Develop Reference

JAVA Simulation error when using Cooja mote in Contiki-ng

I'm trying to do a simulation in Cooja simulator, Contiki-ng using cooja motes and CSMA and the energest model.
Even though the simulation works well in Z1 mote with cooja motes the simulation stops and I get a null pointer error:
[15:19:20 - Thread-1] [Simulation.java:308] [FATAL] - Simulation stopped due to error: null
java.lang.NullPointerException: null
at org.contikios.cooja.contikimote.ContikiMoteType.getCoreMemory(ContikiMoteType.java:824) ~[cooja.jar:?]
at org.contikios.cooja.contikimote.ContikiMote.execute(ContikiMote.java:149) ~[cooja.jar:?]
at org.contikios.cooja.motes.AbstractWakeupMote$1.execute(AbstractWakeupMote.java:51) ~[cooja.jar:?]
at org.contikios.cooja.Simulation.run(Simulation.java:296) ~[cooja.jar:?]
at java.lang.Thread.run(Thread.java:829) ~[?:?]
When I try to do the same simulation with TSCH, 6TiSCH 6top and add the energest model I get this error:
#
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0x00007f893449310d, pid=723817, tid=724266
#
# JRE version: OpenJDK Runtime Environment 18.9 (11.0.15+10) (build 11.0.15+10-LTS)
# Java VM: OpenJDK 64-Bit Server VM 18.9 (11.0.15+10-LTS, mixed mode, sharing, tiered, compressed oops, g1 gc, linux-amd64)
# Problematic frame:
# V [libjvm.so+0xa5710d] Klass::search_secondary_supers(Klass*) const+0xd
#
# Core dump will be written. Default location: Core dumps may be processed with "/usr/lib/systemd/systemd-coredump %P %u %g %s %t %c %h %e" (or dumping to usr/contiki-ng/tools/cooja/build/core.723817)
#
# If you would like to submit a bug report, please visit:
# https://bugzilla.redhat.com/enter_bug.cgi?product=Red%20Hat%20Enterprise%20Linux%208&component=java-11-openjdk
a quick search says it's a bug, but as it only occurs when I add the energy model I'm not sure!

Sencha CMD problem after macOS Monterrey update

Problem
After update my macOS to Monterrey (12.0.1), I'm with a big problem to start my local projects with ExtJS.
When I execute:
sencha app watch
Get the error:
Sencha Cmd v7.5.0.5
#
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0x00007ff813dcb6f2, pid=18621, tid=0x000000000000a707
#
# JRE version: OpenJDK Runtime Environment (8.0_242-b08) (build 1.8.0_242-b08)
# Java VM: OpenJDK 64-Bit Server VM (25.242-b08 mixed mode bsd-amd64 compressed oops)
# Problematic frame:
# C [libsystem_platform.dylib+0x16f2] _platform_strlen+0x12
#
# Failed to write core dump. Core dumps have been disabled. To enable core dumping, try "ulimit -c unlimited" before starting Java again
#
# An error report file with more information is saved as:
# [my app folder]/hs_err_pid18621.log
#
# If you would like to submit a bug report, please visit:
# http://bugreport.java.com/bugreport/crash.jsp
# The crash happened outside the Java Virtual Machine in native code.
# See problematic frame for where to report the bug.
#
/Users/kellerkichel/bin/Sencha/Cmd/sencha: line 167: 18621 Abort trap: 6 $BASEDIR/$VER/sencha "$#"
The funny thing is... if run again... the same command (sencha app watch), the error change:
2021-12-06 22:10:28.229 java[17909:173895] *** Terminating app due to uncaught exception 'NSInvalidArgumentException', reason: '*** -[NSPlaceholderString initWithFormat:locale:arguments:]: nil argument'
*** First throw call stack:
(
0 CoreFoundation 0x00007ff813efae5b __exceptionPreprocess + 242
1 libobjc.A.dylib 0x00007ff813c5bb9d objc_exception_throw + 48
2 Foundation 0x00007ff814c9126d -[NSPlaceholderString initWithFormat:locale:arguments:] + 295
3 Foundation 0x00007ff814c9ff2f +[NSString stringWithFormat:] + 153
4 Update1478821341979869630.dylib 0x00000001218897a9 wuusgJAD + 553
5 Update1478821341979869630.dylib 0x0000000121874319 pGgFelzv + 9
6 Update1478821341979869630.dylib 0x0000000121888ab2 MKNXgAzM + 562
7 Update1478821341979869630.dylib 0x000000012188795d tyRtaPXr + 61
8 Update1478821341979869630.dylib 0x00000001218877bb ZWwnJFGw + 283
9 Update1478821341979869630.dylib 0x0000000121880dc6 Phdl_SDOTFG + 246
10 Update1478821341979869630.dylib 0x0000000121880e49 Phdl_SDOTF + 25
11 Update1478821341979869630.dylib 0x000000012186e505 Java_phdl_Phdl_SDOTF + 21
12 ??? 0x000000010e0e3407 0x0 + 4530779143
)
libc++abi: terminating with uncaught exception of type NSException
/Users/kellerkichel/bin/Sencha/Cmd/sencha: line 167: 17909 Abort trap: 6 $BASEDIR/$VER/sencha "$#"
And again (sencha app watch)... another one:
java(18084,0x7000041c5000) malloc: Heap corruption detected, free list is damaged at 0x6000005f3330
*** Incorrect guard value: 105553126503408
java(18084,0x7000041c5000) malloc: *** set a breakpoint in malloc_error_break to debug
/Users/kellerkichel/bin/Sencha/Cmd/sencha: line 167: 18084 Abort trap: 6 $BASEDIR/$VER/sencha "$#"
And after each execution, the error keep alternating between those above...
Attempts
1 - JAVA
First, I thinked is something with JAVA version, so I removed all JAVA installed, including brew installed versions.
Also removed all references to JAVA_HOME, and a fresh install of JAVA 8 was maked. No sucess... did it again with JAVA 11, and JAVA 17, without sucess.
Obs. At JAVA 17 the problem changed, but this is because JAVA 17 dont have the javascript processor (javax) anymore.
2 - SENCHA CMD
After the JAVA, have checked Sencha cmd, if has any update or something... my Sencha cmd versio is 7.4.0.39, and for my surprise have a new version (7.5.0.5), but also after update still not working.
Any sugestions?

After talking with some sencha MVP at discord.... have received the following tip:
You must delete the following file:
/Users/user/Library/Application Support/Sencha/Cmd/Update/app.properties
After that workaround, the system works again.
I hope these answer can help someone !!
Update!!!
After some mac os updates deleting the app.properties stop working.
So sencha report to add bypass_lp:true to the app.json

Download JRE 8(support apple sillicon neccessary, ex:zulu/bellsoft), and unzip it.
Edit path in "{your_senchacmd_path}/.install4j/inst_jre.cfg" and "{your_senchacmd_path}/.install4j/pref_jre.cfg" to new JRE path.
Reason: Sencha CMD's included JRE is not compiled for the ARM architecture and even with Rosetta 2.

JavaFX in Raspberry Pi 4 (Unable to open DISPLAY)

I was having problems configuring my Raspberry Pi 4, as I explained in my previous question (JavaFX in RaspberryPi 4 with Liberica (Cannot open display ,Cannot create resource)), so I decided to start over.
I followed the steps on the Gluon tutorial (https://docs.gluonhq.com/#_javafx_on_embedded), (thanks to #José Pereda) but in the end, when I have to execute the line:
sudo -E java -Dglass.platform=gtk --module-path /opt/javafx-sdk-17/lib --add-modules javafx.controls -cp dist/. hellofx.HelloFX
It shows me this error:
Exception in thread "main" java.lang.reflect.InvocationTargetException
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.base/java.lang.reflect.Method.invoke(Method.java:566)
at java.base/sun.launcher.LauncherHelper$FXHelper.main(LauncherHelper.java:1051)
Caused by: java.lang.UnsupportedOperationException: Unable to open DISPLAY
at javafx.graphics/com.sun.glass.ui.gtk.GtkApplication.lambda$new$6(GtkApplication.java:173)
at java.base/java.security.AccessController.doPrivileged(Native Method)
at javafx.graphics/com.sun.glass.ui.gtk.GtkApplication.<init>(GtkApplication.java:171)
at javafx.graphics/com.sun.glass.ui.gtk.GtkPlatformFactory.createApplication(GtkPlatformFactory.java:41)
at javafx.graphics/com.sun.glass.ui.Application.run(Application.java:145)
at javafx.graphics/com.sun.javafx.tk.quantum.QuantumToolkit.startup(QuantumToolkit.java:281)
at javafx.graphics/com.sun.javafx.application.PlatformImpl.startup(PlatformImpl.java:288)
at javafx.graphics/com.sun.javafx.application.PlatformImpl.startup(PlatformImpl.java:160)
at javafx.graphics/com.sun.javafx.application.LauncherImpl.startToolkit(LauncherImpl.java:658)
at javafx.graphics/com.sun.javafx.application.LauncherImpl.launchApplicationWithArgs(LauncherImpl.java:409)
at javafx.graphics/com.sun.javafx.application.LauncherImpl.launchApplication(LauncherImpl.java:363)
... 5 more
I have activated X11Forwarding in /etc/ssh/sshd_config.
I remember this error from other Attempts to work with JavaFX, so I tried to change from -Dglass.platform=gtk to -Dglass.platform=Monocle, but then It shows this fail:
Exception in thread "Event Thread" java.lang.UnsatisfiedLinkError: 'void com.sun.glass.ui.monocle.DispmanScreen.wrapNativeSymbols()'
at javafx.graphics/com.sun.glass.ui.monocle.DispmanScreen.wrapNativeSymbols(Native Method)
at javafx.graphics/com.sun.glass.ui.monocle.DispmanScreen.<init>(DispmanScreen.java:34)
at javafx.graphics/com.sun.glass.ui.monocle.DispmanPlatform.createScreen(DispmanPlatform.java:38)
at javafx.graphics/com.sun.glass.ui.monocle.NativePlatform.getScreen(NativePlatform.java:129)
at javafx.graphics/com.sun.glass.ui.monocle.MonocleApplication.staticScreen_getScreens(MonocleApplication.java:222)
at javafx.graphics/com.sun.glass.ui.Screen.initScreens(Screen.java:412)
at javafx.graphics/com.sun.glass.ui.Application.lambda$run$1(Application.java:153)
at javafx.graphics/com.sun.glass.ui.monocle.RunnableProcessor.runLoop(RunnableProcessor.java:92)
