OpenRefine 3.2 install fails on Mac

[Peter Nõu]

Hi,

I cannot get OpenRefine 3.2 to start on a MacMini 2012 i7 32GBon latest OS (Mojave 10.14.6).  version 3.1 runs just fine, but 3.2 hangs, never kicks up the local web-UI.  

I have installed, wiped, reverted, reinstalled, to no avail. Anyone else seeing this? Or, if my system is an outlier, are there proposals for how I should narrow down what's wrong? 

thanks,

Peter

[Owen Stephens]

I'm running on 10.14.5 OK but not tried 10.14.6 yet

Someone has submitted a github issue https://github.com/OpenRefine/OpenRefine/issues/2105 but I've been waiting for them to clarify the OS question - and this sounds slightly different to your problem

Can you try:

Find the OpenRefine app/icon in Finder

Ctrl+Click on the icon and select "Show Package Contents" from the context menu that displays

This should open a new Finder menu showing a folder called "Contents" - navigate into this folder then into the "MacOS" folder

Ctrl+Click on "JavaAppLauncher"

Choose 'Open With' from menu, and select "Terminal"

This should run OpenRefine with a terminal window showing text (similar to how OpenRefine runs on Windows). This terminal window will show information that may help work out what the problem is. If you try opening a project, making a change, then see if there is any information in the terminal window about errors etc. If you paste any information from the terminal window here it may help us work out what is going wrong.

[Owen Stephens]

I'm going to bite the bullet and update to 10.14.6 and see what happens :)

[Owen Stephens]

OK - I've updated to macOS Mojave 10.14.6 and then trashed and re-installed OpenRefine 3.2 for Mac

It runs OK for me

So I think we are back to asking you to do the troubleshooting steps I asked you to do above 

Can you try:

Find the OpenRefine app/icon in Finder

Ctrl+Click on the icon and select "Show Package Contents" from the context menu that displays

This should open a new Finder menu showing a folder called "Contents" - navigate into this folder then into the "MacOS" folder

Ctrl+Click on "JavaAppLauncher"

Choose 'Open With' from menu, and select "Terminal"

This should run OpenRefine with a terminal window showing text (similar to how OpenRefine runs on Windows). This terminal window will show information that may help work out what the problem is. If you try opening a project, making a change, then see if there is any information in the terminal window about errors etc. If you paste any information from the terminal window here it may help us work out what is going wrong.

Owen

[Peter Nõu]

thanks for helping out!

On Fri, Aug 2, 2019 at 3:26 PM Owen Stephens <ow...@ostephens.com> wrote:
>
> OK - I've updated to macOS Mojave 10.14.6 and then trashed and re-installed OpenRefine 3.2 for Mac
>
> It runs OK for me
>

3.1 runs fine, but 3.2 does not, same behaviour under 10.14.5 and 10.14.6

> So I think we are back to asking you to do the troubleshooting steps I asked you to do above
>
> Can you try:
> Find the OpenRefine app/icon in Finder
> Ctrl+Click on the icon and select "Show Package Contents" from the context menu that displays
> This should open a new Finder menu showing a folder called "Contents" - navigate into this folder then into the "MacOS" folder
> Ctrl+Click on "JavaAppLauncher"
> Choose 'Open With' from menu, and select "Terminal"
>
> This should run OpenRefine with a terminal window showing text (similar to how OpenRefine runs on Windows). This terminal window will show information that may help work out what the problem is. If you try opening a project, making a change, then see if there is any information in the terminal window about errors etc. If you paste any information from the terminal window here it may help us work out what is going wrong.
>
> Owen
>

There are a million and ten java exceptions. list ending with ... and
35 more. (pasted below)

My Java install is updated with all settings at default. (java 8 update 22)

