Me and 12 other class attendees using Ubuntu 18.04 all have the reported problem in SNAP 8.0.
Neither installing libgfortran3 or jblas libraries helped to fix the issue.
For now we downgraded to SNAP 7 and it all works.
@lveci Sentinel-1 in versions 8.0.[0-2] results in [Error: [Nodeld: Back-Geocoding] org.jblas.NativeBlas.dgemm(CCIIID[DII[DIID[DII)V)"]
FYI: a slightly older prerelease version of 8 that I built on CentOS 7 does not have this error.
Dear SNAP developers,
It appears that me and other colleagues still have this issue (org.jblas.NativeBlas.dgemm(CCIIID[DII[DIID[DII)V)). The proposed solution
does not work since libgfortran3is already installed. Reinstalation does not seem to circumvent the issue.
Also note that this error appeared in SNAP 8. I’m using Linux Mint (based on Ubuntu, based on Fortran), last version. The version 6 and 7 are working fine.
I also had this problem, lately. When I updated from Ubuntu 18 to the latest version (20), it was gone. So in my case it was somehow related to the operating system or a missing library. I only tested SNAP 8 though.
sudo apt-get update
sudo apt install libgfortran5
I encountered this error and installing libgfortran5
fixed the error for me as mentioned by @nachin6789.
I am using SNAP 8 on Ubuntu 20.04 LTS
Works like a charm. Thank you very much.
Q.
Hi,
I have installed SNAP 8 in Ubuntu 18.04 and when I try to perform the python coreg_ifg_topsar py project.conf for 118 images,I get the same error
application/pi/SAMIRA/subsidence//split/20190424/20190424_IW2.dim
[2] Processing slave file :20190424_IW2.dim
SNAP STDOUT:INFO: org.esa.snap.core.gpf.operators.tooladapter.ToolAdapterIO: Initializing external tool adapters
INFO: org.esa.s2tbx.dataio.gdal.GDALVersion: GDAL 2.4.1 found on system. JNI driver will be used.
INFO: org.esa.s2tbx.dataio.gdal.GDALVersion: Installed GDAL 2.4.1 set to be used by SNAP.
Native library load failed.
java.lang.UnsatisfiedLinkError: /application/pi/.snap/auxdata/gdal/gdal-2-4-X-jni/libgdalalljni.so: libgdal.so.20: cannot open shared object file: No such file or directory
SEVERE: org.esa.s2tbx.dataio.gdal.GDALLoader: Failed to initialize GDAL native drivers. GDAL readers and writers were disabled.java.lang.reflect.InvocationTargetException
INFO: org.esa.snap.core.util.EngineVersionCheckActivator: Please check regularly for new updates for the best SNAP experience.
INFO: org.esa.s2tbx.dataio.gdal.GDALVersion: Installed GDAL 2.4.1 set to be used by SNAP.
Executing processing graph
INFO: org.hsqldb.persist.Logger: dataFileCache open start
done.
java.lang.NullPointerException
at org.esa.s1tbx.sentinel1.gpf.SpectralDiversityOp.initialize(SpectralDiversityOp.java:309)
at org.esa.snap.core.gpf.internal.OperatorContext.initializeOperator(OperatorContext.java:528)
at org.esa.snap.core.gpf.internal.OperatorContext.getTargetProduct(OperatorContext.java:298)
at org.esa.snap.core.gpf.Operator.getTargetProduct(Operator.java:385)
at org.esa.snap.core.gpf.graph.NodeContext.initTargetProduct(NodeContext.java:77)
at org.esa.snap.core.gpf.graph.GraphContext.initNodeContext(GraphContext.java:199)
at org.esa.snap.core.gpf.graph.GraphContext.initNodeContext(GraphContext.java:182)
at org.esa.snap.core.gpf.graph.GraphContext.initNodeContext(GraphContext.java:182)
at org.esa.snap.core.gpf.graph.GraphContext.initOutput(GraphContext.java:166)
at org.esa.snap.core.gpf.graph.GraphContext.(GraphContext.java:85)
at org.esa.snap.core.gpf.graph.GraphContext.(GraphContext.java:58)
at org.esa.snap.core.gpf.graph.GraphProcessor.executeGraph(GraphProcessor.java:118)
at org.esa.snap.core.gpf.main.DefaultCommandLineContext.executeGraph(DefaultCommandLineContext.java:86)
at org.esa.snap.core.gpf.main.CommandLineTool.executeGraph(CommandLineTool.java:547)
at org.esa.snap.core.gpf.main.CommandLineTool.runGraph(CommandLineTool.java:391)
at org.esa.snap.core.gpf.main.CommandLineTool.runGraphOrOperator(CommandLineTool.java:287)
at org.esa.snap.core.gpf.main.CommandLineTool.run(CommandLineTool.java:188)
at org.esa.snap.core.gpf.main.CommandLineTool.run(CommandLineTool.java:121)
at org.esa.snap.core.gpf.main.GPT.run(GPT.java:54)
at org.esa.snap.core.gpf.main.GPT.main(GPT.java:34)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.esa.snap.runtime.Launcher.lambda$run$0(Launcher.java:55)
at org.esa.snap.runtime.Engine.runClientCode(Engine.java:189)
at org.esa.snap.runtime.Launcher.run(Launcher.java:51)
at org.esa.snap.runtime.Launcher.main(Launcher.java:31)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at com.exe4j.runtime.LauncherEngine.launch(LauncherEngine.java:84)
at com.install4j.runtime.launcher.UnixLauncher.start(UnixLauncher.java:66)
at install4j.org.esa.snap.runtime.Launcher_gpt.main(Unknown Source)
Error: java.lang.NullPointerException
– org.jblas INFO Deleting /tmp/jblas4565772489320838501/libquadmath-0.so
– org.jblas INFO Deleting /tmp/jblas4565772489320838501/libgfortran-4.so
– org.jblas INFO Deleting /tmp/jblas4565772489320838501/libjblas_arch_flavor.so
– org.jblas INFO Deleting /tmp/jblas4565772489320838501/libjblas.so
– org.jblas INFO Deleting /tmp/jblas4565772489320838501
[2] Finished process in 9.16844797134 seconds.
I encountered this error and installed libgfortran5
,but it not fix now.
Anyone have an idea?
This issue does nothing have to do with the libgfortran5
.
There must be another problem.
But I can’t see.
At the code location where the exception occurs only the esdEstimator parameter can be null. But this is actually prevented by the parameter framework. One of the values Average
or Periodogram
must be used.
Maybe there is an issue in the coreg_ifg_topsar
python script.
thanks your good response,I have attached the scripts for you, please look at this and guide me,
Sincerecly,
coreg_ifg_computation.xml (5.9 KB) coreg_ifg_topsar.py (4.9 KB) project.conf (712 Bytes)
Same issue while doing TOPS coregistration. Fixed the error following @nachin6789 suggestion.
Using SNAP 8 on Linux Mint 19.1 Tessa
i’m using red hat enterprise linux workstation release 7.9
Linux 3.10.0-1127.13.1.el7.x86_64 x86_64
Snap version is 8
i’m getting this error while running coreg_ifg_topsar script
i tried installing libgfortran5 with yum but didn’t work
please help
I have not much experience with this. It is an issue of S1TBX.
[SITBX-603] Create Stack Error in graph: [NodeId: 2-CreateStack] - JIRA (atlassian.net)
[SITBX-769] Investigate if we can replace jblas - JIRA (atlassian.net)
Maybe @jun_lu or @lveci can comment on this.
The fix which was working on centos might help: