[mira_talk] Re: Disk space required?
- From: "Raj Kumar, Praveen Kumar Mr." <rajkump@xxxxxxxxxx>
- To: "mira_talk@xxxxxxxxxxxxx" <mira_talk@xxxxxxxxxxxxx>
- Date: Sun, 25 Jul 2010 11:51:49 -0400
Thankx for reply. Here is the log file of second run.
________________________________________
From: mira_talk-bounce@xxxxxxxxxxxxx [mira_talk-bounce@xxxxxxxxxxxxx] On Behalf
Of Bastien Chevreux [bach@xxxxxxxxxxxx]
Sent: Sunday, July 25, 2010 4:51 AM
To: mira_talk@xxxxxxxxxxxxx
Subject: [mira_talk] Re: Disk space required?
On Sonntag 25 Juli 2010 Raj Kumar, Praveen Kumar Mr. wrote:
> Can anyone tell me how much disk space is required for EST assembly of
> 3 GB fasta file and 8GB qual file. I am asking this because, mira run
> stopped for my last two times saying something like Disk full?. I have 250
> GB limit in my cluster machine. When I started MIRA job I had only 20 GB
> occupied, but after 1 week of run I see all 250 GB has been utilized and
> still MIRA stopped. How much disk space I require? Below are the commands
> I used,
"miramem" should give you a first good hint.
Also, could you please send me the log file for me to analyse? Eating all of
the 250GiB seems a bit too much, even for MIRA.
B.
--
You have received this mail because you are subscribed to the mira_talk mailing
list. For information on how to subscribe or unsubscribe, please visit
http://www.chevreux.org/mira_mailinglists.html
This is MIRA V3.2.0rc1 (development version).
Please cite: Chevreux, B., Wetter, T. and Suhai, S. (1999), Genome Sequence
Assembly Using Trace Signals and Additional Sequence Information.
Computer Science and Biology: Proceedings of the German Conference on
Bioinformatics (GCB) 99, pp. 45-56.
To (un-)subscribe the MIRA mailing lists, see:
http://www.chevreux.org/mira_mailinglists.html
After subscribing, mail general questions to the MIRA talk mailing list:
mira_talk@xxxxxxxxxxxxx
To report bugs or ask for features, please use the new ticketing system at:
http://sourceforge.net/apps/trac/mira-assembler/
This ensures that requests don't get lost.
Compiled by: bach
Mon Jul 5 00:19:29 CEST 2010
On: Linux arcadia64 2.6.27-11-generic #1 SMP Wed Apr 1 20:53:41 UTC 2009 x86_64
GNU/Linux
Compiled in boundtracking mode.
Compiled in bugtracking mode.
Compilation settings (sorry, for debug):
Size of size_t : 8
Size of uint32 : 4
Size of uint32_t: 4
Size of uint64 : 8
Size of uint64_t: 8
Current system: Linux compute-0-0.local 2.6.18-164.15.1.el5 #1 SMP Wed Mar 17
11:30:06 EDT 2010 x86_64 x86_64 x86_64 GNU/Linux
Parsing parameters: --project=EACh --job=est,denovo,accurate,sanger,454
SANGER_SETTINGS -CL:qc=no 454_SETTINGS -LR:mxti=no
Parameters parsed without error, perfect.
------------------------------------------------------------------------------
Parameter settings seen for:
Sanger data (also common parameters), 454 data
Used parameter settings:
General (-GE):
Project name in (proin) : EACh
Project name out (proout) : EACh
Number of threads (not) : 2
Automatic memory management (amm) : yes
Keep percent memory free (kpmf) : 15
Max. process size (mps) : 0
Keep contigs in memory (kcim) : no
EST SNP pipeline step (esps) : 0
Use template information (uti) : [san] yes
[454] yes
Template insert size minimum (tismin) : [san] -1
[454] -1
Template insert size maximum (tismax) : [san] -1
[454] -1
Template partner build direction (tpbd) : [san] -1
[454] -1
Colour reads by hash frequency (crhf) : no
Load reads options (-LR):
Load sequence data (lsd) : [san] yes
[454] yes
File type (ft) : [san] fasta
[454] fasta
External quality (eq) : from SCF (scf)
Ext. qual. override (eqo) : no
Discard reads on e.q. error (droeqe): no
Solexa scores in qual file (ssiqf) : no
FASTQ qual offset (fqqo) : [san] 0
[454] 0
Wants quality file (wqf) : [san] yes
[454] yes
Read naming scheme (rns) : [san] Sanger Institute
(sanger)
[454] forward/reverse
(fr)
Merge with XML trace info (mxti) : [san] no
[454] no
Filecheck only (fo) : no
Assembly options (-AS):
Number of passes (nop) : 5
Skim each pass (sep) : yes
Maximum number of RMB break loops (rbl) : 3
Minimum read length (mrl) : [san] 80
[454] 40
Minimum reads per contig (mrpc) : [san] 2
[454] 2
Base default quality (bdq) : [san] 10
[454] 10
Enforce presence of qualities (epoq) : [san] yes
[454] yes
Automatic repeat detection (ard) : no
Coverage threshold (ardct) : [san] 2
[454] 2
Minimum length (ardml) : [san] 400
[454] 200
Grace length (ardgl) : [san] 40
[454] 20
Use uniform read distribution (urd) : no
Start in pass (urdsip) : 4
Cutoff multiplier (urdcm) : [san] 1.5
[454] 1.5
Keep long repeats separated (klrs) : no
Spoiler detection (sd) : no
Last pass only (sdlpo) : yes
Use genomic pathfinder (ugpf) : no
Use emergency search stop (uess) : yes
ESS partner depth (esspd) : 500
Use emergency blacklist (uebl) : yes
Use max. contig build time (umcbt) : yes
Build time in seconds (bts) : 3600
Strain and backbone options (-SB):
Load straindata (lsd) : no
Load backbone (lb) : no
Start backbone usage in pass (sbuip) : 3
Backbone file type (bft) : fasta
Backbone base quality (bbq) : 30
Backbone strain name (bsn) :
Force for all (bsnffa) : no
Backbone rail from strain (brfs) :
Backbone rail length (brl) : 0
Backbone rail overlap (bro) : 0
Also build new contigs (abnc) : yes
Dataprocessing options (-DP):
Use read extensions (ure) : [san] no
[454] no
Read extension window length (rewl) : [san] 30
[454] 15
Read extension w. maxerrors (rewme) : [san] 2
[454] 2
First extension in pass (feip) : [san] 0
[454] 0
Last extension in pass (leip) : [san] 0
[454] 0
Clipping options (-CL):
Merge with SSAHA vector screen (msvs) : [san] no
[454] no
Gap size (msvsgs) : [san] 10
[454] 8
Max front gap (msvsmfg) : [san] 60
[454] 8
Max end gap (msvsmeg) : [san] 120
[454] 12
Strict front clip (msvssfc) : [san] 0
[454] 0
Strict end clip (msvssec) : [san] 0
[454] 0
Possible vector leftover clip (pvlc) : [san] no
[454] no
maximum len allowed (pvcmla) : [san] 18
[454] 18
Quality clip (qc) : [san] no
[454] no
Minimum quality (qcmq) : [san] 20
[454] 20
Window length (qcwl) : [san] 30
[454] 30
Bad stretch quality clip (bsqc) : [san] no
[454] no
Minimum quality (bsqcmq) : [san] 20
[454] 5
Window length (bsqcwl) : [san] 30
[454] 20
Masked bases clip (mbc) : [san] yes
[454] yes
Gap size (mbcgs) : [san] 20
[454] 5
Max front gap (mbcmfg) : [san] 40
[454] 12
Max end gap (mbcmeg) : [san] 60
[454] 12
Lower case clip (lcc) : [san] no
[454] yes
Clip poly A/T at ends (cpat) : [san] yes
[454] yes
Keep poly-a signal (cpkps) : [san] no
[454] no
Minimum signal length (cpmsl) : [san] 12
[454] 12
Max errors allowed (cpmea) : [san] 1
[454] 1
Max gap from ends (cpmgfe) : [san] 20000
[454] 20000
Ensure minimum left clip (emlc) : [san] no
[454] no
Minimum left clip req. (mlcr) : [san] 25
[454] 4
Set minimum left clip to (smlc) : [san] 30
[454] 4
Ensure minimum right clip (emrc) : [san] no
[454] no
Minimum right clip req. (mrcr) : [san] 10
[454] 10
Set minimum right clip to (smrc) : [san] 20
[454] 15
Apply SKIM chimera detection clip (ascdc) : no
Apply SKIM junk detection clip (asjdc) : no
Propose end clips (pec) : no
Bases per hash (pecbph) : 17
Parameters for SKIM algorithm (-SK):
Number of threads (not) : 2
Bases per hash (bph) : 21
Hash save stepping (hss) : 1
Percent required (pr) : [san] 70
[454] 80
Max hits per read (mhpr) : 30
Max megahub ratio (mmhr) : 0
Freq. est. min normal (fenn) : 0.4
Freq. est. max normal (fexn) : 1.6
Freq. est. repeat (fer) : 1.9
Freq. est. heavy repeat (fehr) : 8
Freq. est. crazy (fecr) : 20
Mask nasty repeats (mnr) : no
Nasty repeat ratio (nrr) : 100
Max hashes in memory (mhim) : 15000000
MemCap: hit reduction (mchr) : 2048
Pathfinder options (-PF):
Use quick rule (uqr) : [san] yes
[454] yes
Quick rule min len 1 (qrml1) : [san] 200
[454] 80
Quick rule min sim 1 (qrms1) : [san] 90
[454] 90
Quick rule min len 2 (qrml2) : [san] 100
[454] 60
Quick rule min sim 2 (qrms2) : [san] 95
[454] 95
Backbone quick overlap min len (bqoml) : [san] 150
[454] 80
Align parameters for Smith-Waterman align (-AL):
Bandwidth in percent (bip) : [san] 20
[454] 20
Bandwidth max (bmax) : [san] 130
[454] 80
Bandwidth min (bmin) : [san] 25
[454] 20
Minimum score (ms) : [san] 30
[454] 15
Minimum overlap (mo) : [san] 15
[454] 20
Minimum relative score in % (mrs) : [san] 85
[454] 80
Solexa_hack_max_errors (shme) : [san] 0
[454] 0
Extra gap penalty (egp) : [san] yes
[454] yes
extra gap penalty level (egpl) : [san] reject_codongaps
[454] reject_codongaps
Max. egp in percent (megpp) : [san] 100
[454] 100
Contig parameters (-CO):
Name prefix (np) : EACh
Reject on drop in relative alignment score in % (rodirs) : [san] 10
[454] 15
Mark repeats (mr) : yes
Only in result (mroir) : no
Assume SNP instead of repeats (asir) : no
Minimum reads per group needed for tagging (mrpg) : [san] 2
[454] 4
Minimum neighbour quality needed for tagging (mnq) : [san] 20
[454] 20
Minimum Group Quality needed for RMB Tagging (mgqrt) : [san] 30
[454] 25
End-read Marking Exclusion Area in bases (emea) : [san] 25
[454] 10
Set to 1 on clipping PEC (emeas1clpec) : yes
Also mark gap bases (amgb) : [san] yes
[454] no
Also mark gap bases - even multicolumn (amgbemc) : [san] yes
[454] yes
Also mark gap bases - need both strands (amgbnbs): [san] yes
[454] yes
Force non-IUPAC consensus per sequencing type (fnicpst) : [san] no
[454] no
Merge short reads (msr) : [san] no
[454] no
Gap override ratio (gor) : [san] 66
[454] 66
Edit options (-ED):
Automatic contig editing (ace) : [san] no
[454] yes
Sanger only:
Strict editing mode (sem) : no
Confirmation threshold in percent (ct) : 50
Directories (-DI):
When loading EXP files :
When loading SCF files :
Top directory for writing files : EACh_assembly
For writing result files : EACh_assembly/EACh_d_results
For writing result info files : EACh_assembly/EACh_d_info
For writing log files : EACh_assembly/EACh_d_log
For writing checkpoint files : EACh_assembly/EACh_d_chkpt
File names (-FN):
When loading sequences from FASTA : [san]
EACh_in.sanger.fasta
[454] EACh_in.454.fasta
When loading qualities from FASTA quality : [san]
EACh_in.sanger.fasta.qual
[454]
EACh_in.454.fasta.qual
When loading sequences from FASTQ : [san]
EACh_in.sanger.fastq
[454] EACh_in.454.fastq
When loading project from CAF : EACh_in.sanger.caf
When loading project from MAF (disabled) : EACh_in.sanger.maf
When loading EXP fofn : EACh_in.sanger.fofn
When loading project from PHD : EACh_in.phd.1
When loading strain data : EACh_straindata_in.txt
When loading XML trace info files : [san]
EACh_traceinfo_in.sanger.xml
[454]
EACh_traceinfo_in.454.xml
When loading SSAHA vector screen results :
EACh_ssaha2vectorscreen_in.txt
When loading backbone from MAF : EACh_backbone_in.maf
When loading backbone from CAF : EACh_backbone_in.caf
When loading backbone from GenBank : EACh_backbone_in.gbf
When loading backbone from FASTA : EACh_backbone_in.fasta
Output files (-OUTPUT/-OUT):
Save simple singlets in project (sssip) : [san] no
[454] no
Save tagged singlets in project (stsip) : [san] yes
[454] yes
Remove rollover logs (rrol) : yes
Remove log directory (rld) : no
Result files:
Saved as CAF (orc) : yes
Saved as FASTA (orf) : yes
Saved as GAP4 (directed assembly) (org) : no
Saved as phrap ACE (ora) : yes
Saved as HTML (orh) : no
Saved as Transposed Contig Summary (ors) : yes
Saved as simple text format (ort) : no
Saved as wiggle (orw) : no
Temporary result files:
Saved as CAF (otc) : yes
Saved as MAF (otm) : no
Saved as FASTA (otf) : no
Saved as GAP4 (directed assembly) (otg) : no
Saved as phrap ACE (ota) : no
Saved as HTML (oth) : no
Saved as Transposed Contig Summary (ots) : no
Saved as simple text format (ott) : no
Extended temporary result files:
Saved as CAF (oetc) : no
Saved as FASTA (oetf) : no
Saved as GAP4 (directed assembly) (oetg) : no
Saved as phrap ACE (oeta) : no
Saved as HTML (oeth) : no
Save also singlets (oetas) : no
Alignment output customisation:
TEXT characters per line (tcpl) : 60
HTML characters per line (hcpl) : 60
TEXT end gap fill character (tegfc) :
HTML end gap fill character (hegfc) :
File / directory output names:
CAF : EACh_out.caf
MAF : EACh_out.maf
FASTA : EACh_out.unpadded.fasta
FASTA quality : EACh_out.unpadded.fasta.qual
FASTA (padded) : EACh_out.padded.fasta
FASTA qual.(pad): EACh_out.padded.fasta.qual
GAP4 (directory): EACh_out.gap4da
ACE : EACh_out.ace
HTML : EACh_out.html
Simple text : EACh_out.txt
TCS overview : EACh_out.tcs
Wiggle : EACh_out.wig
------------------------------------------------------------------------------
Creating directory EACh_assembly ... done.
Creating directory EACh_assembly/EACh_d_log ... done.
Creating directory EACh_assembly/EACh_d_results ... done.
Creating directory EACh_assembly/EACh_d_info ... done.
Creating directory EACh_assembly/EACh_d_chkpt ... done.
Localtime: Sun Jul 18 18:56:01 2010
Loading data (Sanger) from FASTA files,
Counting sequences in FASTA file:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Found 324499 sequences.
Localtime: Sun Jul 18 18:56:23 2010
Checking SCF files (loading qualities only if needed):
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Done.
0 SCF files loaded ok.
Sanger will load 324499 reads.
Loading data (454) from FASTA files,
Counting sequences in FASTA file:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Found 6877548 sequences.
454 will load 6877548 reads.
Longest Sanger: 3211
Longest 454: 1696
Longest PacBio: 0
Longest Solexa: 0
Longest Solid: 0
Longest overall: 3211
Total reads to load: 7202047
Reserving space for reads (this may take a while)
tcmalloc: large alloc 1670881280 bytes == 0xadd3000 @
Reserved space for 7202057 reads.
Loading data (Sanger) from FASTA files,
Counting sequences in FASTA file:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Found 324499 sequences.
Loading data from FASTA file:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Loading quality data from FASTA quality file EACh_in.sanger.fasta.qual:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Done.
Loaded 324499 reads with 220729172 raw bases.
324499 reads have quality accounted for.
Localtime: Sun Jul 18 19:01:02 2010
Checking SCF files (loading qualities only if needed):
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Done.
0 SCF files loaded ok.
324499 SCF files were not found (see
'EACh_assembly/EACh_d_log/EACh_info_scfreadfail.0' for a list of names).
Loaded 324499 Sanger reads.
Loading data (454) from FASTA files,
Counting sequences in FASTA file:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Found 6877548 sequences.
Loading data from FASTA file:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Loading quality data from FASTA quality file EACh_in.454.fasta.qual:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Done.
Loaded 6877548 reads with 2382136436 raw bases.
6877548 reads have quality accounted for.
Loaded 6877548 454 reads.
Total reads loaded: 7202047
========================== Memory self assessment ==============================
Running in 64 bit mode.
Dump from /proc/meminfo
--------------------------------------------------------------------------------
MemTotal: 49302560 kB
MemFree: 139884 kB
Buffers: 103944 kB
Cached: 9654856 kB
SwapCached: 149552 kB
Active: 39744040 kB
Inactive: 8605284 kB
HighTotal: 0 kB
HighFree: 0 kB
LowTotal: 49302560 kB
LowFree: 139884 kB
SwapTotal: 49150856 kB
SwapFree: 48984400 kB
Dirty: 20 kB
Writeback: 0 kB
AnonPages: 38590224 kB
Mapped: 25456 kB
Slab: 630760 kB
PageTables: 80964 kB
NFS_Unstable: 0 kB
Bounce: 0 kB
CommitLimit: 73802136 kB
Committed_AS: 41996596 kB
VmallocTotal: 34359738367 kB
VmallocUsed: 287156 kB
VmallocChunk: 34359451203 kB
HugePages_Total: 0
HugePages_Free: 0
HugePages_Rsvd: 0
Hugepagesize: 2048 kB
--------------------------------------------------------------------------------
Dump from /proc/self/status
--------------------------------------------------------------------------------
Name: mira
State: R (running)
SleepAVG: 78%
Tgid: 12108
Pid: 12108
PPid: 12040
TracerPid: 0
Uid: 1238763 1238763 1238763 1238763
Gid: 1238763 1238763 1238763 1238763
FDSize: 256
Groups: 100 515 569 30018 1133648 1238763
VmPeak: 27960604 kB
VmSize: 27960604 kB
VmLck: 0 kB
VmHWM: 27943304 kB
VmRSS: 27943304 kB
VmData: 27955988 kB
VmStk: 88 kB
VmExe: 4492 kB
VmLib: 0 kB
VmPTE: 54616 kB
StaBrk: 0a7d2000 kB
Brk: 6b4c36000 kB
StaStk: 7fffe6e09cf0 kB
Threads: 1
SigQ: 0/409600
SigPnd: 0000000000000000
ShdPnd: 0000000000000000
SigBlk: 0000000000000000
SigIgn: 0000000000000000
SigCgt: 0000000180000000
CapInh: 0000000000000000
CapPrm: 0000000000000000
CapEff: 0000000000000000
Cpus_allowed:
00000000,00000000,00000000,00000000,00000000,00000000,00000000,ffffffff
Mems_allowed: 00000000,00000003
--------------------------------------------------------------------------------
Information on current assembly object:
AS_readpool: 7202047 reads.
AS_contigs: 0 contigs.
AS_bbcontigs: 0 contigs.
Mem used for reads: 25420883952 (23.7 GiB)
Memory used in assembly structures:
Eff. Size Free cap. LostByAlign
AS_writtenskimhitsperid: 0 24 B 0 B 0 B
AS_skim_edges: 0 24 B 0 B 0 B
AS_adsfacts: 0 24 B 0 B 0 B
AS_confirmed_edges: 0 24 B 0 B 0 B
AS_permanent_overlap_bans: 0 24 B 0 B 0 B
AS_readhitmiss: 0 24 B 0 B 0 B
AS_readhmcovered: 0 24 B 0 B 0 B
AS_count_rhm: 0 24 B 0 B 0 B
AS_clipleft: 0 24 B 0 B 0 B
AS_clipright: 0 24 B 0 B 0 B
AS_used_ids: 0 24 B 0 B 0 B
AS_multicopies: 0 24 B 0 B 0 B
AS_hasmcoverlaps: 0 24 B 0 B 0 B
AS_maxcoveragereached: 0 24 B 0 B 0 B
AS_coverageperseqtype: 0 24 B 0 B 0 B
AS_istroublemaker: 0 24 B 0 B 0 B
AS_isdebris: 0 24 B 0 B 0 B
AS_needalloverlaps: 0 40 B 0 B 0 B
AS_readsforrepeatresolve: 0 40 B 0 B 0 B
AS_allrmbsok: 0 24 B 0 B 0 B
AS_probablermbsnotok: 0 24 B 0 B 0 B
AS_weakrmbsnotok: 0 24 B 0 B 0 B
AS_readmaytakeskim: 0 40 B 0 B 0 B
AS_skimstaken: 0 40 B 0 B 0 B
AS_numskimoverlaps: 0 24 B 0 B 0 B
AS_numleftextendskims: 0 24 B 0 B 0 B
AS_rightextendskims: 0 24 B 0 B 0 B
AS_skimleftextendratio: 0 24 B 0 B 0 B
AS_skimrightextendratio: 0 24 B 0 B 0 B
AS_usedlogfiles: 3 112 B 0 B 0 B
Total: 25420884824 (23.7 GiB)
================================================================================
Localtime: Sun Jul 18 19:18:49 2010
Checking SCF files (loading qualities only if needed):
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Done.
0 SCF files loaded ok.
7202047 SCF files were not found (see
'EACh_assembly/EACh_d_log/EACh_info_scfreadfail.0' for a list of names).
Checking reads for trace data:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
No SCF data present in any read, automatic contig editing for Sanger data is
now switched off.
7202047 reads with valid data for assembly.
Localtime: Sun Jul 18 19:18:59 2010
Generated 7202047 unique template ids for 7202047 valid reads.
No useful template information found, template routines will not be used.
Localtime: Sun Jul 18 19:19:10 2010
Generated 0 unique strain ids for 7202047 reads.
Strain "default" has 7202047 reads.
Have read pool with 7202047 reads.
===========================================================================
Pool statistics:
Backbones: 0 Backbone rails: 0
Sanger 454 PacBio Solexa SOLiD
----------------------------------------
Total reads 324499 6877548 0 0 0
Reads wo qual 0 0 0 0 0
Used reads 323850 6877548 0 0 0
Avg tot rlen 680 346 0 0 0
Avg rlen used 681 346 0 0 0
With strain 0 0 0 0 0
W/o clips 0 6877548 0 0 0
===========================================================================
Starting clips: done.
Clipping or tagging poly A/T stretches at ends of reads ... done.
===========================================================================
Pool statistics:
Backbones: 0 Backbone rails: 0
Sanger 454 PacBio Solexa SOLiD
----------------------------------------
Total reads 324499 6877548 0 0 0
Reads wo qual 0 0 0 0 0
Used reads 314496 6875146 0 0 0
Avg tot rlen 680 346 0 0 0
Avg rlen used 652 346 0 0 0
With strain 0 0 0 0 0
W/o clips 0 6869961 0 0 0
===========================================================================
Writing temporary hstat files:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%] tcmalloc: large alloc 9056743424 bytes == 0x6d6847000 @
done
Analysing hstat files:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%] tcmalloc: large alloc 2152730624 bytes == 0x6d6847000 @
Hash statistics:
=========================================================
Measured avg. frequency coverage: 17
Deduced thresholds:
-------------------
Min normal cov: 6.8
Max normal cov: 27.2
Repeat cov: 32.3
Heavy cov: 136.0
Crazy cov: 340.0
Mask cov: 1700
Repeat ratio histogram:
-----------------------
0 85566484
1 28250620
2 7903904
3 3760746
4 2147286
5 1335790
6 907852
7 669462
8 497962
9 382398
10 307698
11 259280
12 218256
13 184280
14 159818
15 137948
16 115544
17 105076
18 94668
19 85322
20 76786
21 68620
22 61568
23 56516
24 51468
25 44998
26 40792
27 38420
28 34510
29 34612
30 31632
31 29124
32 26226
33 24928
34 22904
35 23402
36 19636
37 19222
38 18506
39 17986
40 17236
41 16930
42 16194
43 15802
44 15138
45 14620
46 13062
47 12386
48 12100
49 11638
50 10904
51 9960
52 9818
53 9284
54 9354
55 8660
56 8186
57 7646
58 7088
59 7654
60 6974
61 7328
62 7658
63 6486
64 6078
65 6154
66 6058
67 5342
68 5372
69 5458
70 4918
71 4684
72 5140
73 4826
74 4380
75 4260
76 4196
77 4030
78 4028
79 3860
80 3910
81 3692
82 3632
83 3546
84 3446
85 3576
86 3380
87 3062
88 3012
89 2936
90 2808
91 2596
92 2652
93 2340
94 2382
95 2404
96 2074
97 2162
98 2282
99 2360
100 2186
101 1992
102 1932
103 1738
104 1784
105 2196
106 1968
107 2024
108 2396
109 2144
110 1956
111 1886
112 1992
113 2032
114 2018
115 2050
116 1954
117 1922
118 1828
119 1758
120 1742
121 1814
122 1860
123 2168
124 2056
125 1838
126 1784
127 1552
128 1600
129 1556
130 1626
131 1566
132 1534
133 1584
134 1558
135 1660
136 1490
137 1656
138 1766
139 1608
140 1518
141 1452
142 1386
143 1506
144 1418
145 1704
146 1582
147 1600
148 1702
149 1518
150 1456
151 1414
152 1546
153 1352
154 1316
155 1284
156 1224
157 1288
158 1310
159 1322
160 1318
161 1256
162 1190
163 1122
164 1212
165 1190
166 1224
167 1214
168 1130
169 1302
170 1150
171 1062
172 1208
173 1164
174 990
175 1110
176 982
177 1066
178 1014
179 1194
180 1200
181 1178
182 1012
183 1084
184 1184
185 1204
186 1160
187 1054
188 1016
189 972
190 1098
191 1106
192 936
193 974
194 852
195 944
196 840
197 892
198 930
199 830
200 684
201 842
202 834
203 908
204 722
205 682
206 758
207 884
208 854
209 818
210 790
211 796
212 716
213 690
214 760
215 754
216 608
217 772
218 718
219 614
220 742
221 806
222 830
223 708
224 822
225 738
226 890
227 948
228 864
229 814
230 800
231 740
232 736
233 746
234 692
235 692
236 674
237 668
238 682
239 730
240 716
241 764
242 728
243 648
244 876
245 756
246 732
247 754
248 650
249 698
250 782
251 598
252 562
253 660
254 650
255 584
256 562
257 664
258 638
259 568
260 524
261 568
262 562
263 486
264 548
265 572
266 532
267 556
268 496
269 594
270 590
271 520
272 404
273 478
274 462
275 438
276 420
277 368
278 440
279 432
280 432
281 460
282 422
283 412
284 494
285 532
286 462
287 376
288 378
289 392
290 344
291 426
292 392
293 402
294 388
295 378
296 378
297 390
298 420
299 368
300 408
301 388
302 420
303 410
304 380
305 404
306 318
307 350
308 404
309 376
310 438
311 434
312 530
313 468
314 394
315 358
316 394
317 406
318 424
319 424
320 428
321 424
322 346
323 366
324 374
325 404
326 382
327 312
328 352
329 402
330 406
331 348
332 390
333 454
334 338
335 324
336 318
337 338
338 288
339 314
340 302
341 320
342 352
343 336
344 338
345 312
346 336
347 300
348 228
349 266
350 322
351 330
352 290
353 304
354 284
355 276
356 282
357 276
358 280
359 262
360 258
361 272
362 258
363 198
364 222
365 254
366 270
367 280
368 314
369 310
370 324
371 300
372 292
373 366
374 290
375 274
376 294
377 252
378 250
379 306
380 316
381 230
382 290
383 238
384 322
385 276
386 288
387 264
388 316
389 262
390 284
391 276
392 324
393 330
394 258
395 292
396 316
397 320
398 298
399 316
400 258
401 318
402 296
403 332
404 264
405 264
406 204
407 238
408 294
409 240
410 238
411 276
412 290
413 286
414 238
415 254
416 202
417 210
418 182
419 218
420 208
421 172
422 228
423 176
424 184
425 180
426 214
427 210
428 188
429 224
430 212
431 264
432 294
433 236
434 256
435 228
436 208
437 180
438 222
439 216
440 216
441 216
442 186
443 200
444 178
445 164
446 186
447 194
448 190
449 242
450 230
451 194
452 170
453 146
454 206
455 202
456 182
457 166
458 156
459 188
460 196
461 178
462 148
463 174
464 202
465 164
466 124
467 182
468 140
469 196
470 218
471 184
472 154
473 188
474 166
475 172
476 200
477 144
478 174
479 182
480 224
481 182
482 184
483 210
484 242
485 198
486 216
487 176
488 138
489 194
490 170
491 190
492 186
493 186
494 216
495 234
496 234
497 196
498 176
499 188
500 200
501 196
502 202
503 240
504 252
505 204
506 230
507 182
508 208
509 198
510 208
511 214
512 252
513 188
514 204
515 216
516 214
517 166
518 204
519 200
520 220
521 200
522 190
523 208
524 206
525 156
526 188
527 160
528 184
529 206
530 142
531 194
532 196
533 150
534 148
535 210
536 154
537 172
538 186
539 152
540 224
541 196
542 180
543 152
544 126
545 134
546 136
547 112
548 136
549 144
550 118
551 120
552 114
553 126
554 142
555 138
556 142
557 152
558 108
559 108
560 110
561 116
562 104
563 108
564 136
565 122
566 116
567 100
568 74
569 98
570 90
571 106
572 104
573 88
574 110
575 90
576 134
577 136
578 114
579 90
580 96
581 140
582 92
583 114
584 104
585 96
586 96
587 100
588 114
589 76
590 90
591 96
592 126
593 74
594 108
595 80
596 94
597 122
598 128
599 116
600 110
601 136
602 96
603 96
604 120
605 84
606 102
607 94
608 122
609 74
610 102
611 116
612 88
613 82
614 122
615 90
616 122
617 120
618 96
619 108
620 120
621 136
622 96
623 94
624 106
625 112
626 134
627 130
628 108
629 146
630 88
631 120
632 136
633 144
634 84
635 84
636 132
637 160
638 116
639 112
640 130
641 106
642 112
643 102
644 114
645 86
646 102
647 94
648 104
649 82
650 104
651 80
652 80
653 76
654 84
655 72
656 102
657 96
658 74
659 96
660 72
661 64
662 68
663 96
664 100
665 116
666 70
667 90
668 122
669 82
670 90
671 90
672 96
673 80
674 82
675 86
676 106
677 100
678 104
679 104
680 94
681 84
682 92
683 86
684 106
685 90
686 82
687 92
688 88
689 80
690 80
691 90
692 82
693 94
694 86
695 98
696 74
697 80
698 82
699 78
700 70
701 84
702 52
703 94
704 86
705 58
706 78
707 90
708 98
709 88
710 82
711 68
712 80
713 96
714 94
715 84
716 88
717 78
718 98
719 92
720 88
721 100
722 88
723 70
724 78
725 84
726 78
727 82
728 48
729 50
730 116
731 84
732 58
733 76
734 54
735 40
736 62
737 74
738 48
739 76
740 74
741 70
742 102
743 86
744 78
745 92
746 108
747 64
748 86
749 44
750 54
751 78
752 80
753 86
754 84
755 60
756 66
757 68
758 72
759 68
760 118
761 70
762 86
763 92
764 108
765 114
766 82
767 80
768 70
769 54
770 64
771 78
772 68
773 62
774 48
775 66
776 70
777 66
778 82
779 58
780 64
781 56
782 86
783 88
784 88
785 76
786 106
787 110
788 96
789 82
790 98
791 70
792 96
793 62
794 82
795 56
796 52
797 78
798 92
799 84
800 74
801 66
802 70
803 76
804 70
805 76
806 90
807 86
808 106
809 94
810 84
811 84
812 88
813 62
814 72
815 50
816 98
817 96
818 82
819 78
820 76
821 54
822 84
823 60
824 58
825 90
826 76
827 88
828 88
829 72
830 44
831 70
832 70
833 58
834 50
835 52
836 66
837 42
838 58
839 62
840 36
841 64
842 102
843 86
844 76
845 80
846 86
847 86
848 74
849 60
850 78
851 68
852 44
853 40
854 58
855 68
856 56
857 44
858 60
859 52
860 34
861 52
862 46
863 54
864 42
865 68
866 56
867 42
868 32
869 52
870 42
871 58
872 30
873 42
874 46
875 52
876 50
877 64
878 70
879 46
880 78
881 48
882 58
883 42
884 64
885 78
886 60
887 80
888 88
889 66
890 62
891 46
892 64
893 50
894 56
895 68
896 42
897 38
898 36
899 26
900 26
901 18
902 38
903 26
904 42
905 32
906 56
907 54
908 50
909 46
910 38
911 50
912 50
913 22
914 58
915 40
916 38
917 44
918 60
919 26
920 24
921 22
922 16
923 28
924 22
925 36
926 18
927 24
928 36
929 50
930 54
931 36
932 46
933 60
934 40
935 30
936 28
937 14
938 14
939 28
940 14
941 20
942 26
943 14
944 24
945 22
946 24
947 18
948 18
949 22
950 32
951 22
952 34
953 42
954 26
955 40
956 38
957 38
958 20
959 18
960 28
961 34
962 44
963 26
964 52
965 34
966 30
967 32
968 36
969 28
970 44
971 32
972 36
973 42
974 38
975 36
976 28
977 48
978 40
979 38
980 36
981 28
982 26
983 30
984 54
985 38
986 28
987 30
988 38
989 42
990 36
991 32
992 38
993 40
994 32
995 38
996 40
997 56
998 38
999 44
1000 60
1001 56
1002 54
1003 56
1004 48
1005 56
1006 40
1007 48
1008 30
1009 54
1010 32
1011 32
1012 46
1013 40
1014 24
1015 42
1016 26
1017 34
1018 30
1019 30
1020 28
1021 40
1022 28
1023 34
1024 38
1025 32
1026 18
1027 24
1028 14
1029 10
1030 14
1031 26
1032 20
1033 34
1034 20
1035 28
1036 42
1037 30
1038 12
1039 16
1040 18
1041 14
1042 22
1043 20
1044 28
1045 18
1046 20
1047 30
1048 10
1049 26
1050 16
1051 30
1052 28
1053 24
1054 20
1055 24
1056 30
1057 38
1058 18
1059 32
1060 20
1061 30
1062 22
1063 26
1064 30
1065 28
1066 26
1067 18
1068 18
1069 34
1070 34
1071 16
1072 24
1073 22
1074 30
1075 16
1076 26
1077 18
1078 34
1079 20
1080 18
1081 12
1082 16
1083 8
1084 16
1085 16
1086 14
1087 14
1088 6
1089 16
1090 14
1091 12
1092 14
1093 8
1094 10
1095 2
1096 10
1097 12
1098 8
1099 12
1100 10
1101 10
1102 14
1103 6
1104 20
1105 14
1106 18
1107 16
1108 12
1109 10
1110 16
1111 14
1112 24
1113 12
1114 12
1115 6
1116 18
1117 12
1118 4
1119 16
1120 14
1121 20
1122 18
1123 20
1124 14
1125 20
1126 30
1127 26
1128 14
1129 24
1130 22
1131 18
1132 14
1133 10
1134 6
1135 12
1136 14
1137 20
1138 12
1139 20
1140 10
1141 8
1142 8
1143 14
1144 20
1145 22
1146 14
1147 10
1148 18
1149 16
1150 10
1151 12
1152 2
1153 4
1154 10
1155 2
1156 12
1157 6
1158 6
1159 10
1160 12
1161 26
1162 18
1163 14
1164 14
1165 22
1166 16
1167 14
1168 20
1169 20
1170 8
1171 26
1172 24
1173 16
1174 22
1175 28
1176 14
1177 30
1178 24
1179 12
1180 14
1182 6
1183 14
1184 4
1185 12
1186 10
1187 2
1188 12
1189 10
1190 12
1191 6
1192 18
1193 14
1194 8
1195 8
1196 8
1198 8
1199 6
1200 2
1201 22
1202 8
1203 2
1204 6
1205 2
1206 14
1207 8
1208 14
1209 16
1210 18
1211 14
1212 14
1213 12
1214 10
1215 12
1216 4
1217 12
1218 10
1219 8
1220 16
1221 8
1222 14
1223 16
1224 14
1225 12
1226 10
1227 14
1228 16
1229 14
1230 10
1231 10
1232 12
1233 10
1234 8
1235 6
1236 12
1237 18
1238 2
1239 8
1240 2
1241 8
1242 8
1243 10
1244 6
1245 16
1246 6
1247 4
1248 10
1249 10
1250 2
1251 12
1252 16
1253 10
1254 4
1255 16
1256 12
1257 12
1258 12
1259 10
1260 6
1261 12
1262 8
1263 28
1264 10
1265 10
1266 22
1267 16
1268 12
1269 14
1270 8
1271 12
1272 8
1273 14
1274 16
1275 24
1276 8
1277 26
1278 12
1279 10
1280 10
1281 6
1282 10
1283 16
1284 8
1285 8
1286 4
1287 6
1288 12
1289 16
1290 24
1291 16
1292 2
1293 6
1294 16
1295 20
1296 20
1297 8
1298 8
1299 12
1300 14
1301 10
1302 14
1303 8
1304 16
1305 12
1306 10
1307 14
1308 4
1309 14
1310 12
1311 12
1312 4
1313 4
1314 10
1315 14
1316 4
1317 10
1318 26
1319 12
1320 14
1321 20
1322 12
1323 28
1324 8
1325 12
1326 12
1327 12
1328 8
1329 4
1330 4
1331 8
1332 8
1333 6
1334 14
1335 8
1336 4
1337 8
1338 10
1339 6
1340 8
1341 10
1342 4
1343 8
1344 14
1345 14
1346 8
1347 4
1348 18
1349 4
1350 16
1351 20
1352 10
1353 10
1354 24
1355 12
1356 12
1357 14
1358 10
1359 30
1360 26
1361 38
1362 20
1363 32
1364 20
1365 22
1366 20
1367 20
1368 14
1369 14
1370 18
1371 22
1372 28
1373 26
1374 16
1375 16
1376 26
1377 20
1378 18
1379 10
1380 18
1381 8
1382 16
1383 14
1384 8
1385 16
1386 10
1387 16
1388 24
1389 20
1390 10
1391 16
1392 20
1393 6
1394 12
1395 10
1396 20
1397 14
1398 22
1399 12
1400 2
1401 22
1402 10
1403 14
1404 18
1405 24
1406 14
1407 12
1408 10
1409 16
1410 12
1411 22
1412 22
1413 22
1414 10
1415 20
1416 14
1417 14
1418 20
1419 12
1420 20
1421 6
1422 18
1423 8
1424 12
1425 8
1426 12
1427 4
1428 16
1429 6
1430 16
1431 8
1432 10
1433 8
1434 14
1435 12
1436 20
1437 4
1438 6
1439 14
1440 6
1441 12
1442 4
1443 24
1444 8
1445 18
1446 12
1447 4
1448 10
1449 4
1450 14
1451 4
1452 6
1453 10
1454 10
1455 2
1456 10
1457 22
1458 10
1459 4
1460 4
1462 10
1464 6
1465 2
1466 4
1467 2
1468 4
1469 8
1470 6
1471 16
1472 8
1473 10
1474 8
1475 16
1476 14
1477 12
1478 14
1479 18
1480 12
1481 10
1482 12
1483 8
1484 12
1485 10
1486 10
1487 16
1488 10
1489 8
1490 10
1491 12
1492 2
1493 2
1494 4
1496 4
1497 4
1498 4
1499 6
1500 2
1503 4
1504 6
1505 2
1506 2
1507 2
1509 6
1511 2
1512 2
1513 6
1514 4
1515 4
1516 2
1517 6
1518 14
1520 2
1521 6
1522 6
1523 10
1524 8
1528 6
1529 8
1530 10
1531 2
1532 6
1533 4
1534 6
1535 6
1536 12
1537 8
1538 6
1539 10
1540 8
1541 16
1542 18
1543 4
1544 10
1545 4
1546 8
1547 12
1548 2
1549 12
1550 14
1551 16
1552 4
1553 10
1555 4
1556 6
1557 2
1558 4
1559 10
1560 8
1561 6
1562 8
1563 2
1564 12
1565 6
1566 2
1567 4
1568 2
1569 8
1571 10
1573 8
1574 4
1575 4
1576 2
1577 2
1578 6
1579 4
1580 4
1581 2
1582 2
1583 2
1585 2
1587 2
1588 2
1589 2
1590 2
1591 2
1592 2
1593 4
1594 2
1595 4
1597 2
1598 2
1599 4
1601 4
1602 8
1603 4
1604 6
1605 8
1606 6
1607 6
1608 6
1609 2
1611 2
1612 2
1613 4
1614 8
1615 6
1616 6
1617 6
1619 2
1620 4
1621 4
1622 6
1623 4
1625 6
1626 6
1629 2
1630 4
1631 4
1632 4
1633 2
1636 6
1637 2
1638 2
1639 4
1640 2
1641 2
1642 2
1643 2
1645 2
1647 6
1648 2
1649 4
1652 2
1653 2
1654 4
1656 6
1658 8
1660 12
1661 6
1662 4
1664 4
1665 4
1666 4
1667 12
1668 8
1669 4
1670 8
1671 4
1672 4
1673 6
1674 8
1675 2
1676 6
1677 2
1678 10
1679 4
1680 2
1682 6
1683 2
1684 2
1685 2
1686 2
1687 2
1688 2
1690 2
1691 2
1695 4
1696 2
1698 2
1702 6
1706 4
1708 2
1709 2
1710 2
1714 4
1717 2
1719 2
1721 2
1722 4
1723 2
1724 4
1725 6
1726 4
1727 2
1729 4
1730 6
1731 2
1732 2
1733 2
1734 4
1736 8
1737 2
1738 2
1740 2
1741 2
1743 4
1744 2
1745 6
1748 4
1749 2
1750 2
1751 6
1752 4
1753 4
1754 2
1755 2
1756 6
1758 2
1759 4
1760 4
1761 2
1762 4
1763 4
1764 6
1765 8
1766 6
1767 4
1768 4
1769 6
1770 8
1771 8
1772 2
1773 8
1774 2
1776 4
1778 2
1779 2
1780 4
1783 4
1784 6
1785 4
1786 4
1787 2
1789 4
1791 2
1793 2
1795 6
1799 4
1800 8
1801 4
1802 4
1803 2
1805 4
1806 4
1807 2
1808 2
1809 2
1810 2
1811 2
1812 2
1813 6
1814 2
1815 4
1816 8
1817 2
1818 8
1821 4
1823 2
1824 4
1826 2
1827 2
1828 4
1831 6
1833 4
1835 2
1841 4
1842 2
1844 2
1849 2
1850 2
1855 4
1856 4
1857 2
1861 2
1863 2
1868 2
1870 4
1871 2
1872 4
1873 2
1874 4
1875 4
1876 2
1877 4
1878 6
1879 2
1881 4
1882 8
1883 4
1885 2
1886 4
1888 2
1895 4
1896 2
1899 2
1900 4
1905 2
1907 2
1908 2
1909 2
1911 6
1915 2
1916 4
1917 2
1918 10
1919 8
1920 8
1921 4
1922 2
1923 2
1924 6
1925 2
1926 2
1927 6
1930 4
1933 2
1937 4
1939 2
1940 4
1941 2
1943 2
1944 2
1945 2
1947 2
1949 2
1950 2
1955 2
1961 2
1963 6
1965 2
1966 4
1967 4
1968 6
1969 2
1970 4
1971 2
1972 12
1973 6
1974 8
1976 12
1977 2
1978 2
1979 6
1980 4
1984 4
1987 4
1989 2