-----
(base) <>>/Applications/OpenRefine.app/Contents/MacOS/JavaAppLauncher; exit
16:24:45.158 [ refine_server] Starting Server bound to
'127.0.0.1:3333' (0ms)
16:24:45.216 [ refine_server] Initializing context: '/'
from '/Applications/OpenRefine.app/Contents/Resources/webapp' (58ms)
SLF4J: Class path contains multiple SLF4J bindings.
SLF4J: Found binding in
[jar:file:/Applications/OpenRefine.app/Contents/Java/lib/slf4j-log4j12-1.7.18.jar!/org/slf4j/impl/StaticLoggerBinder.class]
SLF4J: Found binding in
[jar:file:/Applications/OpenRefine.app/Contents/Resources/webapp/WEB-INF/lib/slf4j-log4j12-1.7.18.jar!/org/slf4j/impl/StaticLoggerBinder.class]
SLF4J: See http://www.slf4j.org/codes.html#multiple_bindings for an explanation.
SLF4J: Actual binding is of type [org.slf4j.impl.Log4jLoggerFactory]
16:24:49.419 [ refine] Starting OpenRefine 3.2
[55c921b]... (4203ms)
16:24:49.419 [ refine] initializing
FileProjectManager with dir (0ms)
16:24:49.419 [ refine]
/Users/peternou/Library/Application Support/OpenRefine (0ms)
Exception in thread "main" java.lang.NoClassDefFoundError:
org/json/JSONException
at java.lang.Class.getDeclaredMethods0(Native Method)
at java.lang.Class.privateGetDeclaredMethods(Class.java:2701)
at java.lang.Class.privateGetPublicMethods(Class.java:2902)
at java.lang.Class.getMethods(Class.java:1615)
at org.mozilla.javascript.JavaMembers.discoverAccessibleMethods(JavaMembers.java:351)
at org.mozilla.javascript.JavaMembers.discoverAccessibleMethods(JavaMembers.java:302)
at org.mozilla.javascript.JavaMembers.reflect(JavaMembers.java:424)
at org.mozilla.javascript.JavaMembers.<init>(JavaMembers.java:43)
at org.mozilla.javascript.JavaMembers.lookupClass(JavaMembers.java:812)
at org.mozilla.javascript.NativeJavaClass.initMembers(NativeJavaClass.java:49)
at org.mozilla.javascript.NativeJavaObject.<init>(NativeJavaObject.java:44)
at org.mozilla.javascript.NativeJavaClass.<init>(NativeJavaClass.java:43)
at org.mozilla.javascript.NativeJavaClass.<init>(NativeJavaClass.java:39)
at org.mozilla.javascript.WrapFactory.wrapJavaClass(WrapFactory.java:139)
at org.mozilla.javascript.NativeJavaPackage.getPkgProperty(NativeJavaPackage.java:135)
at org.mozilla.javascript.NativeJavaPackage.get(NativeJavaPackage.java:84)
at org.mozilla.javascript.ScriptableObject.getProperty(ScriptableObject.java:2313)
at org.mozilla.javascript.ScriptRuntime.getObjectProp(ScriptRuntime.java:1579)
at org.mozilla.javascript.ScriptRuntime.getObjectProp(ScriptRuntime.java:1572)
at org.mozilla.javascript.gen.file__Users_peternou_Library_Application_20Support_OpenRefine_extensions_refine_stats_master_module_MOD_INF_controller_js_4._c_init_1(file:/Users/peternou/Library/Application%20Support/OpenRefine/extensions/refine-stats-master/module/MOD-INF/controller.js:10)
at org.mozilla.javascript.gen.file__Users_peternou_Library_Application_20Support_OpenRefine_extensions_refine_stats_master_module_MOD_INF_controller_js_4.call(file:/Users/peternou/Library/Application%20Support/OpenRefine/extensions/refine-stats-master/module/MOD-INF/controller.js)
at org.mozilla.javascript.ContextFactory.doTopCall(ContextFactory.java:405)
at org.mozilla.javascript.ScriptRuntime.doTopCall(ScriptRuntime.java:3508)
at org.mozilla.javascript.gen.file__Users_peternou_Library_Application_20Support_OpenRefine_extensions_refine_stats_master_module_MOD_INF_controller_js_4.call(file:/Users/peternou/Library/Application%20Support/OpenRefine/extensions/refine-stats-master/module/MOD-INF/controller.js)
at edu.mit.simile.butterfly.ButterflyModuleImpl.scriptInit(ButterflyModuleImpl.java:636)
at edu.mit.simile.butterfly.ButterflyModuleImpl.init(ButterflyModuleImpl.java:94)
at edu.mit.simile.butterfly.Butterfly.initializeModule(Butterfly.java:476)
at edu.mit.simile.butterfly.Butterfly.configure(Butterfly.java:451)
at edu.mit.simile.butterfly.Butterfly.init(Butterfly.java:308)
at org.mortbay.jetty.servlet.ServletHolder.initServlet(ServletHolder.java:440)
at org.mortbay.jetty.servlet.ServletHolder.doStart(ServletHolder.java:263)
at com.google.refine.RefineServer.configure(Refine.java:291)
at com.google.refine.RefineServer.init(Refine.java:203)
at com.google.refine.Refine.init(Refine.java:109)
at com.google.refine.Refine.main(Refine.java:103)
Caused by: java.lang.ClassNotFoundException: org.json.JSONException
at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
... 35 more

