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Xueqi_L_
Beginner
120 Views

Executing actions 14 % Loading 'systemcollector-28364.sc' file tbrw call

 

 

with the command: 

amplxe-cl -collect general-exploration -data-limit=1500 -target-tmp-dir=/home/vtune cufflinks -p 24 accepted_hits.bam

I have a problem with vtune2016 ample-cl, like the following log:

amplxe: Collection stopped.

amplxe: Using result path `/home/r003ge'

amplxe: Executing actions  0 %                                                 

amplxe: Warning: The result contains a lot of raw data. Finalization may take a long time to complete.

amplxe: Executing actions 14 % Loading 'systemcollector-28364-sm197.sc' file   

amplxe: Error: Cannot load data file `/home/r003ge/data.0/sep7fa50222f700.20160129T232823.255583.tb6' (tbrw call "TBRW_dobind(tbrwFile->getHandle(), streamIndex)" failed: invalid string (97)).

amplxe: Executing actions 100 % done                                           

amplxe: Error: 0x40000025 (Inapplicable report) -- The report 'summary' is not applicable to the result /home/r003ge/r003ge.amplxe.

 

The problem has puzzled me for a long time, Thank you for your reply.

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3 Replies
Peter_W_Intel
Employee
120 Views

Can this problem repeat with VTune Amplifier XE 2016 Update 2 - command "amplxe-cl -collect general-exploration -d 3600 -data-limit=1500 -target-tmp-dir=/home/vtune cufflinks -p 24 accepted_hits.bam"?

How about advanced-hotspots?

amplxe-cl -collect advanced-hotspots -d 3600 -data-limit=1500 -target-tmp-dir=/home/vtune cufflinks -p 24 accepted_hits.bam

Realize that it might be a complicated issue, and it's hard to attache result directory because of huge size. You can set -

export AMPLXE_LOG_LEVEL=TRACE
export AMPLXE_LOG_DIR=<your-dir>

Rerun above commands, send me traced logs. Thank you.

Xueqi_L_
Beginner
120 Views

 

Peter Wang wrote:

Can this problem repeat with VTune Amplifier XE 2016 Update 2 - command "amplxe-cl -collect general-exploration -d 3600 -data-limit=1500 -target-tmp-dir=/home/vtune cufflinks -p 24 accepted_hits.bam"?

How about advanced-hotspots?

amplxe-cl -collect advanced-hotspots -d 3600 -data-limit=1500 -target-tmp-dir=/home/vtune cufflinks -p 24 accepted_hits.bam

Realize that it might be a complicated issue, and it's hard to attache result directory because of huge size. You can set -

export AMPLXE_LOG_LEVEL=TRACE
export AMPLXE_LOG_DIR=<your-dir>

Rerun above commands, send me traced logs. Thank you.

Thank you for your enthusiasm and patience. My vtune version is 

amplxe-cl -version

Intel(R) VTune(TM) Amplifier XE 2016 Update 1 (build 434111) Command Line Tool

Copyright (C) 2009-2015 Intel Corporation. All rights reserved.

 

First, I export export AMPLXE_LOG_LEVEL=TRACE, export AMPLXE_LOG_DIR=/home/lxq/vtune in my ~/.bashrc and source it

export AMPLXE_LOG_LEVEL=TRACE

export AMPLXE_LOG_DIR=/home/lxq/vtune

Second, I run the advanced-hotspots analysis via the command: amplxe-cl -collect advanced-hotspots -d 360 -data-limit=1500 -target-tmp-dir=/home/vtune cufflinks -p 24 accepted_hits.bam (because program duration is less than 6 minutes), however, I still got the log like the following:

and the general-exploration log is error as well 

>>>

amplxe: Collection stopped.

amplxe: Using result path `/home/lxq/rna_profiling/data/Project_8241688397/Sample_R140813001/tophat_out/r000ah'

amplxe: Executing actions  0 %                                                 

amplxe: Warning: The result contains a lot of raw data. Finalization may take a long time to complete.

amplxe: Executing actions 14 % Loading 'systemcollector-38998-sm197.sc' file   

amplxe: Error: Cannot load data file `/home/lxq/rna_profiling/data/Project_8241688397/Sample_R140813001/tophat_out/r000ah/data.0/sep7f37d113d700.20160130T152849.185974.tb6' (tbrw call "TBRW_dobind(tbrwFile->getHandle(), streamIndex)" failed: invalid string (97)).

amplxe: Executing actions 100 % done                                           

amplxe: Error: 0x40000025 (Inapplicable report) -- The report 'summary' is not applicable to the result /home/lxq/rna_profiling/data/Project_8241688397/Sample_R140813001/tophat_out/r000ah/r000ah.amplxe.

 

Peter_W_Intel
Employee
120 Views

Was it due to write-access permission?

export AMPLXE_LOG_LEVEL=TRACE

export AMPLXE_LOG_DIR=/tmp/vtune-log; // instead of "/home/lxq/vtune"

;amplxe-cl -collect advanced-hotspots -d 360 -data-limit=1500 -target-tmp-dir=/home/vtune cufflinks -p 24 accepted_hits.bam

amplxe-cl -collect advanced-hotspots -d 360 -data-limit=1500 -target-tmp-dir=/tmp -r /tmp/r000ah cufflinks -p 24 accepted_hits.bam

Did you mean that you cannot create log dir? Can you run same way without application? Is it an application specific issue?

amplxe-cl -collect advanced-hotspots -d 360 -data-limit=1500 -target-tmp-dir=/tmp -r /tmp/r000ah ; // remove /tmp/r000ah first if it exits.

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