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Bug #2945

open

we got another error for "Cound not find cluster in your PATH"

Added by Kuang-Lei Tsai about 10 years ago. Updated about 10 years ago.

Status:
New
Priority:
Normal
Category:
-
Target version:
-
Start date:
10/06/2014
Due date:
% Done:

0%

Estimated time:
Affected Version:
Appion/Leginon 3.1.0
Show in known bugs:
No
Workaround:

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

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