Bug #2945
openwe got another error for "Cound not find cluster in your PATH"
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Description
the job is stopped by this error message:
EMAN 1.9 Cluster ($Date: 2009/02/18 05:12:22 $).
Run 'proc2d help' for detailed help.
Warning: suggest using edgenorm with clip
10 complete^M 20 complete^M 30 complete^M 40 complete^M 50 complete^M 60 complete^M 70 complete^M 80 complete^M 90 complete^M 100 complete^M
^M 110 complete^M 120 complete^M 130 complete^M 140 complete^M 150 complete^M 160 complete^M 170 complete^M 180 complete^M 190 complete^M 200 complete^M 210 complete^M 220 complete^M 230 complete^M 240 complete^M 250 complete^M 260 complete^M260 images
Using 4 processors!
... Running on host: node0116
SIMPLE: /opt/applications/myami/trunk/simple_linux_120521/bin/cluster stk=14oct06m36.spi box=88 nptcls=269 smpd=4.840 ring2=42 ncls=2 minp=10 nvars=10 nthr=4
... completed in 67.07 sec
... Alignment & Classification time: 67.08 sec
... Running on host: node0116
SIMPLE: /opt/applications/myami/trunk/simple_linux_120521/bin/spi_to_fim stk=cavgstk.spi box=88 nptcls=2 smpd=4.840 outbdy=projs msk=42
... Running on host: node0116
SIMPLE: /opt/applications/myami/trunk/simple_linux_120521/bin/origami fstk=projs.fim froms=2 tos=2 lp=20 hp=100 maxits=10 msk=42 mw=400 frac=0.800 amsklp=40 edge=3 trs=3 nthr=4
... completed in 55.42 sec
... Origami reconstruction time: 55.44 sec
EMAN: proc2d inplalgnstk.spi inplalgnstk.hed flip
EMAN: proc2d cavgstk.spi cavgstk.hed flip
... Inserting SIMPLE Run into DB
Traceback (most recent call last):
File "/opt/applications/myami/trunk/bin/runSimpleClusterAndOrigami.py", line 721, in <module>
simple.start()
File "/opt/applications/myami/trunk/bin/runSimpleClusterAndOrigami.py", line 709, in start
self.insertAlignStackRunIntoDatabase(alignedStack, clusterStack)
File "/opt/applications/myami/trunk/bin/runSimpleClusterAndOrigami.py", line 421, in insertAlignStackRunIntoDatabase
apDisplay.printError("could not find average mrc file: "+avgmrcfile)
File "/opt/applications/myami/trunk/lib/python2.6/site-packages/appionlib/apDisplay.py", line 65, in printError
raise Exception, colorString("\n * FATAL ERROR *\n"+text+"\n\a","red")
Exception:
* FATAL ERROR *
could not find average mrc file: /ami/data19/appion/14sep16a/abinitio/simple7/average.mrc
Updated by ShinBo Chen about 10 years ago
- Subject changed from simple common lines error to we got another error for "Cound not find cluster in your PATH"
runSimpleClusterAndOrigami.py --description=test --clip=72 --bin=1 --numpart=88 --ring2=34 --ncls=8 --minp=10 --nvars=30 --mask=34 --lp=20 --hp=100 --froms=2 --tos=2 --maxits=10 --mw=150 --frac=0.8 --amsklp=40 --edge=3 --trs=3 --stack=3 --commit --rundir=/myamiImages/appion/14oct07z/abinitio/simple7 --runname=simple7 --projectid=2 --expid=2 --jobtype=abinitio
.........
Traceback (most recent call last):
File "/usr/bin/appion/runSimpleClusterAndOrigami.py", line 721, in <module>
simple.start()
File "/usr/bin/appion/runSimpleClusterAndOrigami.py", line 618, in start
simpleexe = apParam.getExecPath("cluster", die=True)
File "/usr/lib/python2.6/site-packages/appionlib/apParam.py", line 607, in getExecPath
apDisplay.printError("Cound not find "+exefile+" in your PATH")
File "/usr/lib/python2.6/site-packages/appionlib/apDisplay.py", line 62, in printError
raise Exception, colorString("\n * FATAL ERROR *\n"+text+"\n\a","red")
Exception:
* FATAL ERROR *
Cound not find cluster in your PATH
--------------------------
Hope someone have any idea or suggest! Many Thanks!