[mira_talk] Re: Mira says "killed" as last word after being almost done

  • From: Adrian Pelin <apelin20@xxxxxxxxx>
  • To: mira_talk@xxxxxxxxxxxxx
  • Date: Thu, 12 May 2011 10:34:22 -0400

The results folder is empty and there is no log file that was created. Here
are a list of documents present after it got killed:


[AdrianP@adrianpelin gigaspora]$ ls -al
total 16
drwxrwxr-x. 4 AdrianP AdrianP 4096 May  9 22:59 .
drwxr-xr-x. 9 AdrianP AdrianP 4096 May  8 14:19 ..
drwxrwxr-x. 6 AdrianP AdrianP 4096 May  9 22:59 gigaspora2_denovo_assembly
drwxrwxr-x. 6 AdrianP AdrianP 4096 May  8 14:49 gigaspora_denovo_assembly
lrwxrwxrwx. 1 AdrianP AdrianP   55 May  8 14:28 gigaspora_in.454.fastq ->
/home/AdrianP/assembly/data/G1P7DQF02.GIGASPO_DNA.fastq
lrwxrwxrwx. 1 AdrianP AdrianP   42 May  8 14:20 gigaspora_in.solexa.fastq ->
/home/AdrianP/assembly/data/all_GDR-10.txt
lrwxrwxrwx. 1 AdrianP AdrianP   53 May  8 14:29
gigaspora_traceinfo_in.454.xml ->
/home/AdrianP/assembly/data/G1P7DQF02.GIGASPO_DNA.xml
-rw-rw-r--. 1 AdrianP AdrianP    0 May  9 19:21 log_hybdn.txt
[AdrianP@adrianpelin gigaspora_denovo_assembly]$ ls -al
gigaspora_denovo_d_log
total 43325088
drwxrwxr-x. 2 AdrianP AdrianP        4096 May  9 17:04 .
drwxrwxr-x. 6 AdrianP AdrianP        4096 May  8 14:49 ..
-rw-rw-r--. 1 AdrianP AdrianP           0 May  8 14:51
gigaspora_denovo_error_reads_invalid
-rw-rw-r--. 1 AdrianP AdrianP    54510239 May  9 17:04
gigaspora_denovo_info_consensustaglist.1.txt
-rw-rw-r--. 1 AdrianP AdrianP   150430571 May  9 17:04
gigaspora_denovo_info_contigreadlist_pass.1.txt
-rw-rw-r--. 1 AdrianP AdrianP     5463568 May  9 17:04
gigaspora_denovo_info_contigstats_pass.1.txt
-rw-rw-r--. 1 AdrianP AdrianP   105015720 May  9 17:04
gigaspora_denovo_info_debrislist_pass.1.txt
-rw-rw-r--. 1 AdrianP AdrianP    12764694 May  8 15:10
gigaspora_denovo_info_reads_tooshort
-rw-rw-r--. 1 AdrianP AdrianP  1459307936 May  9 17:04
gigaspora_denovo_info_readtaglist.1.txt
-rw-rw-r--. 1 AdrianP AdrianP   328044202 May  8 15:49
gigaspora_denovo_int_clippings.0.txt
-rw-rw-r--. 1 AdrianP AdrianP 13055712128 May  8 15:54
gigaspora_denovo_int_normalisedskims_preassembly.0.bin
-rw-rw-r--. 1 AdrianP AdrianP  2234065416 May  8 15:49
gigaspora_denovo_int_posmatchc_preassembly.0.lst
-rw-rw-r--. 1 AdrianP AdrianP   715096296 May  8 16:00
gigaspora_denovo_int_posmatchc_preassembly.0.lst.reduced
-rw-rw-r--. 1 AdrianP AdrianP  2661826632 May  8 15:49
gigaspora_denovo_int_posmatchf_preassembly.0.lst
-rw-rw-r--. 1 AdrianP AdrianP   864158976 May  8 16:00
gigaspora_denovo_int_posmatchf_preassembly.0.lst.reduced
-rw-rw-r--. 1 AdrianP AdrianP           0 May  8 15:17
gigaspora_denovo_int_posmatch_megahubs_preassembly.0.lst
-rw-rw-r--. 1 AdrianP AdrianP           0 May  8 15:49
gigaspora_denovo_int_posmatch_multicopystat_preassembly.0.txt
-rw-rw-r--. 1 AdrianP AdrianP  2523216918 May  9 17:04
gigaspora_denovo_out_pass.1.caf
-rw-rw-r--. 1 AdrianP AdrianP   232766668 May  8 14:51
gigaspora_denovo_readpoolinfo.lst
-rw-rw-r--. 1 AdrianP AdrianP  1014834464 May  8 15:13 hashstat.bin
-rw-rw-r--. 1 AdrianP AdrianP  3000650484 May  8 16:40
miralog.ads_pass.1.adsfacts
-rw-rw-r--. 1 AdrianP AdrianP   214925035 May  8 16:45
miralog.ads_pass.1.adsfacts.pclusters
-rw-rw-r--. 1 AdrianP AdrianP  1778880160 May  8 16:40
miralog.ads_pass.1.complement
-rw-rw-r--. 1 AdrianP AdrianP  2252002749 May  8 16:40
miralog.ads_pass.1.forward
-rw-rw-r--. 1 AdrianP AdrianP  1017515760 May  8 16:40
miralog.ads_pass.1.reject
-rw-rw-r--. 1 AdrianP AdrianP           0 May  8 15:10 miralog.noqualities
-rw-rw-r--. 1 AdrianP AdrianP   187902039 May  8 15:10 miralog.usedids
-rw-rw-r--. 1 AdrianP AdrianP  1641613900 May  9 19:21
repeat_resolve.1.adsfacts
-rw-rw-r--. 1 AdrianP AdrianP  2241239073 May  9 19:21
repeat_resolve.1.complement
-rw-rw-r--. 1 AdrianP AdrianP  2973604403 May  9 18:19
repeat_resolve.1.forward
-rw-rw-r--. 1 AdrianP AdrianP  3639107589 May  9 19:21
repeat_resolve.1.reject
AdrianP@adrianpelin gigaspora_denovo_assembly]$ ls -al
gigaspora_denovo_d_info
total 149324
drwxrwxr-x. 2 AdrianP AdrianP      4096 May  9 17:04 .
drwxrwxr-x. 6 AdrianP AdrianP      4096 May  8 14:49 ..
-rw-rw-r--. 1 AdrianP AdrianP      2368 May  9 17:04
gigaspora_denovo_info_assembly.txt
-rw-rw-r--. 1 AdrianP AdrianP       139 May  8 14:49
gigaspora_denovo_info_callparameters.txt
-rw-rw-r--. 1 AdrianP AdrianP 152890262 May  8 15:17
gigaspora_denovo_info_readrepeats.lst
[AdrianP@adrianpelin gigaspora_denovo_assembly]$ ls -al
gigaspora_denovo_d_chkpt
total 2117620
drwxrwxr-x. 2 AdrianP AdrianP       4096 May  8 16:01 .
drwxrwxr-x. 6 AdrianP AdrianP       4096 May  8 14:49 ..
-rw-rw-r--. 1 AdrianP AdrianP          2 May  8 16:01 passInfo.txt
-rw-rw-r--. 1 AdrianP AdrianP 2168424930 May  8 16:01 readpool.maf
[AdrianP@adrianpelin gigaspora_denovo_assembly]$

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