at javafx.graphics/com.sun.glass.ui.monocle.RunnableProcessor.run(RunnableProcessor.java:51)
at java.base/java.lang.Thread.run(Thread.java:834)
I'm using a 5.0 inch screen (http://www.lcdwiki.com/5inch_HDMI_Display-B) with an adapter from hdmi to microhdmi.
After Comments things
Enabling X11 Forwarding,same errors trying with sudo -E java -Dglass.platform=gtk --module-path /opt/javafx-sdk-17/lib --add-modules javafx.controls export DISPLAY='IP:0.0' -cp dist/. hellofx.HelloFX
then trying with:
sudo -E java -Degl.displayid=/dev/dri/card1 -Dembedded=monocle -Dglass.platform=Monocle -Dmonocle.platform=EGL -Dmonocle.egl.lib=/opt/javafx-sdk-17/lib/libgluon_drm-1.1.0.so -Dprism.verbose=true --module-path /opt/javafx-sdk-17/lib --add-modules javafx.controls -cp dist/. hellofx.HelloFX
I get:
Prism pipeline init order: es2 sw
Using Double Precision Marlin Rasterizer
Using dirty region optimizations
Using system sized mask for primitives
Not forcing power of 2 sizes for textures
Using hardware CLAMP_TO_ZERO mode
Opting in for HiDPI pixel scaling
Prism pipeline name = com.sun.prism.es2.ES2Pipeline
Loading ES2 native library ... prism_es2_monocle
succeeded.
GLFactory using com.sun.prism.es2.MonocleGLFactory
[GluonDRM] use GPU at /dev/dri/card1 and display id -1
S0 NOT defined:
[GluonDRM] Device /dev/dri/card1 could be opened, but has no drm capabilities.eglinit failed
eglbind ok
eglCreateWindowSurface called
#
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0xb6dbd830, pid=904, tid=921
#
# JRE version: OpenJDK Runtime Environment (11.0.9.1+1) (build 11.0.9.1+1-post-Raspbian-1deb10u2)
# Java VM: OpenJDK Server VM (11.0.9.1+1-post-Raspbian-1deb10u2, mixed mode, g1 gc, linux-)
# Problematic frame:
# C [libc.so.6+0x77830] strlen+0x0
#
# No core dump will be written. Core dumps have been disabled. To enable core dumping, try "ulimit -c unlimited" before starting Java again
#
# An error report file with more information is saved as:
# /home/pi/Downloads/samples/CommandLine/Modular/CLI/hellofx/hs_err_pid904.log
#
# If you would like to submit a bug report, please visit:
# Unknown
# The crash happened outside the Java Virtual Machine in native code.
# See problematic frame for where to report the bug.
#
Abortado
I used ulimit -c unlimited, then used same command, getting:
Prism pipeline init order: es2 sw
Using Double Precision Marlin Rasterizer
Using dirty region optimizations
Using system sized mask for primitives
Not forcing power of 2 sizes for textures
Using hardware CLAMP_TO_ZERO mode
Opting in for HiDPI pixel scaling
Prism pipeline name = com.sun.prism.es2.ES2Pipeline
Loading ES2 native library ... prism_es2_monocle
succeeded.
GLFactory using com.sun.prism.es2.MonocleGLFactory
[GluonDRM] use GPU at /dev/dri/card1 and display id -1
S0 NOT defined:
[GluonDRM] Device /dev/dri/card1 could be opened, but has no drm capabilities.eglinit failed
eglbind ok
eglCreateWindowSurface called
#
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0xb6dcc830, pid=923, tid=940
#
# JRE version: OpenJDK Runtime Environment (11.0.9.1+1) (build 11.0.9.1+1-post-Raspbian-1deb10u2)
# Java VM: OpenJDK Server VM (11.0.9.1+1-post-Raspbian-1deb10u2, mixed mode, g1 gc, linux-)
# Problematic frame:
# C [libc.so.6+0x77830] strlen+0x0
#
# Core dump will be written. Default location: /home/pi/Downloads/samples/CommandLine/Modular/CLI/hellofx/core
#
# An error report file with more information is saved as:
# /home/pi/Downloads/samples/CommandLine/Modular/CLI/hellofx/hs_err_pid923.log
#
# If you would like to submit a bug report, please visit:
# Unknown
# The crash happened outside the Java Virtual Machine in native code.
# See problematic frame for where to report the bug.
#
Abortado

