cd authored almost 7 years ago by jmoore <[email protected]>

CLImporter: detect no TCP and fallback to SSL

34760697014a92bca2aef3cd575f9b65e188907b authored almost 7 years ago by jmoore <[email protected]>

renaming server classes to fit regular pattern

Foo - interface
FooInMemory - in-memory implementation
FooInDb - legacy read-write implementation

1e905024751f39e0a57cf62cfc2827aaf44388c3 authored almost 7 years ago by Mark Carroll <[email protected]>

have ring and session manager expect a node provider

acdaf016ae58be1263b612181391f96ac8934273 authored almost 7 years ago by Mark Carroll <[email protected]>

small adjustment to comment wording

9a6a08c75215ac036d0bcc507b6dc708300e74e2 authored almost 7 years ago by Mark Carroll <[email protected]>

introduce Glencoe's interfaces for event and node providers

a7d2e3c2d51e0d0e62bbb6539939315acc343ca4 authored almost 7 years ago by Mark Carroll <[email protected]>

In memory node provider implemenation

1f4f564a68669e21f1f6e0ce937a7bad2faa5117 authored almost 7 years ago by Chris Allan <[email protected]>

temporarily disable chown-all (targetUsers argument)

3c44277256535c2fb13a25065e171df7959d6a3d authored almost 7 years ago by Mark Carroll <[email protected]>

Merge pull request #5616 from openmicroscopy/next_infra

Re-integrate next_infra into develop

5535239ff518e7c40ea6171d5e3b6c65f7386e63 authored almost 7 years ago by Josh Moore <[email protected]>

Fix suggestions from jburel

e3eee099f67da21f5fa3098251e3342ff4e2ed78 authored almost 7 years ago by jmoore <[email protected]>

End trailing whitespace

71e944d6ac430060ad4bdc8e02668d36070b71f8 authored almost 7 years ago by jmoore <[email protected]>

Merge pull request #5556 from mtbc/flyweight-permissions

flyweight permissions in server

1486795b235e2e3960653eb0fc7b0ff268a01548 authored almost 7 years ago by Josh Moore <[email protected]>

Merge pull request #5565 from dominikl/histogram_example

Histogram example - Java

c75553b9f5c832593f1543d9d6ac77c6893aa2de authored almost 7 years ago by Josh Moore <[email protected]>

Merge pull request #5610 from mtbc/fix-loglevel

allow SciJava native lib loader loglevel to be configured

465ebb6b4390b179ecc152bde67a36e69ca649ed authored almost 7 years ago by Josh Moore <[email protected]>

support polygon/polyline created by iviewer

c69eec0ade3003304feda047ceffc3aa5cb0cc6f authored almost 7 years ago by Jean-Marie Burel <[email protected]>

tidy class header

328eeefdc56e26e868f3281a0e3bba2134582ff2 authored almost 7 years ago by Mark Carroll <[email protected]>

apply selected log level to SciJava native library loader

10fb94b887708e27c213ecbbc4f30b3e0f99b396 authored almost 7 years ago by Mark Carroll <[email protected]>

prevent import targeting a container where canLink is false

9216e7a512d9b4d5d1773eff02557267cec6deed authored about 7 years ago by Mark Carroll <[email protected]>

fix syntax of ["deprecate"] metadata directive in Slice files

ee44c9a03724be4b0aaadfe45269cdb41e0da2e3 authored about 7 years ago by Mark Carroll <[email protected]>

deprecate RawAccessRequest

Intended only for internal use, testing and diagnostics.
Good candidate for early microservice.

7563bd72a0ae3b94d4a7eae1fb72f870ea917194 authored about 7 years ago by Mark Carroll <[email protected]>

move omero.grid.LogLevel to omero.constants.LogLevel

define in Constants.ice rather than Repositories.ice

8fd89809344b2f6fca5e1d19058891c27485c677 authored about 7 years ago by Mark Carroll <[email protected]>

Merge branch 'clisplit' into log-cmd

956737ec372bf5203936d54b87b3c019f833b051 authored about 7 years ago by Josh Moore <[email protected]>

Merge pull request #5490 from dominikl/add_update_tables

Add update tables method

64c76b8fcd734419d8cdddba0e72dd25bea24ea4 authored about 7 years ago by Josh Moore <[email protected]>

Merge pull request #5513 from dominikl/java_gateway_fixes

Java gateway bugfixes

3d1779a0693a98f30f9f48c6d036c6dbcea11e8e authored about 7 years ago by Josh Moore <[email protected]>

Merge pull request #5541 from mtbc/clear-cmd-context

clear context after CallContext invocation

f84e3bcb546d373325a0c4ce40fb719bcdd09c71 authored about 7 years ago by jean-marie burel <[email protected]>