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Hi Mark,<br>
<br>
What you are seeing is progress reports from swift at an interval of
30s, and all this<br>
indicates is that your jobs were submitted to the queue for
execution. Until the local resource<br>
manager, in this case the SGE scheduler starts the execution of jobs
swift will have to wait.<br>
From you description all I can gather is that you are seeing long
wait times, with no indications<br>
of a any failure.<br>
<br>
Could you check if you can spot the jobs submitted by swift to the
queue ? For this, open<br>
a separate terminal on the login node while your swift run is
waiting in submitted state,<br>
and use qstat to see your jobs.<br>
<br>
[coursa1@login06 part05]$ qstat <br>
job-ID prior name user state submit/start at
queue slots ja-task-ID <br>
-----------------------------------------------------------------------------------------------------------------<br>
6593408 0.00000 B0503-2802 coursa1 qw 05/03/2015
14:28:40 1 <br>
6593409 0.00000 B0503-2802 coursa1 qw 05/03/2015
14:28:41 1 <br>
<br>
The qw state indicates that your jobs are waiting in the queue.<br>
<br>
Thanks,<br>
Yadu<br>
<br>
<br>
<div class="moz-cite-prefix">On 05/03/2015 01:11 AM, Altaweel, Mark
wrote:<br>
</div>
<blockquote
cite="mid:20A806EE-399C-47ED-84EE-39F240C6CFFD@live.ucl.ac.uk"
type="cite">
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charset=windows-1252">
Hi,
<div><br>
</div>
<div>I tried executing Swift on our institutionss sge-based
cluster and the submission seems hung or not executing properly.
It has the following message:</div>
<div><br>
</div>
<div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Swift
0.96-RC1 git-rev: c7a1dc478a40865f5639f186284697d53978bd48
heads/release-0.96-swift 6274 (modified locally)</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">RunID:
run002</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:00:29+0100</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Number
of parameter combinations: 2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Stride:
1</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Begin:
1, End: 1</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Begin:
2, End: 2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:00:30+0100 Submitted:2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Error:
No parallel environment specified</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:01:00+0100 Submitted:2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:01:30+0100 Submitted:2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:02:00+0100 Submitted:2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:02:30+0100 Submitted:2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:03:00+0100 Submitted:2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:03:30+0100 Submitted:2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:04:00+0100 Submitted:2</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">Progress:
Sun, 03 May 2015 07:04:30+0100 Submitted:2</div>
</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;"><br>
</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">This
is just repeated and does not seem to stop</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;"><br>
</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">The
log file has the following messages, which also repeat:</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;"><br>
</div>
<div style="margin: 0px; font-size: 11px; font-family: Menlo;">
<div style="margin: 0px;">2015-05-03 07:08:22,401+0100 INFO
RuntimeStats$ProgressTicker HeapMax: 954728448, CrtHeap:
378535936, UsedHeap: 64559392, JVMThreads: 52</div>
<div style="margin: 0px;">2015-05-03 07:08:23,401+0100 INFO
RuntimeStats$ProgressTicker HeapMax: 954728448, CrtHeap:
378535936, UsedHeap: 64559432, JVMThreads: 52</div>
<div style="margin: 0px;">2015-05-03 07:08:23,709+0100 INFO
AbstractQueuePoller Actively monitored: 1, New: 0, Done: 0</div>
<div style="margin: 0px;">2015-05-03 07:08:24,401+0100 INFO
RuntimeStats$ProgressTicker HeapMax: 954728448, CrtHeap:
378535936, UsedHeap: 64584080, JVMThreads: 52</div>
<div style="margin: 0px;">2015-05-03 07:08:25,401+0100 INFO
RuntimeStats$ProgressTicker HeapMax: 954728448, CrtHeap:
378535936, UsedHeap: 64584120, JVMThreads: 52</div>
<div style="margin: 0px;">2015-05-03 07:08:26,401+0100 INFO
RuntimeStats$ProgressTicker HeapMax: 954728448, CrtHeap:
378535936, UsedHeap: 64584160, JVMThreads: 52</div>
<div style="margin: 0px;">2015-05-03 07:08:27,401+0100 INFO
RuntimeStats$ProgressTicker HeapMax: 954728448, CrtHeap:
378535936, UsedHeap: 64584200, JVMThreads: 52</div>
<div style="margin: 0px;">2015-05-03 07:08:28,401+0100 INFO
RuntimeStats$ProgressTicker HeapMax: 954728448, CrtHeap:
378535936, UsedHeap: 64584240, JVMThreads: 52</div>
<div style="margin: 0px;">2015-05-03 07:08:29,401+0100 INFO
RuntimeStats$ProgressTicker HeapMax: 954728448, CrtHeap:
378535936, UsedHeap: 64584280, JVMThreads: 52</div>
<div style="margin: 0px;"><br>
</div>
<div style="margin: 0px;"><br>
</div>
<div style="margin: 0px;">I did run this locally to see if
anything is wrong with the submission and it worked fine with
proper output.</div>
<div style="margin: 0px;"><br>
</div>
<div style="margin: 0px;">Thank you.</div>
<div style="margin: 0px;"><br>
</div>
<div style="margin: 0px;">Mark</div>
<div style="margin: 0px;"><br>
</div>
<div style="margin: 0px;"><br>
</div>
</div>
<br>
<fieldset class="mimeAttachmentHeader"></fieldset>
<br>
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