Elasticsearch 5.x Fails to Start

I have been trying to install Elasticsearch, which, for version 7.x seemed easy, whereas for version 5.x is a pain in the neck. The whole ordeal exists because there is a slew of compatibility requirements between the Elasticseach, Django Haystack, Django CMS and other things. If someone has a nice table or a way to wrap their head around that, I'd be happy to hear it.
As to the actual question, after installing ES 5.x, I cannot seem to get it working.
user#user-desktop:~/sites/project-web/project$ sudo systemctl restart elasticsearch
user#user-desktop:~/sites/project-web/project$ curl -X GET localhost:9200
curl: (7) Failed to connect to localhost port 9200: Connection refused
user#user-desktop:~/sites/project-web/project$
Entities that are uncommented in /etc/elasticsearch/elasticsearch.yml
# ======================== Elasticsearch Configuration =========================
#
# NOTE: Elasticsearch comes with reasonable defaults for most settings.
# Before you set out to tweak and tune the configuration, make sure you
# understand what are you trying to accomplish and the consequences.
#
# The primary way of configuring a node is via this file. This template lists
# the most important settings you may want to configure for a production cluster.
#
# Please consult the documentation for further information on configuration options:
# https://www.elastic.co/guide/en/elasticsearch/reference/index.html
#
# ---------------------------------- Cluster -----------------------------------
#
# Use a descriptive name for your cluster:
#
cluster.name: project-search
#
# ------------------------------------ Node ------------------------------------
#
# Use a descriptive name for the node:
#
node.name: node-1
#
# Add custom attributes to the node:
#
#node.attr.rack: r1
#
# ----------------------------------- Paths ------------------------------------
#
# Path to directory where to store the data (separate multiple locations by comma):
#
#path.data: /path/to/data
#
# Path to log files:
#
#path.logs: /path/to/logs
# ----------------------------------- Memory -----------------------------------
#
# Lock the memory on startup:
#
#bootstrap.memory_lock: true
#
# Make sure that the heap size is set to about half the memory available
# on the system and that the owner of the process is allowed to use this
# limit.
#
# Elasticsearch performs poorly when the system is swapping the memory.
#
# ---------------------------------- Network -----------------------------------
#
# Set the bind address to a specific IP (IPv4 or IPv6):
#
network.host: 0.0.0.0
#
# Set a custom port for HTTP:
#
http.port: 9200
transport.host: localhost
transport.tcp.port: 9300
#
# For more information, consult the network module documentation.
# --------------------------------- Discovery ----------------------------------
#
# Pass an initial list of hosts to perform discovery when new node is started:
# The default list of hosts is ["127.0.0.1", "[::1]"]
#
#discovery.zen.ping.unicast.hosts: ["host1", "host2"]
discovery.zen.ping.unicast.hosts: ["0.0.0.0"]
#discovery.seed_hosts:["0.0.0.0"]
#
# Prevent the "split brain" by configuring the majority of nodes (total number of master-eligible nodes / 2 + 1):
#
discovery.zen.minimum_master_nodes: 1
#
# For more information, consult the zen discovery module documentation.
#
# ---------------------------------- Gateway -----------------------------------
#
# Block initial recovery after a full cluster restart until N nodes are started:
#
#gateway.recover_after_nodes: 3
#
# For more information, consult the gateway module documentation.
#
# ---------------------------------- Various -----------------------------------
#
# Require explicit names when deleting indices:
#
#action.destructive_requires_name: true
This is the status with which it fails:
user#user-desktop:~/sites/project-web/project$ systemctl status elasticsearch.service
● elasticsearch.service - Elasticsearch
Loaded: loaded (/usr/lib/systemd/system/elasticsearch.service; enabled; vendor preset: enabled)
Active: failed (Result: exit-code) since Sun 2019-11-24 15:39:25 CST; 3min 54s ago
Docs: http://www.elastic.co
