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RuntimeError: module compiled against API version 6 but this version of numpy is 4
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... Time stamp: 16nov23l38
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... Function name: clusterCoran
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... Appion directory: /opt/myamisnap/lib
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... Processing hostname: node04
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... Using split database
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[0;32mConnected to database: 'nyap_286'[0m
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... Committing data to database
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... Run directory: /gpfs/appion/waik/16nov22b/align/coran1
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[1;33m!!! WARNING: directory '/gpfs/appion/waik/16nov22b/align/coran1' already exists.[0m
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... Writing function log to: clusterCoran.log
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... Uploading ScriptData....
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... Found 1 processors on this machine
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... Looking up session, 16nov22b
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... Running Appion version 'trunk'
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[0;35mEMAN: [0mproc2d /gpfs/appion/waik/16nov22b/align/noref1/alignstack.hed /gpfs/appion/waik/16nov22b/align/noref1/alignstack_hed.spi spiderswap
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EMAN 1.9 Cluster ($Date: 2009/02/18 05:12:22 $).
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Run 'proc2d help' for detailed help.
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9311 images
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... completed in 2 min 5 sec
|
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... using factorlist 1-20
|
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... inserting clustering parameters into database
|
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[1;33m!!! WARNING: directory 'cluster' already exists.[0m
|
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... Creating dendrogram file: cluster/dendrogramdoc1-20.spi
|
|
Load average is high 12.87
|
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[35mexecuting command: ('CL HC', 'coran/corandata_IMC', '1-20')[0m
|
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Load average is high 12.0
|
|
[35mexecuting command: ('5', 'T', '2.9311', 'cluster/dendrogram.ps', 'Y', 'cluster/dendrogramdoc1-20')[0m
|
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waiting for spider....................
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SPIDER completed in 1 hr 15 min
|
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pstopnm: Warning: no %%BoundingBox statement in the input or command line.
|
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Will use defaults
|
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pstopnm: Writing ppmraw file
|
|
[0;32m
|
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============================
|
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processing class averages for 96 classes
|
|
============================
|
|
[0m
|
|
... Using the hierarch clustering method
|
|
|
|
\__`O O'__/ SPIDER -- COPYRIGHT
|
|
,__xXXXx___ HEALTH RESEARCH INC., ALBANY, NY.
|
|
__xXXXx__
|
|
/ /xxx\ \ VERSION: UNIX 18.10 ISSUED: 03/23/2010
|
|
/ \ DATE: 23-NOV-2016 AT 12:55:45
|
|
|
|
**** SPIDER NORMAL STOP ****
|
|
finding threshold<<<<<<<<><>>>>>Load average is high 12.44
|
|
[35mexecuting command: ('CL HE', 0.0081701925682097845, 'cluster/dendrogramdoc1-20', 'cluster/classdoc_16nov23l38_****')[0m
|
|
delete existing filescreate 97 class averages.................................................................................................waiting for spider
|
|
SPIDER completed in 32 min 52 sec
|
|
[0;35mEMAN: [0mproc2d cluster/classavgstack_16nov23l38_096.spi cluster/classavgstack_16nov23l38_096.hed
|
|
[0;35mEMAN: [0mproc2d cluster/classvarstack_16nov23l38_096.spi cluster/classvarstack_16nov23l38_096.hed
|
|
... inserting clustering stack into database
|
|
[0;36mInserting particle classification data, please wait[0m
|
|
................................................................................................ ... Completed 96 classes in 37 min 2 sec
|
|
[0;32m
|
|
============================
|
|
processing class averages for 193 classes
|
|
============================
|
|
[0m
|
|
... Using the hierarch clustering method
|
|
|
|
\__`O O'__/ SPIDER -- COPYRIGHT
|
|
,__xXXXx___ HEALTH RESEARCH INC., ALBANY, NY.
|
|
__xXXXx__
|
|
/ /xxx\ \ VERSION: UNIX 18.10 ISSUED: 03/23/2010
|
|
/ \ DATE: 23-NOV-2016 AT 13:32:47
|
|
|
|
**** SPIDER NORMAL STOP ****
|
|
finding threshold<<<<<<<<<><>Load average is high 12.01
|
|
[35mexecuting command: ('CL HE', 0.0023207342552293364, 'cluster/dendrogramdoc1-20', 'cluster/classdoc_16nov23l38_****')[0m
|
|
delete existing filescreate 194 class averages..................................................................................................................................................................................................waiting for spider
|
|
SPIDER completed in 29 min 39 sec
|
|
[0;35mEMAN: [0mproc2d cluster/classavgstack_16nov23l38_193.spi cluster/classavgstack_16nov23l38_193.hed
|
|
[0;35mEMAN: [0mproc2d cluster/classvarstack_16nov23l38_193.spi cluster/classvarstack_16nov23l38_193.hed
|
|
... inserting clustering stack into database
|
|
[0;36mInserting particle classification data, please wait[0m
|
|
................................................................................................................................................................................................. ... Completed 193 classes in 35 min 16 sec
|
|
[0;32m
|
|
============================
|
|
processing class averages for 386 classes
|
|
============================
|
|
[0m
|
|
... Using the hierarch clustering method
|
|
|
|
\__`O O'__/ SPIDER -- COPYRIGHT
|
|
,__xXXXx___ HEALTH RESEARCH INC., ALBANY, NY.
|
|
__xXXXx__
|
|
/ /xxx\ \ VERSION: UNIX 18.10 ISSUED: 03/23/2010
|
|
/ \ DATE: 23-NOV-2016 AT 14:08:03
|
|
|
|
**** SPIDER NORMAL STOP ****
|
|
finding threshold<<<<<<<<<<><><<Load average is high 12.06
|
|
[35mexecuting command: ('CL HE', 0.00069924025107510532, 'cluster/dendrogramdoc1-20', 'cluster/classdoc_16nov23l38_****')[0m
|
|
delete existing filescreate 387 class averages...................................................................................................................................................................................................................................................................................................................................................................................................waiting for spider
|
|
SPIDER completed in 30 min 10 sec
|
|
[0;35mEMAN: [0mproc2d cluster/classavgstack_16nov23l38_386.spi cluster/classavgstack_16nov23l38_386.hed
|
|
[0;35mEMAN: [0mproc2d cluster/classvarstack_16nov23l38_386.spi cluster/classvarstack_16nov23l38_386.hed
|
|
... inserting clustering stack into database
|
|
[0;36mInserting particle classification data, please wait[0m
|
|
.................................................................................................................................................................................................................................................................................................................................................................................................. ... Completed 386 classes in 35 min 54 sec
|
|
... Closing out function log: clusterCoran.log
|
|
... Ended at Wed, 23 Nov 2016 14:43:57
|
|
[0;32mTotal run time: 3 hr 6 min[0m
|
|
... Run directory:
|
|
/gpfs/appion/waik/16nov22b/align/coran1
|
|
|
|
|
|
16 rounds for 97 classes
|
|
|
|
|
|
13 rounds for 194 classes
|
|
|
|
|
|
16 rounds for 387 classes
|
|
|
|
|