[ice-build] Build failed in Jenkins: ice-next #832

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See <https://ci.eclipse.org/ice/job/ice-next/832/display/redirect?page=changes>

Changes:

[smithrw] Fixed target

[anara.ornl] Update the licence reference

[smithrw] Fixed target

[smithrw] Updated build for changes in target

[Jay Jay Billings] Deleted everything except the original framework. Mostly.

[Jay Jay Billings] Fixed other things preventing target resolution in the build.

[Jay Jay Billings] Cleaned up minor things, but build is still broken.

[Jay Jay Billings] Pushing some basic III changes.

[Jay Jay Billings] Added initial Identifiable OWL schema and instance.

[Jay Jay Billings] Added Component and most of Composite to ontology.

[Jay Jay Billings] Intermediate progress on OWL ontology.

[Jay Jay Billings] Added most of the component list and associated baggage.

[Jay Jay Billings] Renamed and moved the project directory.

[Jay Jay Billings] Added test files.

[Jay Jay Billings] Reorganized files and combined the projects.

[Jay Jay Billings] Further cleanup.

[Jay Jay Billings] Fixed test structure and build paths.

[Jay Jay Billings] Figured out basic Jena operations with the ICE ontology.

[Jay Jay Billings] Minor changes based on the static constants.

[Jay Jay Billings] Finished first implementation of ComponentBuilder and its test.

[Jay Jay Billings] Finished the first complete implementation of ComponentBuilder and test.

[Jay Jay Billings] Finished ICEModelFactory basic implementation.

[Jay Jay Billings] Added stubs for the next set of data classes and tests.

[Jay Jay Billings] Started Fuseki connection testing.

[Jay Jay Billings] Minor cleanup of FusekiTest.

[Jay Jay Billings] I have a working example of dataset creation wired up in FusekiTest.

[Jay Jay Billings] Minor changes ahead of migrating this to BATS.

[Jay Jay Billings] Minor preferences update.

[Jay Jay Billings] Added ReadWrite import and uncommented some parts.

[Jay Jay Billings] Renamed data OWL file. Added workflows project.

[Jay Jay Billings] Capturing a few lines of notes.

[Jay Jay Billings] Renamed/scoped the ICE data ontology namespace to be more precise.

[Jay Jay Billings] Added some notes. Removed tracked target files.

[Jay Jay Billings] Fixed some errors in the data ontology, continued on workflows.

[Jay Jay Billings] Reworked some of this using Protege.

[Jay Jay Billings] Added more to the workflow ontology. Started making tests.

[Jay Jay Billings] Fixed action types and added subclasses.

[Jay Jay Billings] Changed "Bash Script" to "Shell Script."

[Jay Jay Billings] Added CWLTool to represent Common Workflow Language Tools.

[Jay Jay Billings] Added web service subclasses, reorganized language invocation.

[Jay Jay Billings] Fixed multiple object properties...

[Jay Jay Billings] Fixing project file.

[Jay Jay Billings] Reworked Task.

[Jay Jay Billings] Cleaned up and modified Workflow Description.

[Jay Jay Billings] Finished task model, workflow description, action updates.

[Jay Jay Billings] Added Spring State Machine dependency.

[Jay Jay Billings] Fixed state names and documentation in workflow ontology.

[Jay Jay Billings] Added a simple Spring State Machine for file moving.

[Jay Jay Billings] Fixed some ignores.

[Jay Jay Billings] Added test turtl files for simple move and Pegasus split workflows.

[Jay Jay Billings] Finished pegasus split example. Started on ICE example.

[Jay Jay Billings] Finished ICE and SNS-HFIR workflows.

[Jay Jay Billings] Added commands bundle (no classes).

[Jay Jay Billings] Fixed test package name.

[Jay Jay Billings] Added CommandFactory and test stub. Added junit dependency.

[Jay Jay Billings] Added FileHandler classes for file transfer commands.

[Jay Jay Billings] Added additional stubs for classes and tests.