[Antonin Delpeuch (lists)]

Ah, that is because you are using extensions that have not been updated
to work with 3.2. You need to remove these (in this case at least the
stats extension) and then you should be able to run OpenRefine.

Antonin

[Peter Nõu]

To do this, I reinstalled version 3.1 and removed all extensions, then
upgraded to 3.2! Bingo. Up and running.

I've also uninstalled 'oracle java' and installed java using brew, now
at 12.0.2 level. I thought that might have been my problem, but
apparently not. Anyways, cleaned up now. thanks!

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[Claudia Gonzalez]

Hi,

I can't make OpenRefine 3.2 start. If I put http://127.0.0.1:3333/ in the browser, "Butterfly is still initializing ..." replies. When I run the JavaAppLauncher, I get the following. Looking at the extensions mentioned (rdf-extension), I can't find the directories on my disk.
I had the Open Refine 2.6 installed in Mac OS High Sierra 10.13.6, Java 8 Update 221.

Any suggestions on what is happening?

Thanks

*******************************************

Last login: Sat Aug  3 20:25:30 on ttys000
/Applications/OpenRefine.app/Contents/MacOS/JavaAppLauncher ; exit;
MacBook-Pro-de-Claudia:~ claudiamgonzalez$ /Applications/OpenRefine.app/Contents/MacOS/JavaAppLauncher ; exit;
20:28:39.298 [            refine_server] Starting Server bound to '127.0.0.1:3333' (0ms)
20:28:39.307 [            refine_server] Initializing context: '/' from '/Applications/OpenRefine.app/Contents/Resources/webapp' (9ms)

SLF4J: Class path contains multiple SLF4J bindings.
SLF4J: Found binding in [jar:file:/Applications/OpenRefine.app/Contents/Java/lib/slf4j-log4j12-1.7.18.jar!/org/slf4j/impl/StaticLoggerBinder.class]
SLF4J: Found binding in [jar:file:/Applications/OpenRefine.app/Contents/Resources/webapp/WEB-INF/lib/slf4j-log4j12-1.7.18.jar!/org/slf4j/impl/StaticLoggerBinder.class]
SLF4J: See http://www.slf4j.org/codes.html#multiple_bindings for an explanation.
SLF4J: Actual binding is of type [org.slf4j.impl.Log4jLoggerFactory]

20:28:39.778 [                   refine] Starting OpenRefine 3.2 [55c921b]... (471ms)
20:28:39.778 [                   refine] initializing FileProjectManager with dir (0ms)
20:28:39.778 [                   refine] /Users/claudiamgonzalez/Library/Application Support/OpenRefine (0ms)

Exception in thread "main" java.lang.NoClassDefFoundError: org/json/JSONException
    at java.lang.Class.getDeclaredMethods0(Native Method)
    at java.lang.Class.privateGetDeclaredMethods(Class.java:2701)
    at java.lang.Class.privateGetPublicMethods(Class.java:2902)
    at java.lang.Class.getMethods(Class.java:1615)
    at org.mozilla.javascript.JavaMembers.discoverAccessibleMethods(JavaMembers.java:351)
    at org.mozilla.javascript.JavaMembers.discoverAccessibleMethods(JavaMembers.java:302)
    at org.mozilla.javascript.JavaMembers.reflect(JavaMembers.java:424)
    at org.mozilla.javascript.JavaMembers.<init>(JavaMembers.java:43)
    at org.mozilla.javascript.JavaMembers.lookupClass(JavaMembers.java:812)
    at org.mozilla.javascript.NativeJavaClass.initMembers(NativeJavaClass.java:49)
    at org.mozilla.javascript.NativeJavaObject.<init>(NativeJavaObject.java:44)
    at org.mozilla.javascript.NativeJavaClass.<init>(NativeJavaClass.java:43)
    at org.mozilla.javascript.NativeJavaClass.<init>(NativeJavaClass.java:39)
    at org.mozilla.javascript.WrapFactory.wrapJavaClass(WrapFactory.java:139)
    at org.mozilla.javascript.NativeJavaPackage.getPkgProperty(NativeJavaPackage.java:135)
    at org.mozilla.javascript.NativeJavaPackage.get(NativeJavaPackage.java:84)
    at org.mozilla.javascript.ScriptableObject.getProperty(ScriptableObject.java:2313)
    at org.mozilla.javascript.ScriptRuntime.getObjectProp(ScriptRuntime.java:1579)
    at org.mozilla.javascript.ScriptRuntime.getObjectProp(ScriptRuntime.java:1572)

    at org.mozilla.javascript.gen.file__Users_claudiamgonzalez_Library_Application_20Support_OpenRefine_extensions_rdf_extension_MOD_INF_controller_js_10._c_script_0(file:/Users/claudiamgonzalez/Library/Application%20Support/OpenRefine/extensions/rdf-extension/MOD-INF/controller.js:4)
    at org.mozilla.javascript.gen.file__Users_claudiamgonzalez_Library_Application_20Support_OpenRefine_extensions_rdf_extension_MOD_INF_controller_js_10.call(file:/Users/claudiamgonzalez/Library/Application%20Support/OpenRefine/extensions/rdf-extension/MOD-INF/controller.js)

    at org.mozilla.javascript.ContextFactory.doTopCall(ContextFactory.java:405)
    at org.mozilla.javascript.ScriptRuntime.doTopCall(ScriptRuntime.java:3508)

    at org.mozilla.javascript.gen.file__Users_claudiamgonzalez_Library_Application_20Support_OpenRefine_extensions_rdf_extension_MOD_INF_controller_js_10.call(file:/Users/claudiamgonzalez/Library/Application%20Support/OpenRefine/extensions/rdf-extension/MOD-INF/controller.js)
    at org.mozilla.javascript.gen.file__Users_claudiamgonzalez_Library_Application_20Support_OpenRefine_extensions_rdf_extension_MOD_INF_controller_js_10.exec(file:/Users/claudiamgonzalez/Library/Application%20Support/OpenRefine/extensions/rdf-extension/MOD-INF/controller.js)
    at edu.mit.simile.butterfly.ButterflyModuleImpl.initScope(ButterflyModuleImpl.java:619)
    at edu.mit.simile.butterfly.ButterflyModuleImpl.scriptInit(ButterflyModuleImpl.java:629)

    at edu.mit.simile.butterfly.ButterflyModuleImpl.init(ButterflyModuleImpl.java:94)
    at edu.mit.simile.butterfly.Butterfly.initializeModule(Butterfly.java:476)
    at edu.mit.simile.butterfly.Butterfly.configure(Butterfly.java:451)
    at edu.mit.simile.butterfly.Butterfly.init(Butterfly.java:308)
    at org.mortbay.jetty.servlet.ServletHolder.initServlet(ServletHolder.java:440)
    at org.mortbay.jetty.servlet.ServletHolder.doStart(ServletHolder.java:263)
    at com.google.refine.RefineServer.configure(Refine.java:291)
    at com.google.refine.RefineServer.init(Refine.java:203)
    at com.google.refine.Refine.init(Refine.java:109)
    at com.google.refine.Refine.main(Refine.java:103)
Caused by: java.lang.ClassNotFoundException: org.json.JSONException
    at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
    at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
    at java.lang.ClassLoader.loadClass(ClassLoader.java:357)

    ... 37 more

---

De: "Owen Stephens" <ow...@ostephens.com>
Para: "OpenRefine" <openr...@googlegroups.com>
Enviados: Viernes, 2 de Agosto 2019 10:26:20
Asunto: [OpenRefine] Re: OpenRefine 3.2 install fails on Mac

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[Antonin Delpeuch (lists)]

Hi,

What is happening is that the RDF extension you are using is not
compatible with OpenRefine 3.2. If you remove it (and any other
extension that has not been updated for 3.2) you should be able to start
OpenRefine.

