[mira_talk] Re: Where is my assembly at?

  • From: Artemus Harper <subanark@xxxxxxxxx>
  • To: mira_talk@xxxxxxxxxxxxx
  • Date: Wed, 5 Oct 2011 15:37:16 -0700

I assume by the log_assembly.txt you mean the output that normally goes to
stdout? This will take a while to compress and will still be of significant
size when it is done. Do you want me to place this file on a ftp server, or
is there another way you would prefer to access it?
Here is the output:
-bash-3.2$ ls -lR
.:
total 128
drwxrwx---+ 2 artemus_harper dhingralab 32768 Sep 29 00:27
Chemdawg_mira_1_d_chkpt
drwxrwx---+ 2 artemus_harper dhingralab 32768 Sep 29 07:46
Chemdawg_mira_1_d_info
drwxrwx---+ 2 artemus_harper dhingralab 32768 Sep 28 08:21
Chemdawg_mira_1_d_results
drwxrwx---+ 2 artemus_harper dhingralab 32768 Sep 29 09:05
Chemdawg_mira_1_d_tmp

./Chemdawg_mira_1_d_chkpt:
total 55754528
-rw-rw----+ 1 artemus_harper dhingralab           2 Sep 29 00:27
passInfo.txt
-rw-rw----+ 1 artemus_harper dhingralab 57092599549 Sep 29 00:27
readpool.maf

./Chemdawg_mira_1_d_info:
total 19282560
-rw-rw----+ 1 artemus_harper dhingralab         235 Sep 28 08:21
Chemdawg_mira_1_info_callparameters.txt
-rw-rw----+ 1 artemus_harper dhingralab 19745288382 Sep 29 07:58
Chemdawg_mira_1_info_readrepeats.lst

./Chemdawg_mira_1_d_results:
total 0

./Chemdawg_mira_1_d_tmp:
total 96595552
-rw-rw----+ 1 artemus_harper dhingralab           0 Sep 28 08:46
Chemdawg_mira_1_info_reads_invalid
-rw-rw----+ 1 artemus_harper dhingralab   112987644 Sep 29 00:27
Chemdawg_mira_1_info_reads_tooshort
-rw-rw----+ 1 artemus_harper dhingralab  2532692091 Sep 28 23:59
Chemdawg_mira_1_int_clippings.0.txt
-rw-rw----+ 1 artemus_harper dhingralab 28891431408 Sep 30 09:03
Chemdawg_mira_1_int_posmatchc_pass.1.bin
-rw-rw----+ 1 artemus_harper dhingralab 34116844776 Sep 30 09:04
Chemdawg_mira_1_int_posmatchf_pass.1.bin
-rw-rw----+ 1 artemus_harper dhingralab           0 Sep 29 07:58
Chemdawg_mira_1_int_posmatch_megahubs_pass.1.lst
-rw-rw----+ 1 artemus_harper dhingralab  7836156888 Sep 28 10:24
Chemdawg_mira_1_log_readpoolinfo.lst
-rw-rw----+ 1 artemus_harper dhingralab  7925161748 Sep 30 08:52
elog.skim.puh.count.Chemdawg_mira_1_int_posmatchc_pass.1.bin
-rw-rw----+ 1 artemus_harper dhingralab  7924340056 Sep 30 07:47
elog.skim.puh.count.Chemdawg_mira_1_int_posmatchf_pass.1.bin
-rw-rw----+ 1 artemus_harper dhingralab  9574107296 Sep 29 03:43
hashstat.bin
-rw-rw----+ 1 artemus_harper dhingralab           0 Sep 29 00:27
miralog.noqualities


On Wed, Oct 5, 2011 at 3:07 PM, Bastien Chevreux <bach@xxxxxxxxxxxx> wrote:

> **
>
> On Monday 03 October 2011 17:48:04 Artemus Harper wrote:
>
> > Mira stopped this morning. Please tell me if you need anything else from
>
> > the output file. It is taking up 167G of HD space right now.
>
>
> Uh ... I don't like the error message. An old nemesis of mine.
>
>
> Could you please send me
>
> - the MIRA output log (log_assembly.txt). Compressed, please.
>
> - the output of ls -lR of the "*_assembly" directory
>
>
> Apart from that, I suppose you can delete the files. Sorry for that
> failure.
>
>
> B.
>
>
>
>


-- 
Artemus Harper

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