[osbornjd] Initial commit of some basic classes for API

[osbornjd] Some test classes

[osbornjd] More class commits with associated test classes

[osbornjd] Added some member variables to classes

[osbornjd] Added some member variables to classes

[osbornjd] Pushing new commit message

[osbornjd] Added more member variables and functions

[osbornjd] Developed local commands, started implementing file handler after rebase

[osbornjd] Changed local FileHandler/copy/move command tests to create temp files

[osbornjd] Moved testfile creation into setup functions

[osbornjd] Fixed monitorJob() exitValue bug

[osbornjd] Changed copy/move inheritance structure

[osbornjd] Removed isLocal AtomicBoolean as it is extraneous

[osbornjd] Added some finals in a few method arguments

[osbornjd] Changed fixExecutableName function name

[osbornjd] Delete test files after creation, check file creation in FileHandler

[osbornjd] Moved execute() outside of constructor to be called by user

[osbornjd] Removed System.exit(1) calls from CommandFactory

[osbornjd] Trying to add logger, still debugging

[osbornjd] Added default log4j properties file so that logger actually prints stuff

[osbornjd] Cleaned up command test, cleaned up CommandStatus options

[osbornjd] Ran eclipse formatter on everything. Will do in the future by default

[osbornjd] Removed some (to date) unimplemented test failures so that maven could

[Jay Jay Billings] Cleaned up FileHandler.

[osbornjd] Cleaned up FileHandler.

[osbornjd] Committing some remote command functionality

[osbornjd] Reconfigured much of CommandConfiguration, Command, etc.

[osbornjd] Overhaul of Command design

[osbornjd] Removed static declaration from CommandFactory class

[osbornjd] Removed CommandConfiguration constructor and not accessing with get/set

[osbornjd] Move setConfiguration to Command, delete useless test class

[osbornjd] Constructed some tests for getting the executable name in CommandConfig

[osbornjd] Re-added fails to unimplemented tests, added CommandStatus documentation

[osbornjd] Added comments to all getter/setter pairs

[osbornjd] Committing to save changes made to FileHandler

[osbornjd] Separated comments in CommandConfiguration get/set, small improvements

[osbornjd] Beginning overhaul of FileHandler framework - more to work on

[osbornjd] Overhaul of FileHandler design

[Jay Jay Billings] Fixed the name of FileHandlerFactory.

[Jay Jay Billings] Changed method name to FileHandlerFactory.getFileHandler.

[Jay Jay Billings] Hooked FileHandler up to the workflow code.

[Jay Jay Billings] Fixed paths in test.

[osbornjd] Committing to pull

[osbornjd] Added examples showing the command API

[osbornjd] Changed FileHandler design to use default constructors and accessors

[osbornjd] Removed unnecessary ConnectionConfigurations

[osbornjd] Fixed up comments

[osbornjd] Committing some intermediate work while breaking to merge Jay's changes.

[Jay Jay Billings] Added tests/resources folder to fix Maven build.

