benedictpaten/cactus — Issue #3: Bug with 0 size flowers
Author: benedictpaten
Created: 2011-10-15 00:16:34+00:00
State: open

Reporting file: /Users/benedictpaten/sync/eclipse/git/cactus/tmp_uBW8JrJzX2/jobTree/logFileDir/tmp_0pQlPGGCfM/tmp_LQQETnDRsg/tmp_tYFKCG1i50/tmp_brO7c92aGz.log
tmp_brO7c92aGz.log:	Assertion failed: (flower_builtBlocks(flower)), function checkFlowerIsNotRedundant, file cactus_check.c, line 104.
tmp_brO7c92aGz.log:	Traceback (most recent call last):
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/jobTree/bin/jobTreeSlave", line 118, in processJob
tmp_brO7c92aGz.log:	jobTree.scriptTree.scriptTree.run(tempJob, l[1], l[2:])
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/jobTree/scriptTree/scriptTree.py", line 42, in run
tmp_brO7c92aGz.log:	target.execute(job)
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/jobTree/scriptTree/stack.py", line 218, in execute
tmp_brO7c92aGz.log:	target.run()
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/cactus/pipeline/cactus_workflow.py", line 603, in run
tmp_brO7c92aGz.log:	runCactusCheck(self.options.cactusDiskDatabaseString, self.flowerNames)
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/cactus/shared/common.py", line 261, in runCactusCheck
tmp_brO7c92aGz.log:	system("cactus_check --cactusDisk '%s' %s --logLevel %s %s" % (cactusDiskDatabaseString, " ".join(flowerNames), logLevel, recursive))
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/sonLib/bioio.py", line 160, in system
tmp_brO7c92aGz.log:	raise RuntimeError("Command: %s exited with non-zero status %i" % (command, i))
tmp_brO7c92aGz.log:	RuntimeError: Command: cactus_check --cactusDisk '' 0 --logLevel CRITICAL exited with non-zero status 6
The log file of the slave for the job
Reporting file: /Users/benedictpaten/sync/eclipse/git/cactus/tmp_uBW8JrJzX2/jobTree/slaveLogFileDir/tmp_SQooQj0iGB/tmp_FwDfKsADvx/tmp_Z5faJmOY4Z/tmp_8B18H1AQSB.log
tmp_8B18H1AQSB.log:	Caught an exception in the target being run
tmp_8B18H1AQSB.log:	Failed the job
tmp_8B18H1AQSB.log:	Exiting the slave because of a failed job
Job: /Users/benedictpaten/sync/eclipse/git/cactus/tmp_uBW8JrJzX2/jobTree/jobs/tmp_53iUaRtZmQ/tmp_kp0Tuc0CNf/tmp_vf95XG4pjT/tmp_HouIcP5qFh.xml is completely failed
There are 1 jobs currently in job tree: /Users/benedictpaten/sync/eclipse/git/cactus/tmp_uBW8JrJzX2/jobTree
Colour: red, number of jobs: 1
Reporting file: /Users/benedictpaten/sync/eclipse/git/cactus/tmp_uBW8JrJzX2/jobTree/logFileDir/tmp_0pQlPGGCfM/tmp_LQQETnDRsg/tmp_tYFKCG1i50/tmp_brO7c92aGz.log
tmp_brO7c92aGz.log:	Assertion failed: (flower_builtBlocks(flower)), function checkFlowerIsNotRedundant, file cactus_check.c, line 104.
tmp_brO7c92aGz.log:	Traceback (most recent call last):
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/jobTree/bin/jobTreeSlave", line 118, in processJob
tmp_brO7c92aGz.log:	jobTree.scriptTree.scriptTree.run(tempJob, l[1], l[2:])
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/jobTree/scriptTree/scriptTree.py", line 42, in run
tmp_brO7c92aGz.log:	target.execute(job)
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/jobTree/scriptTree/stack.py", line 218, in execute
tmp_brO7c92aGz.log:	target.run()
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/cactus/pipeline/cactus_workflow.py", line 603, in run
tmp_brO7c92aGz.log:	runCactusCheck(self.options.cactusDiskDatabaseString, self.flowerNames)
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/cactus/shared/common.py", line 261, in runCactusCheck
tmp_brO7c92aGz.log:	system("cactus_check --cactusDisk '%s' %s --logLevel %s %s" % (cactusDiskDatabaseString, " ".join(flowerNames), logLevel, recursive))
tmp_brO7c92aGz.log:	File "/Users/benedictpaten/sync/eclipse/git/sonLib/bioio.py", line 160, in system
tmp_brO7c92aGz.log:	raise RuntimeError("Command: %s exited with non-zero status %i" % (command, i))
tmp_brO7c92aGz.log:	RuntimeError: Command: cactus_check --cactusDisk '' 0 --logLevel CRITICAL exited with non-zero status 6
E...There are 0 jobs currently in job tree: /Users/benedictpaten/sync/eclipse/git/cactus/tmp_KBCyn7wXID/jobTree