tmills / ctakes-docker

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error when loading .xml / org.apache.uima.resource.ResourceinitializationException #36

Open Vortex10 opened 3 years ago

Vortex10 commented 3 years ago

Hi,

I followed every step from the readme, however when I opened the xml on cas (cvd) , it triggered the following error.

I'm using Linux 18 LTS , on VirtualBox, it's this connected to the IP itself? docker0: flags=4163<UP,BROADCAST,RUNNING,MULTICAST> mtu 1500 inet 172.17.0.1 netmask 255.255.0.0 broadcast 172.17.255.255 inet6 fe80::42:7bff:fefb:425f prefixlen 64 scopeid 0x20 ether 02:42:7b:fb:42:5f txqueuelen 0 (Ethernet) RX packets 26349565 bytes 4394668221 (4.3 GB) RX errors 0 dropped 0 overruns 0 frame 0 TX packets 26336853 bytes 4789214805 (4.7 GB) TX errors 0 dropped 0 overruns 0 carrier 0 collisions 0

enp0s3: flags=4163<UP,BROADCAST,RUNNING,MULTICAST> mtu 1500 inet 10.0.2.15 netmask 255.255.255.0 broadcast 10.0.2.255 inet6 fe80::4860:1bd4:cac8:2ee8 prefixlen 64 scopeid 0x20 ether 08:00:27:66:52:c8 txqueuelen 1000 (Ethernet) RX packets 434664 bytes 537689410 (537.6 MB) RX errors 0 dropped 0 overruns 0 frame 0 TX packets 121089 bytes 19288120 (19.2 MB) TX errors 0 dropped 0 overruns 0 carrier 0 collisions 0

Screenshot from 2020-12-19 19-15-18

Thanks

Vortex10 commented 3 years ago

https://prnt.sc/w65wza

tmills commented 3 years ago

Sorry, at what stage in the README is this error occurring? When you run Step 8?

vrx10 commented 3 years ago

It failed on step number 6: Load descriptor to full pipeline: Run->Load AE->./desc/remoteFull.xml

I was following the video from matthew -> https://www.youtube.com/watch?v=0V584l8J8_Y&ab_channel=MatthewVita , and following your explanation also on here.

I've tried to debug checking if it was something regarding the broker host, I'm using

VMBOX - Ubuntu 18.04 LTS I have the docker installed, umls credentials set

But it failed

Load descriptor to full pipeline: Run->Load AE->./desc/remoteFull.xml

Thanks for the asnwer

tmills commented 3 years ago

OK, I'm guessing there is some issue around seeing things on the network. It might help narrow it down if you can paste the whole stack trace (what's on the terminal where you launched the cvd, in the background on your screenshot).

Vortex10 commented 3 years ago

Hi Tim,

Sure:

javax.jms.JMSException: java.io.EOFException at org.apache.activemq.util.JMSExceptionSupport.create(JMSExceptionSupport.java:54) at org.apache.activemq.ActiveMQConnection.onAsyncException(ActiveMQConnection.java:1949) at org.apache.activemq.ActiveMQConnection.onException(ActiveMQConnection.java:1968) at org.apache.activemq.transport.TransportFilter.onException(TransportFilter.java:114) at org.apache.activemq.transport.ResponseCorrelator.onException(ResponseCorrelator.java:126) at org.apache.activemq.transport.TransportFilter.onException(TransportFilter.java:114) at org.apache.activemq.transport.TransportFilter.onException(TransportFilter.java:114) at org.apache.activemq.transport.WireFormatNegotiator.onException(WireFormatNegotiator.java:173) at org.apache.activemq.transport.AbstractInactivityMonitor.onException(AbstractInactivityMonitor.java:344) at org.apache.activemq.transport.TransportSupport.onException(TransportSupport.java:96) at org.apache.activemq.transport.tcp.TcpTransport.run(TcpTransport.java:219) at java.lang.Thread.run(Thread.java:748) Caused by: java.io.EOFException at java.io.DataInputStream.readInt(DataInputStream.java:392) at org.apache.activemq.openwire.OpenWireFormat.unmarshal(OpenWireFormat.java:268) at org.apache.activemq.transport.tcp.TcpTransport.readCommand(TcpTransport.java:240) at org.apache.activemq.transport.tcp.TcpTransport.doRun(TcpTransport.java:232) at org.apache.activemq.transport.tcp.TcpTransport.run(TcpTransport.java:215) ... 1 more

I already changed multiple times the Broker host ip, that on my ifconfig is the following : docker0: flags=4163<UP,BROADCAST,RUNNING,MULTICAST> mtu 1500 inet 172.17.0.1 netmask 255.255.0.0 broadcast 172.17.255.255 inet6 fe80::42:23ff:fec0:5b86 prefixlen 64 scopeid 0x20 ether 02:42:23:c0:5b:86 txqueuelen 0 (Ethernet) RX packets 13140806 bytes 2061414704 (2.0 GB) RX errors 0 dropped 0 overruns 0 frame 0 TX packets 13138266 bytes 2227894710 (2.2 GB) TX errors 0 dropped 0 overruns 0 carrier 0 collisions 0

enp0s3: flags=4163<UP,BROADCAST,RUNNING,MULTICAST> mtu 1500 inet 10.0.2.15 netmask 255.255.255.0 broadcast 10.0.2.255 inet6 fe80::4860:1bd4:cac8:2ee8 prefixlen 64 scopeid 0x20 ether 08:00:27:66:52:c8 txqueuelen 1000 (Ethernet) RX packets 14353 bytes 15679241 (15.6 MB) RX errors 0 dropped 0 overruns 0 frame 0 TX packets 5624 bytes 1115367 (1.1 MB) TX errors 0 dropped 0 overruns 0 carrier 0 collisions 0

Thanks

Em seg., 21 de dez. de 2020 às 13:50, Tim Miller notifications@github.com escreveu:

OK, I'm guessing there is some issue around seeing things on the network. It might help narrow it down if you can paste the whole stack trace (what's on the terminal where you launched the cvd, in the background on your screenshot).

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Vortex10 commented 3 years ago

So I've tried to install directly ubuntu into a partition, without a VM, however the issue is still the same Screenshot from 2020-12-22 13-42-16

I've tried everything from the step1 and it fails when I load the xml.

I'm using my both accounts that's why it's appearing vrx10 and vortex10, sorry.

krashr-ds commented 3 years ago

Hi, it looks like I have the exact same problem. Anyone know how to fix it?