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Hi, Gene,
David Gordon here. Chris Dunn and I have been working on a datander problem and he says it is now time to bring it to your attention. We reproduced it with the latest versions of datand…
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Hi!
My falcon was ran as "fc_run.py fc_run.cfg >fc_run.log 2>fc_run.err &". After it exit, I tried to find the reason by "grep 'failed' fc_run.err", then I found the two failed job: 0-rawreads/m_00…
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Hi guys,
Recently we've realised that the way we run the HINGE pipeline causes a process in the chain getting killed for large PacBio and ONT datasets. I think this is related to [issue 130](https:…
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Hi,
Falcon has been a great addition to the software suite. It took a while to get it to work on my system but it is proving to be a veritable workhorse. Thank you to the whole team in getting this …
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**I had run "fc_run.py fc_run_ecoli_local.cfg"on the one dataset and some error occured.**
```
[ERROR]Task Node(0-rawreads) failed with exit-code=256
[INFO]recently_satisfied: set([])
[INFO]Num sa…
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Hi,
We are testing increasing -s for pa_DBsplit_option to reduce the number of inodes. A test with -s 400 completes without any problems. However when we increase to -s 1000 there are no errors from c…
aclum updated
8 years ago
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Hi, Jason,
At the initial daligner stage (where it is working in 0-rawreads), it submits hundreds of jobs with names such as: d_7741e0bb_raw_reads-ddbf9706. Is there any way to determine how many m…
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Hi!
I had run my assembly in SGE, but I think I didn't take advantage the resource. After google, I still felt confused, so I look for help here, any suggestion would be grateful!
\1. What different…
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I have the same issue as @amnag and others. I read the comments and found no path to a solution. I checked the **task-run directory** /0-rawreads/tan-runs/tan_003 for the stderr : it looks like datan…
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Hi, Chris,
1) forget about trying to speed up the 0-rawreads daligner (rj_*) step. daligner is running at 390% cpu so would not benefit from copying the .raw_reads.bps to /tmp. You were right and …