Process: 19098 ExecStart=/usr/share/elasticsearch/bin/elasticsearch -p ${PID_DIR}/elasticsearch.pid --quiet -Edefault.path.logs=${LOG_DIR} -Edefault.path.data=${DATA_DIR} -Edefault.path.conf=${CONF_DI
Process: 19097 ExecStartPre=/usr/share/elasticsearch/bin/elasticsearch-systemd-pre-exec (code=exited, status=0/SUCCESS)
Main PID: 19098 (code=exited, status=1/FAILURE)
Nov 24 15:39:24 user-desktop systemd[1]: Starting Elasticsearch...
Nov 24 15:39:24 user-desktop systemd[1]: Started Elasticsearch.
Nov 24 15:39:24 user-desktop elasticsearch[19098]: OpenJDK 64-Bit Server VM warning: Option UseConcMarkSweepGC was deprecated in version 9.0 and will likely be removed in a future release.
Nov 24 15:39:25 user-desktop systemd[1]: elasticsearch.service: Main process exited, code=exited, status=1/FAILURE
Nov 24 15:39:25 user-desktop systemd[1]: elasticsearch.service: Failed with result 'exit-code'.
In /var/log/elasticsearch/project-search.log I find the following error:
[2019-11-24T15:46:44,319][INFO ][o.e.n.Node ] [node-1] initializing ...
[2019-11-24T15:46:44,410][ERROR][o.e.b.Bootstrap ] Exception
org.elasticsearch.ElasticsearchException: java.io.IOException: failed to read [id:0, legacy:false, file:/var/lib/elasticsearch/nodes/0/_state/node-0.st]
at org.elasticsearch.ExceptionsHelper.maybeThrowRuntimeAndSuppress(ExceptionsHelper.java:196) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.gateway.MetaDataStateFormat.loadLatestState(MetaDataStateFormat.java:335) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.env.NodeEnvironment.loadOrCreateNodeMetaData(NodeEnvironment.java:418) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.env.NodeEnvironment.<init>(NodeEnvironment.java:267) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.node.Node.<init>(Node.java:265) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.node.Node.<init>(Node.java:245) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.bootstrap.Bootstrap$5.<init>(Bootstrap.java:233) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.bootstrap.Bootstrap.setup(Bootstrap.java:233) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.bootstrap.Bootstrap.init(Bootstrap.java:342) [elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.bootstrap.Elasticsearch.init(Elasticsearch.java:132) [elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.bootstrap.Elasticsearch.execute(Elasticsearch.java:123) [elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.cli.EnvironmentAwareCommand.execute(EnvironmentAwareCommand.java:70) [elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.cli.Command.mainWithoutErrorHandling(Command.java:134) [elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.cli.Command.main(Command.java:90) [elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.bootstrap.Elasticsearch.main(Elasticsearch.java:91) [elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.bootstrap.Elasticsearch.main(Elasticsearch.java:84) [elasticsearch-5.6.16.jar:5.6.16]
Caused by: java.io.IOException: failed to read [id:0, legacy:false, file:/var/lib/elasticsearch/nodes/0/_state/node-0.st]
at org.elasticsearch.gateway.MetaDataStateFormat.loadLatestState(MetaDataStateFormat.java:328) ~[elasticsearch-5.6.16.jar:5.6.16]
... 14 more
Caused by: java.lang.IllegalArgumentException: [node_meta_data] unknown field [node_version], parser not found
at org.elasticsearch.common.xcontent.ObjectParser.getParser(ObjectParser.java:399) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.common.xcontent.ObjectParser.parse(ObjectParser.java:159) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.common.xcontent.ObjectParser.apply(ObjectParser.java:183) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.env.NodeMetaData$1.fromXContent(NodeMetaData.java:110) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.env.NodeMetaData$1.fromXContent(NodeMetaData.java:94) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.gateway.MetaDataStateFormat.read(MetaDataStateFormat.java:203) ~[elasticsearch-5.6.16.jar:5.6.16]
at org.elasticsearch.gateway.MetaDataStateFormat.loadLatestState(MetaDataStateFormat.java:323) ~[elasticsearch-5.6.16.jar:5.6.16]
... 14 more
Could someone tell me what it going on? Any help on resolving this and getting ES to work would be appreciated.

