[ImageJ-builds] Build failed in Jenkins: fiji-full #607

Fri Jan 25 03:12:56 CST 2013

See <https://qa.nest-initiative.org/job/fiji-full/607/>

------------------------------------------
Started by user Yury V. Zaytsev
Building remotely on fc-18-i386-1 in workspace <https://qa.nest-initiative.org/job/fiji-full/ws/>
Checkout:fiji-full / <https://qa.nest-initiative.org/job/fiji-full/ws/> - hudson.remoting.Channel at 162781ba:fc-18-i386-1
Using strategy: Default
Last Built Revision: Revision 3036926fdad97765178dba1312ae5cb08650dd49 (origin/master)
Cloning the remote Git repository
Cloning repository git://github.com/fiji/fiji
git --version
git version 1.8.1
Fetching upstream changes from git://github.com/fiji/fiji
Cleaning workspace
Resetting working tree
Commencing build of Revision 3036926fdad97765178dba1312ae5cb08650dd49 (origin/master)
Checking out Revision 3036926fdad97765178dba1312ae5cb08650dd49 (origin/master)
Cleaning workspace
Resetting working tree
[fiji-full] $ /bin/bash /tmp/hudson7723614442389519184.sh
+ git submodule init
Submodule 'java/linux' (ssh://contrib@fiji.sc/srv/git/java/linux.git) registered for path 'java/linux'
Submodule 'java/linux-amd64' (ssh://contrib@fiji.sc/srv/git/java/linux-amd64.git) registered for path 'java/linux-amd64'
Submodule 'java/macosx-java3d' (ssh://contrib@fiji.sc/srv/git/java/macosx-java3d.git) registered for path 'java/macosx-java3d'
Submodule 'java/win32' (ssh://contrib@fiji.sc/srv/git/java/win32.git) registered for path 'java/win32'
Submodule 'java/win64' (ssh://contrib@fiji.sc/srv/git/java/win64.git) registered for path 'java/win64'
Submodule 'AutoComplete' (ssh://contrib@fiji.sc/srv/git/AutoComplete) registered for path 'modules/AutoComplete'
Submodule 'ImageJA' (ssh://mob@repo.or.cz/srv/git/imageja.git) registered for path 'modules/ImageJA'
Submodule 'RSyntaxTextArea' (ssh://contrib@fiji.sc/srv/git/RSyntaxTextArea) registered for path 'modules/RSyntaxTextArea'
Submodule 'Retrotranslator' (ssh://contrib@fiji.sc/srv/git/Retrotranslator) registered for path 'modules/Retrotranslator'
Submodule 'TrakEM2' (ssh://mob@repo.or.cz/srv/git/trakem2.git) registered for path 'modules/TrakEM2'
Submodule 'batik' (ssh://contrib@fiji.sc/srv/git/batik/.git) registered for path 'modules/batik'
Submodule 'clojure' (ssh://contrib@fiji.sc/srv/git/clojure/) registered for path 'modules/clojure'
Submodule 'commons-math' (contrib at fiji.sc:/srv/git/commons-math) registered for path 'modules/commons-math'
Submodule 'ij-plugins' (ssh://contrib@fiji.sc/srv/git/ij-plugins) registered for path 'modules/ij-plugins'
Submodule 'modules/imagej5d' (git://fiji.sc/image5d) registered for path 'modules/image5d'
Submodule 'modules/imagej2' (git://code.imagej.net/imagej.git) registered for path 'modules/imagej2'
Submodule 'imglib' (contrib at fiji.sc:/srv/git/imglib.git) registered for path 'modules/imglib'
Submodule 'modules/javassist' (contrib at fiji.sc:/srv/git/javassist) registered for path 'modules/javassist'
Submodule 'jsch' (contrib at fiji.sc:/srv/git/jsch) registered for path 'modules/jsch'
Submodule 'junit' (ssh://contrib@fiji.sc/srv/git/junit) registered for path 'modules/junit'
Submodule 'jython' (ssh://contrib@fiji.sc/srv/git/jython/.git) registered for path 'modules/jython'
Submodule 'mpicbg' (ssh://contrib@fiji.sc/srv/git/mpicbg.git) registered for path 'modules/mpicbg'
Submodule 'tcljava' (ssh://contrib@fiji.sc/srv/git/tcljava) registered for path 'modules/tcljava'
Submodule 'weka' (ssh://contrib@fiji.sc/srv/git/weka/) registered for path 'modules/weka'
+ git submodule sync
Synchronizing submodule url for 'java/linux'
Synchronizing submodule url for 'java/linux-amd64'
Synchronizing submodule url for 'java/macosx-java3d'
Synchronizing submodule url for 'java/win32'
Synchronizing submodule url for 'java/win64'
Synchronizing submodule url for 'modules/AutoComplete'
Synchronizing submodule url for 'modules/ImageJA'
Synchronizing submodule url for 'modules/RSyntaxTextArea'
Synchronizing submodule url for 'modules/Retrotranslator'
Synchronizing submodule url for 'modules/TrakEM2'
Synchronizing submodule url for 'modules/batik'
Synchronizing submodule url for 'modules/clojure'
Synchronizing submodule url for 'modules/commons-math'
Synchronizing submodule url for 'modules/ij-plugins'
Synchronizing submodule url for 'modules/image5d'
Synchronizing submodule url for 'modules/imagej2'
Synchronizing submodule url for 'modules/imglib'
Synchronizing submodule url for 'modules/javassist'
Synchronizing submodule url for 'modules/jsch'
Synchronizing submodule url for 'modules/junit'
Synchronizing submodule url for 'modules/jython'
Synchronizing submodule url for 'modules/mpicbg'
Synchronizing submodule url for 'modules/tcljava'
Synchronizing submodule url for 'modules/weka'
++ grep -v java/
++ sed -n 's/^160000 .\{40\} 0.//p'
++ git ls-files --stage
+ SUBMODULES='modules/AutoComplete
modules/ImageJA
modules/RSyntaxTextArea
modules/Retrotranslator
modules/TrakEM2
modules/batik
modules/clojure
modules/commons-math
modules/ij-plugins
modules/image5d
modules/imagej2
modules/imglib
modules/javassist
modules/jsch
modules/junit
modules/jython
modules/mpicbg
modules/tcljava
modules/weka'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/AutoComplete
Cloning into 'modules/AutoComplete'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/AutoComplete': checked out 'bbff1fd4545b3a614b14eb0770ac6028b648746d'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/ImageJA
Cloning into 'modules/ImageJA'...
Warning: Permanently added 'repo.or.cz,195.113.20.142' (RSA) to the list of known hosts.
Submodule path 'modules/ImageJA': checked out '1b6577014983eb68c56025e6d3b95c8b9b7fc511'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/RSyntaxTextArea
Cloning into 'modules/RSyntaxTextArea'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/RSyntaxTextArea': checked out '1741ece3d827d55a3782eb40af39ce58901abffc'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/Retrotranslator
Cloning into 'modules/Retrotranslator'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/Retrotranslator': checked out 'd026144ccf0fa8d1f27e603f5d9566a15326d40a'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/TrakEM2
Cloning into 'modules/TrakEM2'...
Warning: Permanently added 'repo.or.cz,195.113.20.142' (RSA) to the list of known hosts.
Submodule path 'modules/TrakEM2': checked out 'a83aa977e4768f570dd0c6e0d5d588e9196fd66e'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/batik
Cloning into 'modules/batik'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/batik': checked out 'e4d3eb47a8f9d4e62d1f356636652c3ecc739d92'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/clojure
Cloning into 'modules/clojure'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/clojure': checked out '1f55cc0a9df8e98c79973a1f563bb68baab7bccd'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/commons-math
Cloning into 'modules/commons-math'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/commons-math': checked out '76b192cfedec37dc20115052bf14f9edf5dc5ed9'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/ij-plugins
Cloning into 'modules/ij-plugins'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/ij-plugins': checked out '9fa7f4d993f57e27e3134b016c7d36fbfd33e34c'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/image5d
Cloning into 'modules/image5d'...
Submodule path 'modules/image5d': checked out 'adb832e5a0cdd08caa036174d4043637af960a2d'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/imagej2
Cloning into 'modules/imagej2'...
Submodule path 'modules/imagej2': checked out 'fbad416ca5be59d1ed7fe7a06ba5cc39f5e37eee'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/imglib
Cloning into 'modules/imglib'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/imglib': checked out '39ce99d96d39390a31641cb4ae00d17d9cd0c61e'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/javassist
Cloning into 'modules/javassist'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/javassist': checked out '4ed3ffd24798908db256efde09f79a118b4401cf'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/jsch
Cloning into 'modules/jsch'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/jsch': checked out '8a1642e4f6ae78671d1ec6818de2c0d79bf41273'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/junit
Cloning into 'modules/junit'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/junit': checked out 'b362c662f79763c7927a2ba486243ccefa9222a1'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/jython
Cloning into 'modules/jython'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/jython': checked out 'a440b764b524753a9e2fb5a3aa68b1f3197a3eaf'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/mpicbg
Cloning into 'modules/mpicbg'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Submodule path 'modules/mpicbg': checked out 'e982ec5bd30c8dbe3a478e021ad577521490ae3e'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/tcljava
Cloning into 'modules/tcljava'...
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
Warning: Permanently added 'fiji.sc,141.5.10.38' (RSA) to the list of known hosts.
fatal: reference is not a tree: 20ab0539cc248c642982fdf1330325636d8c55c0
Unable to checkout '20ab0539cc248c642982fdf1330325636d8c55c0' in submodule path 'modules/tcljava'
Build step 'Execute shell' marked build as failure