Hopefully a new version of the RDF extension will be out soon! We have
submitted a patch to make it work with 3.2.

Antonin

> ------------------------------------------------------------------------
> *De: *"Owen Stephens" <ow...@ostephens.com>
> *Para: *"OpenRefine" <openr...@googlegroups.com>
> *Enviados: *Viernes, 2 de Agosto 2019 10:26:20
> *Asunto: *[OpenRefine] Re: OpenRefine 3.2 install fails on Mac

> <mailto:openrefine+...@googlegroups.com>.

> To view this discussion on the web visit
> https://groups.google.com/d/msgid/openrefine/6197ee99-3ec0-4142-adde-0c7cb093633c%40googlegroups.com

> <https://groups.google.com/d/msgid/openrefine/6197ee99-3ec0-4142-adde-0c7cb093633c%40googlegroups.com?utm_medium=email&utm_source=footer>.

>
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[Claudia Gonzalez]

Thanks, Antonin, I get it. The problem is that I don't know how to delete the extension since the directories that are mentioned do not exist on my system. If I'm looking for something called rdf-extension nothing appears either.

----- Mensaje original -----
De: "Antonin Delpeuch (lists)" <li...@antonin.delpeuch.eu>
Para: "openrefine" <openr...@googlegroups.com>
Enviados: Domingo, 4 de Agosto 2019 5:22:35
Asunto: Re: [OpenRefine] Re: OpenRefine 3.2 install fails on Mac

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[Stuart Kenny]

Hi, this directory, "/Users/claudiamgonzalez/Library/Application Support/OpenRefine/extensions/rdf-extension" doesn't exist? Looking at the errors that does seem to be found on startup.

By the way, the RDF extension for 3.2 is available at https://github.com/stkenny/grefine-rdf-extension/releases/tag/v1.1.3-orefine-3.2

Stuart.

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[Antonin Delpeuch (lists)]

Hi Stuart,

That's wonderful, thank you so much!

Antonin

On 04/08/2019 22:38, Stuart Kenny wrote:
> Hi, this directory, "/Users/claudiamgonzalez/Library/Application
> Support/OpenRefine/extensions/rdf-extension" doesn't exist? Looking at
> the errors that does seem to be found on startup.
>
> By the way, the RDF extension for 3.2 is available
> at https://github.com/stkenny/grefine-rdf-extension/releases/tag/v1.1.3-orefine-3.2
>
> Stuart.
>
> On Sunday, 4 August 2019 21:32:01 UTC+1, Claudia Gonzalez wrote:
>
> Thanks, Antonin, I get it. The problem is that I don't know how to
> delete the extension since the directories that are mentioned do not
> exist on my system. If I'm looking for something called
> rdf-extension nothing appears either.
>
> ----- Mensaje original -----
> De: "Antonin Delpeuch (lists)" <li...@antonin.delpeuch.eu

> <javascript:>>
> Para: "openrefine" <openr...@googlegroups.com <javascript:>>

> > '127.0.0.1:3333 <http://127.0.0.1:3333>' (0ms)

> > *De: *"Owen Stephens" <ow...@ostephens.com <javascript:>>
> > *Para: *"OpenRefine" <openr...@googlegroups.com <javascript:>>

> > an email to openr...@googlegroups.com <javascript:>
> > <mailto:openrefine+...@googlegroups.com <javascript:>>.

> > To view this discussion on the web visit
> >
> https://groups.google.com/d/msgid/openrefine/6197ee99-3ec0-4142-adde-0c7cb093633c%40googlegroups.com
> <https://groups.google.com/d/msgid/openrefine/6197ee99-3ec0-4142-adde-0c7cb093633c%40googlegroups.com>
>
> >

> <https://groups.google.com/d/msgid/openrefine/6197ee99-3ec0-4142-adde-0c7cb093633c%40googlegroups.com?utm_medium=email&utm_source=footer

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>
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[Renaud Laurent]

I start and discovered ORefine, and on my macbook air (4Go) os sierra run is very low, so i  would like to allow more  memory
But i don't find openrefine folder and file to update ; is it ok anyway ?