Looks like an inconsistency issue between elasticSearch versions. If you had data indexed previously with ES version 7.0, now that data in that instance in the disk is incompatible with ES version 5.0.

Remove elasticsearch directory:
sudo rm -rf /var/lib/elasticsearch
And reinstall elasticsearch
Work for me.

For mac users using brew first clean all brew files with
brew uninstall elasticsearch
rm -rf /usr/local/etc/elasticsearch
rm -rf /usr/local/var/lib/elasticsearch
Then reinstall your elasticsearch version for example
brew install elasticsearch#6
Make sure elasticsearch is pointing to a compatible java version
nano /usr/local/opt/elasticsearch#6/bin
Then you change this line to your compatible version
JAVA_HOME="${JAVA_HOME:-/usr/local/opt/openjdk#17YOUR_COMPATIBLE_VERSION/libexec/openjdk.jdk/Contents/Home}" exec "/usr/local/Cellar/elasticsearch#6/6.8.23/libexec/bin/elasticsearch" "$#"
run elasticsearch in your terminal
elasticsearch

Intellij IDEA not starting up

I've looked at the following, nothing helps: How to deal with "java.lang.OutOfMemoryError: Java heap space" error (64MB heap size)
Yesterday Intellij IDEA was working ok. Today when I start the program the following happens:
karl#karl-Dell-Precision-M3800:~/dev/java$ /opt/idea-IC-162.2032.8/bin/idea.sh
(java:7471): Gtk-WARNING **: Unable to locate theme engine in module_path: "pixmap",
(java:7471): Gtk-WARNING **: Unable to locate theme engine in module_path: "pixmap",
(java:7471): Gtk-WARNING **: Unable to locate theme engine in module_path: "pixmap",
(java:7471): Gtk-WARNING **: Unable to locate theme engine in module_path: "pixmap",
java.lang.OutOfMemoryError: Java heap space
Dumping heap to /home/karl/java_error_in_IDEA.hprof ...
Unable to create /home/karl/java_error_in_IDEA.hprof: File exists
[ 5467] ERROR - llij.ide.plugins.PluginManager - Java heap space
java.lang.OutOfMemoryError: Java heap space
at java.util.Arrays.copyOf(Arrays.java:3236)
at java.io.ByteArrayOutputStream.grow(ByteArrayOutputStream.java:118)
at java.io.ByteArrayOutputStream.ensureCapacity(ByteArrayOutputStream.java:93)
at java.io.ByteArrayOutputStream.write(ByteArrayOutputStream.java:135)
at sun.font.XRGlyphCacheEntry.writePixelData(XRGlyphCacheEntry.java:154)
at sun.font.XRGlyphCache.generateGlyphImageStream(XRGlyphCache.java:217)
at sun.font.XRGlyphCache.uploadGlyphs(XRGlyphCache.java:164)
at sun.font.XRGlyphCache.cacheGlyphs(XRGlyphCache.java:134)
at sun.font.XRTextRenderer.drawGlyphList(XRTextRenderer.java:81)
at sun.java2d.pipe.GlyphListPipe.drawString(GlyphListPipe.java:72)
at sun.java2d.SunGraphics2D.drawString(SunGraphics2D.java:2928)
at sun.swing.SwingUtilities2.drawString(SwingUtilities2.java:593)
at sun.swing.SwingUtilities2.drawStringUnderlineCharAt(SwingUtilities2.java:612)
at javax.swing.plaf.basic.BasicGraphicsUtils.drawStringUnderlineCharAt(BasicGraphicsUtils.java:246)
at com.intellij.ui.plaf.beg.IdeaMenuUI.paint(IdeaMenuUI.java:169)
at com.intellij.ui.plaf.beg.IdeaMenuUI.update(IdeaMenuUI.java:405)
at javax.swing.JComponent.paintComponent(JComponent.java:780)
at javax.swing.JComponent.paint(JComponent.java:1056)
at javax.swing.JComponent.paintChildren(JComponent.java:889)
at com.intellij.openapi.wm.impl.IdeMenuBar.paintChildren(IdeMenuBar.java:400)
at javax.swing.JComponent.paint(JComponent.java:1065)