1990 4
1991 6
1993 2
1994 6
1995 2
1998 2
1999 2
2001 2
2003 2
2006 2
2007 2
2008 2
2009 2
2010 4
2011 4
2012 4
2013 4
2014 6
2015 2
2016 8
2017 2
2018 8
2019 4
2020 2
2022 2
2024 2
2025 4
2027 4
2028 2
2030 2
2031 2
2032 2
2034 2
2035 2
2036 2
2038 4
2039 4
2040 2
2042 2
2043 2
2044 4
2045 6
2047 2
2049 2
2051 2
2052 6
2053 2
2055 2
2056 4
2061 6
2062 4
2064 2
2066 2
2068 4
2070 4
2071 4
2075 2
2079 2
2083 2
2096 2
2098 4
2103 2
2106 2
2112 2
2119 2
2125 2
2127 2
2134 2
2136 2
2138 2
2140 2
2143 4
2145 2
2146 2
2150 2
2151 2
2155 4
2156 4
2157 4
2158 2
2160 4
2161 4
2162 4
2163 4
2165 2
2166 2
2167 2
2168 2
2173 2
2177 4
2178 6
2179 4
2181 4
2183 4
2184 6
2185 2
2187 2
2188 2
2189 10
2190 6
2192 6
2194 2
2196 6
2198 4
2199 2
2200 8
2201 2
2204 2
2236 2
2247 2
2275 2
2302 2
2374 2
2458 2
2462 2
2466 4
2471 2
2478 4
2482 2
2500 2
2508 2
2513 2
2514 2
2539 2
2555 2
2564 2
2614 2
2616 2
2617 2
2622 2
2624 2
2625 2
2635 2
2637 2
2645 2
2652 2
2653 2
2672 2
2673 2
2689 2
2690 2
2691 2
2695 2
2696 2
2750 2
2756 2
2781 2
2798 2
2822 2
2825 2
2827 2
2829 2
2835 2
2836 2
2838 2
2842 2
2844 2
2879 2
2962 2
2964 2
2966 2
2970 2
2973 2
2979 4
3102 2
3113 2
3114 2
3118 2
3120 2
3131 2
3132 2
3137 2
3159 2
3161 4
3162 6
3163 2
3164 2
3165 4
3167 2
3169 2
3170 2
3188 2
3190 2
3192 2
3230 2
3302 2
3307 2
3310 2
3417 2
3418 6
3421 2
3422 2
3423 2
3427 4
3429 4
3431 2
3546 2
3548 2
3549 2
3562 2
3567 2
3612 2
3617 2
3625 2
3647 2
3654 2
3680 2
3697 2
3700 2
3714 2
3716 2
3746 2
3755 2
3765 4
3777 2
3795 2
3804 2
3822 2
3832 2
3856 2
3866 2
3871 2
3875 2
3878 2
3880 4
3881 2
3882 2
3884 2
3885 2
3899 4
3911 2
3916 2
3930 2
3955 2
3985 2
3988 2
3991 2
4016 2
4032 2
4050 2
4079 2
4099 2
4101 2
4102 2
4114 4
4143 2
4151 2
4168 2
4170 2
4175 2
4176 2
4177 8
4182 2
4183 2
4193 2
4199 2
4206 4
4233 2
4245 2
4283 2
4304 2
4318 2
4319 2
4324 2
4368 2
4372 2
4395 2
4471 2
4478 2
4486 2
4488 2
4497 2
4506 2
4547 2
4564 2
4570 4
4712 2
4724 4
4725 2
4733 2
4746 2
4748 2
4749 2
4755 4
4767 2
4782 4
4786 2
4787 4
4789 2
4790 4
4794 2
4795 2
4802 2
5000 2
5001 2
5172 2
5173 2
5186 2
5536 2
5547 2
5551 2
5562 2
5564 2
5590 2
11788 2
11888 2
=========================================================
Assigning statistics values:
Localtime: Sun Jul 18 20:34:40 2010
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%]
Localtime: Sun Jul 18 20:59:10 2010
Searching for possible overlaps:
Localtime: Sun Jul 18 20:59:10 2010
Now running threaded and partitioned skimmer with 173 partitions in 2 threads:
[0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|....
[50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|....
[100%] done.
Skim summary:
accepted: 3726180367
possible: 2010627169
permbans: 0
Hits chosen: 364942277
Localtime: Fri Jul 23 22:42:42 2010
Total megahubs: 0
System memory: 50485821440
Mem2keepfree: 7572873216
Used by MIRA: 38272528384
Mem avail: 4640419840
rsh increased memtouse to: 4640419840
DBG: TSH 17909753738
Max seen block 1: 145040516
Max num skim edges: 145013120
tcmalloc: large alloc 4641300480 bytes == 0x6d6847000 @
Can load up to 145040516 skim edges at once.
Partitioning into 124 blocks.
Max seen block 2: 145040516
tcmalloc: large alloc 2238722048 bytes == 0x7eb291000 @
We have 17909753738 skims in file.
Has short reads: 0
Localtime: Fri Jul 23 22:42:51 2010
De-normalising SKIM hits ... (this will take a while)
Loading skims in id range 0 to 18833
========================== Memory self assessment ==============================
Running in 64 bit mode.
Dump from /proc/meminfo
--------------------------------------------------------------------------------
MemTotal: 49302560 kB
MemFree: 140008 kB
Buffers: 1180 kB
Cached: 25316328 kB
SwapCached: 10528912 kB
Active: 23544852 kB
Inactive: 25296952 kB
HighTotal: 0 kB
HighFree: 0 kB
LowTotal: 49302560 kB
LowFree: 140008 kB
SwapTotal: 49150856 kB
SwapFree: 24575428 kB
Dirty: 116 kB
Writeback: 0 kB
AnonPages: 23523236 kB
Mapped: 20728 kB
Slab: 140472 kB
PageTables: 78628 kB
NFS_Unstable: 0 kB
Bounce: 0 kB
CommitLimit: 73802136 kB
Committed_AS: 40922728 kB
VmallocTotal: 34359738367 kB
VmallocUsed: 287156 kB
VmallocChunk: 34359451203 kB
HugePages_Total: 0
HugePages_Free: 0
HugePages_Rsvd: 0
Hugepagesize: 2048 kB
--------------------------------------------------------------------------------
Dump from /proc/self/status
--------------------------------------------------------------------------------
Name:
Other related posts:
