Created
April 21, 2016 11:23
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[tsackton@bioinf02 newRatite]$ cat cactus2hal.log | |
real 32m6.430s | |
user 31m7.563s | |
sys 0m54.729s | |
hal exception caught: Fatal Tree error. converter does not support adding more than one non-leaf:birdAnc06 | |
real 7m33.713s | |
user 7m11.973s | |
sys 0m17.987s | |
rm -f newRatiteAlign.hal | |
time halAppendCactusSubtree '/scratch1/tsackton/merged_aligns/ratiteDir/progressiveAlignment/Anc03/Anc03_hal.c2h' '/scratch1/tsackton/merged_aligns/ratiteDir/progressiveAlignment/Anc03/Anc03_hal.fa' '(birdAnc05:0.0575233,birdAnc06:0.0677528,chrPic:0.418413,allMis:0.4696778,anoCar:1.1811839)birdAnc;' 'newRatiteAlign.hal' --outgroups chrPic,allMis,anoCar | |
time halAppendCactusSubtree '/scratch1/tsackton/merged_aligns/ratiteDir/progressiveAlignment/Anc05/Anc05_hal.c2h' '/scratch1/tsackton/merged_aligns/ratiteDir/progressiveAlignment/Anc05/Anc05_hal.fa' '(birdAnc07:0.0409259,birdAnc08:0.041184,birdAnc06:0.1252761,birdAnc09:0.1400447,birdAnc15:0.14154608)birdAnc05;' 'newRatiteAlign.hal' --outgroups Anc06,Anc09,Anc15 | |
Traceback (most recent call last): | |
File "/n/home12/tsackton/sw/progs/progressiveCactus/submodules/cactus2hal/bin/cactus2hal.py", line 125, in <module> | |
main(); | |
File "/n/home12/tsackton/sw/progs/progressiveCactus/submodules/cactus2hal/bin/cactus2hal.py", line 116, in main | |
system(cmdline) | |
File "/n/home12/tsackton/sw/progs/progressiveCactus/submodules/sonLib/bioio.py", line 185, in system | |
raise RuntimeError("Command: %s exited with non-zero status %i" % (command, sts)) | |
RuntimeError: Command: time halAppendCactusSubtree '/scratch1/tsackton/merged_aligns/ratiteDir/progressiveAlignment/Anc05/Anc05_hal.c2h' '/scratch1/tsackton/merged_aligns/ratiteDir/progressiveAlignment/Anc05/Anc05_hal.fa' '(birdAnc07:0.0409259,birdAnc08:0.041184,birdAnc06:0.1252761,birdAnc09:0.1400447,birdAnc15:0.14154608)birdAnc05;' 'newRatiteAlign.hal' --outgroups Anc06,Anc09,Anc15 exited with non-zero status 1 |
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