at com.intellij.openapi.wm.impl.IdeMenuBar.paint(IdeMenuBar.java:160)
at javax.swing.JComponent.paintChildren(JComponent.java:889)
at javax.swing.JComponent.paint(JComponent.java:1065)
at javax.swing.JLayeredPane.paint(JLayeredPane.java:586)
at javax.swing.JComponent.paintChildren(JComponent.java:889)
at javax.swing.JComponent.paintToOffscreen(JComponent.java:5217)
at javax.swing.RepaintManager$PaintManager.paintDoubleBuffered(RepaintManager.java:1579)
at javax.swing.RepaintManager$PaintManager.paint(RepaintManager.java:1502)
at javax.swing.RepaintManager.paint(RepaintManager.java:1272)
at javax.swing.JComponent.paint(JComponent.java:1042)
at java.awt.GraphicsCallback$PaintCallback.run(GraphicsCallback.java:39)
[ 5470] ERROR - llij.ide.plugins.PluginManager - IntelliJ IDEA 2016.2.4 Build #IC-162.2032.8
[ 5471] ERROR - llij.ide.plugins.PluginManager - JDK: 1.8.0_112-release
[ 5471] ERROR - llij.ide.plugins.PluginManager - VM: OpenJDK 64-Bit Server VM
[ 5471] ERROR - llij.ide.plugins.PluginManager - Vendor: JetBrains s.r.o
[ 5471] ERROR - llij.ide.plugins.PluginManager - OS: Linux
[ 5471] ERROR - llij.ide.plugins.PluginManager - Last Action:
[ 7947] ERROR - llij.ide.plugins.PluginManager - Java heap space
java.lang.OutOfMemoryError: Java heap space
at java.util.Arrays.copyOf(Arrays.java:3236)
at java.io.ByteArrayOutputStream.grow(ByteArrayOutputStream.java:118)
at java.io.ByteArrayOutputStream.ensureCapacity(ByteArrayOutputStream.java:93)
at java.io.ByteArrayOutputStream.write(ByteArrayOutputStream.java:135)
at sun.font.XRGlyphCacheEntry.writePixelData(XRGlyphCacheEntry.java:154)
at sun.font.XRGlyphCache.generateGlyphImageStream(XRGlyphCache.java:217)
at sun.font.XRGlyphCache.uploadGlyphs(XRGlyphCache.java:164)
at sun.font.XRGlyphCache.cacheGlyphs(XRGlyphCache.java:134)
at sun.font.XRTextRenderer.drawGlyphList(XRTextRenderer.java:81)
at sun.java2d.pipe.GlyphListPipe.drawString(GlyphListPipe.java:72)
at sun.java2d.SunGraphics2D.drawString(SunGraphics2D.java:2928)
at sun.swing.SwingUtilities2.drawString(SwingUtilities2.java:593)
at sun.swing.SwingUtilities2.drawStringUnderlineCharAt(SwingUtilities2.java:612)
at javax.swing.plaf.basic.BasicGraphicsUtils.drawStringUnderlineCharAt(BasicGraphicsUtils.java:246)
at com.intellij.ui.plaf.beg.IdeaMenuUI.paint(IdeaMenuUI.java:169)
at com.intellij.ui.plaf.beg.IdeaMenuUI.update(IdeaMenuUI.java:405)
at javax.swing.JComponent.paintComponent(JComponent.java:780)
at javax.swing.JComponent.paint(JComponent.java:1056)
at javax.swing.JComponent.paintChildren(JComponent.java:889)
at com.intellij.openapi.wm.impl.IdeMenuBar.paintChildren(IdeMenuBar.java:400)
at javax.swing.JComponent.paint(JComponent.java:1065)
at com.intellij.openapi.wm.impl.IdeMenuBar.paint(IdeMenuBar.java:160)
at javax.swing.JComponent.paintChildren(JComponent.java:889)
at javax.swing.JComponent.paint(JComponent.java:1065)
at javax.swing.JLayeredPane.paint(JLayeredPane.java:586)
at javax.swing.JComponent.paintChildren(JComponent.java:889)
at javax.swing.JComponent.paintToOffscreen(JComponent.java:5217)
at javax.swing.RepaintManager$PaintManager.paintDoubleBuffered(RepaintManager.java:1579)
at javax.swing.RepaintManager$PaintManager.paint(RepaintManager.java:1502)
at javax.swing.RepaintManager.paint(RepaintManager.java:1272)
at javax.swing.JComponent.paint(JComponent.java:1042)
at java.awt.GraphicsCallback$PaintCallback.run(GraphicsCallback.java:39)
[ 7948] ERROR - llij.ide.plugins.PluginManager - IntelliJ IDEA 2016.2.4 Build #IC-162.2032.8
[ 7948] ERROR - llij.ide.plugins.PluginManager - JDK: 1.8.0_112-release
[ 7948] ERROR - llij.ide.plugins.PluginManager - VM: OpenJDK 64-Bit Server VM
[ 7948] ERROR - llij.ide.plugins.PluginManager - Vendor: JetBrains s.r.o
[ 7948] ERROR - llij.ide.plugins.PluginManager - OS: Linux
[ 7948] ERROR - llij.ide.plugins.PluginManager - Last Action:
#
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0x00007f966c3184b4, pid=7471, tid=0x00007f95e895c700
#
# JRE version: OpenJDK Runtime Environment (8.0_112-b87) (build 1.8.0_112-release-b343)
# Java VM: OpenJDK 64-Bit Server VM (25.112-b343 mixed mode linux-amd64 compressed oops)
# Problematic frame:
# C [libc.so.6+0x14d4b4]
#
# Failed to write core dump. Core dumps have been disabled. To enable core dumping, try "ulimit -c unlimited" before starting Java again
#
# An error report file with more information is saved as:
# /home/karl/java_error_in_IDEA_7471.log
#
# If you would like to submit a bug report, please visit:
# http://bugreport.java.com/bugreport/crash.jsp
# The crash happened outside the Java Virtual Machine in native code.
# See problematic frame for where to report the bug.
#
Aborted (core dumped)
Apparently I'm out of memory. I know I'm not:
Every 5,0s: free -m Thu Sep 22 09:22:56 2016
total used free shared buff/cache available
Mem: 15950 2047 11913 537 1989 12999
Swap: 3813 0 3813
I also tried the following /opt/idea-IC-162.2032.8/bin/idea.sh -Xms512m, got the error:
karl#karl-Dell-Precision-M3800:~$ /opt/idea-IC-162.2032.8/bin/idea.sh -Xms512m
(java:10414): Gtk-WARNING **: Unable to locate theme engine in module_path: "pixmap",
(java:10414): Gtk-WARNING **: Unable to locate theme engine in module_path: "pixmap",
(java:10414): Gtk-WARNING **: Unable to locate theme engine in module_path: "pixmap",
(java:10414): Gtk-WARNING **: Unable to locate theme engine in module_path: "pixmap",
#
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0x00007f1a501644b4, pid=10414, tid=0x00007f19c87a4700
#
# JRE version: OpenJDK Runtime Environment (8.0_112-b87) (build 1.8.0_112-release-b343)
# Java VM: OpenJDK 64-Bit Server VM (25.112-b343 mixed mode linux-amd64 compressed oops)
# Problematic frame:
# C [libc.so.6+0x14d4b4]
#
# Failed to write core dump. Core dumps have been disabled. To enable core dumping, try "ulimit -c unlimited" before starting Java again
#
# An error report file with more information is saved as:
# /home/karl/java_error_in_IDEA_10414.log
#
# If you would like to submit a bug report, please visit:
# http://bugreport.java.com/bugreport/crash.jsp
# The crash happened outside the Java Virtual Machine in native code.
# See problematic frame for where to report the bug.
#
Aborted (core dumped)
I run 64-bit so I created the file ~/.IdeaIC2016.2/idea64.vmoptions with the contents:
-Xms1024m
-Xmx1024m
Still doesn't work.

Wow, surprised that noone knows anything about this, isn't Java supposed to be huge? Oh well, hers the answer, pretty simple once you know that the IDE runs it's JDK off of an env variable. I just had to set it to a JDK that works instead of it's own inbuilt one.
export IDEA_JDK=/usr/lib/jvm/jdk1.8.0_101/