[osbornjd] Added test and code to address bug of changing file names

[osbornjd] Moved file extension logic into own function

[osbornjd] Moved copy/move functionality into base class

[osbornjd] Added some things to Command as asked by Ross/Jean

[osbornjd] Put OS back in command config

[osbornjd] Changed command configuration function name

[osbornjd] Added os test in CommandConfiguration

[osbornjd] Committing two days of work on remote commands

[osbornjd] Adjusted remote password collection, fixed a test or two

[osbornjd] Adjusted some tests and username/hostname grabbing. Also reformatted

[osbornjd] Put JSch in pom instead of classpath

[osbornjd] Committing work from yesterday on remote commands

[osbornjd] Execute remote command test successful

[osbornjd] Finishing up Remote Commands functionality

[osbornjd] Adjusted some of Command's design, added a few other things

[osbornjd] Added a console eraser class and function to mask password input

[osbornjd] Condensed some Command functionality

[osbornjd] Added some more tests, refactored a few things

[osbornjd] Cleaned up several tests, unified path/script settings

[osbornjd] Fixed file permission bug

[osbornjd] Moved remote working directory to command configuration

[osbornjd] First pass at remote file handling tests, start development next

[osbornjd] Wrote tests for remote file handling, need to write source code now

[osbornjd] Committing changes requested by Jay, some more tests, and remote file

[osbornjd] Dummy change since git password was rejected for some reason

[osbornjd] Git config was messed up, trying again

[osbornjd] Updated connection list to hash map instead of array list

[osbornjd] Adjusted protected/private member variables as needed

[osbornjd] Removed requirement of an inputfile

[osbornjd] Edited CommandConfiguration etc. to handle multiple input files

[osbornjd] Eclipse didn't pick up the additional input file

[osbornjd] Changed format of inputfiles to have the option to match Robert's

[osbornjd] Updated JRE

[osbornjd] Added test for null connection from getConnection

[osbornjd] Changed key set to values in close all connections iteration

[osbornjd] Updated comment

[osbornjd] Started implementing multi-hop functionality

[osbornjd] Started remote file handling api

[osbornjd] Made ConnectionManager local

[osbornjd] Adjusted input file naming format to hashmap

[osbornjd] Whoops, uncommented the tests

[osbornjd] Added more tests, also added a build script

[osbornjd] Added some file handling source code, more work to do

[osbornjd] Lots of work on remote file handling. Created static ConnManagerFactory

[osbornjd] Updated ConnectionManagerFactory, implemented functioning remote file

[osbornjd] Added remote copy test

[osbornjd] Checked file handler factory source code and tests

[osbornjd] All FileHandlerFactoryTests now independent

[osbornjd] Added ability to create multiple subdirectories remotely

[osbornjd] Cleaned up some tests, added file removal. formatted all files

[osbornjd] Fixed up some tests and put file handler api into remote commands

[osbornjd] Cleaned up some tests

[osbornjd] Fixed local move bug, added test to check for it

[osbornjd] Updated some tests, added source code to the examples in demo

[osbornjd] Refactored comments

[osbornjd] Formatted all setter functions the same

[osbornjd] Added comments to get password function

[osbornjd] Moved exception catching to the publicly called functions

[osbornjd] Checked that all exceptions were properly logged

[osbornjd] Removed all cases of else with return

[osbornjd] Checked that all exceptions were properly handled or logged

[osbornjd] Altered try/catch logic for channel connection in running remote cmd

[osbornjd] Removed all print stack traces, changed checkStatus to return bool

[osbornjd] Added some file handling log statements

[osbornjd] Added functionality to run python scripts, including test and example

[osbornjd] Initial commit of password authorization design

[osbornjd] Implemented console and SWT password functionality, with tests

[osbornjd] Commented out tests since they aren't automated

[osbornjd] Added option to get password from an input text file

[osbornjd] Committing note on password factory

[osbornjd] Moved SWT authorization to its own package to remove extra dependencies

[osbornjd] Eclipse missed .project

[osbornjd] Changed class names, reorganizing password collection in ConnManager

[osbornjd] Complete overhaul of password authorization design and implementation

[osbornjd] Added settings directory to swt package

[osbornjd] Added short README

[osbornjd] Updated string output to add line by line

[osbornjd] Fixed examples to contain new password authorization API

[osbornjd] Fixed remote command ls bug. added corresponding test

[osbornjd] Removed absolute directory reference

[osbornjd] Added hello world windows powershell script

[osbornjd] Working on profiling remote commands, haven't made much progress

[osbornjd] Minimum working example of a remote ls command

[osbornjd] Updated README to include comment on double dependencies discovered

[osbornjd] Majorly revamped the file handling connections

[osbornjd] Continued speed improvements

[osbornjd] Fixed bug in connection manager test, uncommented remote command tests

