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saalfeldlab / n5-utils

simple standalone BigDataViewer for multiple N5 (or HDF5) datasets
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Test assumes $HOME/tmp already exists #12

Open jefferis opened 5 years ago

jefferis commented 5 years ago 
Gregs-MBP-2:n5-utils jefferis$ ./install $HOME/bin osx
Installing into /Users/jefferis/bin
Assuming operating system osx
Picked up _JAVA_OPTIONS: -Djdk.net.URLClassPath.disableClassPathURLCheck=true
[INFO] Scanning for projects...
[INFO] 
[INFO] ----------------------< org.saalfeldlab:n5-utils >----------------------
[INFO] Building n5-utils 0.0.3-SNAPSHOT
[INFO] --------------------------------[ jar ]---------------------------------
[INFO] 
[INFO] --- maven-clean-plugin:3.1.0:clean (default-clean) @ n5-utils ---
[INFO] Deleting /Users/jefferis/dev/Java/n5-utils/target
[INFO] 
[INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-rules) @ n5-utils ---
[INFO] Skipping Rule Enforcement.
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:regex-property (sanitize-version) @ n5-utils ---
[INFO] 
[INFO] --- buildnumber-maven-plugin:1.4:create (default) @ n5-utils ---
[INFO] Executing: /bin/sh -c cd '/Users/jefferis/dev/Java/n5-utils' && 'git' 'rev-parse' '--verify' 'HEAD'
[INFO] Working directory: /Users/jefferis/dev/Java/n5-utils
[INFO] Storing buildNumber: 1dd1c637300cc494a8eb86433a43334a67cf1f40 at timestamp: 1550917422744
[INFO] Storing buildScmBranch: master
[INFO] 
[INFO] --- scijava-maven-plugin:1.1.0:set-rootdir (set-rootdir) @ n5-utils ---
[INFO] Setting rootdir: /Users/jefferis/dev/Java/n5-utils
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ n5-utils ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /Users/jefferis/dev/Java/n5-utils/src/main/resources
[INFO] 
[INFO] --- maven-compiler-plugin:3.7.0:compile (default-compile) @ n5-utils ---
[INFO] Compiling 4 source files to /Users/jefferis/dev/Java/n5-utils/target/classes
[INFO] /Users/jefferis/dev/Java/n5-utils/src/main/java/org/saalfeldlab/Equals.java: Some input files use unchecked or unsafe operations.
[INFO] /Users/jefferis/dev/Java/n5-utils/src/main/java/org/saalfeldlab/Equals.java: Recompile with -Xlint:unchecked for details.
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ n5-utils ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /Users/jefferis/dev/Java/n5-utils/src/test/resources
[INFO] 
[INFO] --- maven-compiler-plugin:3.7.0:testCompile (default-testCompile) @ n5-utils ---
[INFO] Compiling 2 source files to /Users/jefferis/dev/Java/n5-utils/target/test-classes
[INFO] 
[INFO] --- maven-surefire-plugin:2.21.0:test (default-test) @ n5-utils ---
[INFO] 
[INFO] -------------------------------------------------------
[INFO]  T E S T S
[INFO] -------------------------------------------------------
[INFO] Running org.saalfeldlab.CopyTest
[ERROR] Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 0.183 s <<< FAILURE! - in org.saalfeldlab.CopyTest
[ERROR] test(org.saalfeldlab.CopyTest)  Time elapsed: 0.122 s  <<< ERROR!
ncsa.hdf.hdf5lib.exceptions.HDF5FileNotFoundException: Directory does not exist. (/Users/jefferis/tmp)
    at org.saalfeldlab.CopyTest.test(CopyTest.java:70)

[INFO] Running org.saalfeldlab.MiscTest
[INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 s - in org.saalfeldlab.MiscTest
[INFO] 
[INFO] Results:
[INFO] 
[ERROR] Errors: 
[ERROR]   CopyTest.test:70 » HDF5FileNotFound Directory does not exist. (/Users/jefferis...
[INFO] 
[ERROR] Tests run: 2, Failures: 0, Errors: 1, Skipped: 0
[INFO] 
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time:  4.676 s
[INFO] Finished at: 2019-02-23T10:23:45Z
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-surefire-plugin:2.21.0:test (default-test) on project n5-utils: There are test failures.
[ERROR] 
[ERROR] Please refer to /Users/jefferis/dev/Java/n5-utils/target/surefire-reports for the individual test results.
[ERROR] Please refer to dump files (if any exist) [date]-jvmRun[N].dump, [date].dumpstream and [date]-jvmRun[N].dumpstream.
[ERROR] -> [Help 1]
[ERROR] 
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR] 
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException
[INFO] Scanning for projects...
[INFO] 
[INFO] ----------------------< org.saalfeldlab:n5-utils >----------------------
[INFO] Building n5-utils 0.0.3-SNAPSHOT
[INFO] --------------------------------[ jar ]---------------------------------
[INFO] 
[INFO] --- maven-dependency-plugin:3.1.1:build-classpath (default-cli) @ n5-utils ---
[INFO] Wrote classpath file '/Users/jefferis/dev/Java/n5-utils/cp.txt'.
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time:  1.570 s
[INFO] Finished at: 2019-02-23T10:23:48Z
[INFO] ------------------------------------------------------------------------