[osbornjd] Remote commands connection management changes

[osbornjd] Fixed bug that required working directory to end in /

[osbornjd] Removed some excessive log statements

[osbornjd] Session management

[osbornjd] Commit for windows local command testing

[osbornjd] Altered functionality to include remote scripts and local input files

[osbornjd] Cleaned up test file clean up

[osbornjd] Implemented changes requested by Jay

[osbornjd] Added git ignore files, modified swt build script name

[osbornjd] Fixed examples

[osbornjd] Fixed local command test for windows

[osbornjd] Commit updated README after discussion with Lance

[osbornjd] Testing git commit on desktop

[osbornjd] Some improved tests for windows

[osbornjd] Fixed bug

[osbornjd] Added test for exceptional grep exit value case, added code for

[osbornjd] Switched outfile names

[osbornjd] Removed exit value exception logic

[osbornjd] Fixed test for Windows

[osbornjd] LocalFileHandler windows tests pass

[osbornjd] Updated ConnectionManager test for windows

[osbornjd] Remote file transfer windows tests

[osbornjd] Typo in cred file name

[osbornjd] Fixed remote dummy host file deletion

[osbornjd] Remote file handling windows tests

[osbornjd] Fix IFileHandlerFactoryTests for windows

[osbornjd] Added stack trace

[osbornjd] Added stack traces to logging statements for debugging

[osbornjd] Forgot to add script

[osbornjd] Comment this out for now, need to return to it with robert

[osbornjd] Fixed up remote command tests for windows

[osbornjd] Remote Command test bug fixed

[osbornjd] Fixed up command and command factory tests for windows

[osbornjd] Committing minor changes to connection in file handling

[osbornjd] Separated sftp and exec channels. Reformatted code with eclipse format

[osbornjd] Added some comments

[osbornjd] Added argument variable and associated test for fix executable

[osbornjd] Committing first pass at (nonfunctional) file browsing tests

[osbornjd] Commit to switch branches

[osbornjd] Added test with argument and input files

[osbornjd] Committing work from yesterday on file browsing

[osbornjd] Implemented remote file walking, refactored names

[osbornjd] Fixed file creation bug windows

[osbornjd] Always delete remote file browsing tree structure

[osbornjd] Windows testing for remote file browser and tests

[osbornjd] windows testing

[osbornjd] Added some code to increase security of ssh connection

[osbornjd] Set strict host checking to no for tests

[osbornjd] Updated readme with blurb about public key in known_hosts

[osbornjd] Removed the StrictHostKeyChecking in tests, setup a setter for users

[osbornjd] Trying to fix CI connection

[osbornjd] Added some more detail to commands use readme

[osbornjd] Fix exception

[osbornjd] Committing spaces for ci test

[osbornjd] Added enum to explicitly set transfer type

[osbornjd] Changed FileBrower logger class name

[osbornjd] Altered design for FileHandler to return a FileBrowser and for...

[osbornjd] updated readme

[osbornjd] Updated command manager known_hosts default location for windows

[osbornjd] Committing some gitignores

[osbornjd] Removed a few simple TODOs, formatted each class

[osbornjd] Added private key authentication possibility in ConnectionManager

[osbornjd] Removed duplicate code for key authorization, cleaned up manager

[osbornjd] Created a Basic connection authorization to take uname/hname/pwd

[osbornjd] Change key paths to system default

[osbornjd] Adjusted some comments, a few connection related clean ups

[osbornjd] Remove unnecessary line

[osbornjd] Trying to make file browser more efficient

[osbornjd] updated readme with keygen test info

[osbornjd] Delete remote files made in test

[osbornjd] Fixed file deletion test error

[osbornjd] Fixed tests to run appropriately on any arbitrary remote host (i.e. not

[osbornjd] Add all ssh authentication methods from known_hosts

[osbornjd] Adjusted authorization type to a list for easy additions

[osbornjd] Added statements in to check for job cancellation in job monitoring

[osbornjd] Updated README with connection manager info

[osbornjd] Fixed comment

[osbornjd] Reformatted

[osbornjd] Merging

[osbornjd] Removed redundant code

[osbornjd] Added getter/setter for ConnectionManager

[osbornjd] Made set connection public, streamlined keypath tests, removed todo

[osbornjd] hack fix for jsch threading issue for now

[osbornjd] Removed log statements

[osbornjd] Committing hello world modeling project

[Jay Jay Billings] Added initial prototype files.

[Jay Jay Billings] Added cleanup task lists.

[smithrw] Changed package name for inclusion in ICE

[smithrw] Added copyright statements

[smithrw] Created org.eclipse.ice.tests.renderer package

[smithrw] Moved DataElement to its own file

[Jay Jay Billings] Class path and preference changes.

[Jay Jay Billings] Fixed other classpath issues (maven eclipse:clean & maven

[Jay Jay Billings] Fixed renderer project structure to match the Maven standard.

[Jay Jay Billings] Finished the first complete implementation of DataElement.

[Jay Jay Billings] Added an slf4j logger.

[Jay Jay Billings] Finished some cleanup and first cut of the JavascriptValidator.

[Jay Jay Billings] Updated the class documentation and fixed missing equals() docs.

[Jay Jay Billings] Fixing project structure, classpath, and build issues.

[Jay Jay Billings] Fixed class paths and build.

[Jay Jay Billings] Cleaned up POM file and fixed release version to 11.

[Jay Jay Billings] Switched to Dagger 2 for dependency injection.

[Jay Jay Billings] Added some classes and a dependency to play with annotations.

[Jay Jay Billings] Added annotations bundle.

[Jay Jay Billings] Added .gitignore

[Jay Jay Billings] Added .gitignore

[Jay Jay Billings] Added annotations to the annotations.

[Jay Jay Billings] Fixed bug where annotations were not registered.

[Jay Jay Billings] Fixed bug where annotation processes were not called.

[Jay Jay Billings] Set version back to Java 11 after fixing processors.

[bluhmdj] Exclude logback-classic

[bluhmdj] Basic processing in place with template

[bluhmdj] Refine processor, write to JavaFileObject

[bluhmdj] Cleanup

[bluhmdj] Remove duplicate logback-classic exclusion

[bluhmdj] Clean up formatting

[bluhmdj] Skip annotations not of type DataField

[bluhmdj] Only visit DataFields

[bluhmdj] Correctly handle single and many DataField Annotations

[bluhmdj] Ensure auto service is working

[bluhmdj] Simplify annotation value retrieval method

[bluhmdj] Split inner classes out to separate files

[bluhmdj] Document body of process and writeClass

[bluhmdj] Drop main from DataElement.vm

[bluhmdj] stackTracetoString -> stackTraceToString

[bluhmdj] Return false from DataElementProcessor

[bluhmdj] More documentation

[bluhmdj] Remove @DataElement from HTMLView

[bluhmdj] Avoid using hardcoded strings, move to enums

[bluhmdj] Add elements from property map as fields

[bluhmdj] Add properties from DataElement<T>

[bluhmdj] Initial tests for @DataElement

[bluhmdj] Create DefaultFields helper

[bluhmdj] Add failing tests back in

[bluhmdj] Update template to pass tests

[bluhmdj] Refine DefaultFields

[bluhmdj] Add more documentation to DefaultFields, Fields, Tests

[bluhmdj] Documentation and refinements on Field

[bluhmdj] Load Fields from JSON file with @DataFieldJson

[bluhmdj] Set annotation version to 11

[bluhmdj] Generate comments for the default fields

[bluhmdj] Make matches() less branch-tastic

[bluhmdj] Fill out IDataElement with accessors for DefaultFields

[bluhmdj] Add documentation to Fields

[bluhmdj] Rework DataFieldsVisitor

[bluhmdj] Add deserialization methods for recently added fields

[bluhmdj] Use ObjectMapper in DataFieldsVisitor

[bluhmdj] Use one ObjectMapper in DataElementProcessor

[bluhmdj] Remove intermediate value

[bluhmdj] No longer need to escape JSON defaultValues

[bluhmdj] Fix setter template

[bluhmdj] Fix defaultValue escaping and add tests

[bluhmdj] Add JUnit dependency to dev.annotations

[bluhmdj] Fix eclipse settings to target Java 11

[bluhmdj] Simplify retrieving AnnotationMirrors by class

[bluhmdj] Initial Persistence interface and annotation

[bluhmdj] ContextProperty -> DataElementTemplateProperty

[bluhmdj] Add DataElementRoot class

[bluhmdj] Add fromJSON(T) where T extends Map<String,Object>

[bluhmdj] Add initial PersistenceHandler template

[bluhmdj] Generate Persistence Find methods by fields

[bluhmdj] Remove FieldAlias and just use Field

[bluhmdj] Generate find methods for aliases

[bluhmdj] Add docs to PersistenceHandler interface and impl

[bluhmdj] Custom filter methods to handle UUID special case

[bluhmdj] Remove asMap

[bluhmdj] Rework generics in IPersistenceHandler

[bluhmdj] Manually include methods generated by DataElement

[bluhmdj] Persisted Annotation docs.

[bluhmdj] Rename find() -> findAll()


------------------------------------------
Started by an SCM change
Running as SYSTEM
Building in workspace <https://ci.eclipse.org/ice/job/ice-next/ws/>
No credentials specified
 > /usr/local/bin/git rev-parse --is-inside-work-tree # timeout=10
Fetching changes from the remote Git repository
 > /usr/local/bin/git config remote.origin.url https://github.com/eclipse/ice # timeout=10
Fetching upstream changes from https://github.com/eclipse/ice
 > /usr/local/bin/git --version # timeout=10
 > /usr/local/bin/git fetch --tags --progress -- https://github.com/eclipse/ice +refs/heads/*:refs/remotes/origin/* # timeout=10
 > /usr/local/bin/git rev-parse origin/next^{commit} # timeout=10
Checking out Revision 298e97c434beceda7bd747fb6ec259121790d0de (origin/next)
 > /usr/local/bin/git config core.sparsecheckout # timeout=10
 > /usr/local/bin/git checkout -f 298e97c434beceda7bd747fb6ec259121790d0de # timeout=10
Commit message: "Pulled in annotation engine from GitLab"
 > /usr/local/bin/git rev-list --no-walk efe1924122aa43cc4c5e4c349675a5e75cf832d0 # timeout=10
Starting xvnc
[workspace] $ Xvnc :1522 -geometry 1024x768 -depth 24 -ac -SecurityTypes none -noreset
[workspace] $ /bin/sh -xe /tmp/genie.ice/jenkins6011065903799389867.sh

Xvnc TigerVNC 1.4.1 - built ??? ?? ???? ??:??:??
Copyright (C) 1999-2013 TigerVNC Team and many others (see README.txt)
See http://www.tigervnc.org for information on TigerVNC.
Underlying X server release 11502000, The X.Org Foundation

Initializing built-in extension VNC-EXTENSION
Initializing built-in extension Generic Event Extension
Initializing built-in extension SHAPE
Initializing built-in extension MIT-SHM
Initializing built-in extension XInputExtension
Initializing built-in extension XTEST
Initializing built-in extension BIG-REQUESTS
Initializing built-in extension SYNC
Initializing built-in extension XKEYBOARD
Initializing built-in extension XC-MISC
Initializing built-in extension XFIXES
Initializing built-in extension RENDER
Initializing built-in extension RANDR
Initializing built-in extension COMPOSITE
Initializing built-in extension DAMAGE
Initializing built-in extension MIT-SCREEN-SAVER
Initializing built-in extension DOUBLE-BUFFER
Initializing built-in extension RECORD
Initializing built-in extension DPMS
Initializing built-in extension Present
Initializing built-in extension X-Resource
Initializing built-in extension XVideo
Initializing built-in extension XVideo-MotionCompensation
Initializing built-in extension GLX

Mon Jun 22 11:35:14 2020
 vncext:      VNC extension running!
 vncext:      Listening for VNC connections on all interface(s), port 7422
 vncext:      created VNC server for screen 0
+ cd /opt/public/hipp/homes/genie.ice
+ rm -rf ICETests
+ git clone git@xxxxxxxxxx:jayjaybillings/ICETests.git
Cloning into 'ICETests'...
[dix] Could not init font path element /usr/share/fonts/TTF/, removing from list!
[dix] Could not init font path element /usr/share/fonts/OTF/, removing from list!
Permission denied (publickey).
fatal: Could not read from remote repository.

Please make sure you have the correct access rights
and the repository exists.
Build step 'Execute shell' marked build as failure
Taking screenshot.
[workspace] $ echo $XAUTHORITY
<https://ci.eclipse.org/ice/job/ice-next/ws/.Xauthority-4520877275878537320>
[workspace] $ ls -l $XAUTHORITY
-rw-rw-r-- 1 genie.ice 8303 0 Jun 22 11:35 <https://ci.eclipse.org/ice/job/ice-next/ws/.Xauthority-4520877275878537320>
[workspace] $ import -window root -display :1522 screenshot.jpg
Terminating xvnc.