80 millions SNPs, track rendering error, timeout, try viewing a smaller region

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80 millions SNPs, track rendering error, timeout, try viewing a smaller region

EmanLee
Hi, everyone,
I loaded about 80 millions SNPs into GBrowse 2.55. I can view a SNP or a small region (100bp) on gbrowse.
However, it failed when viewing about 500bp or 1kbp region. The following is what I tested and configuration.

#======================
# TEST :
WEBSITE:
http://res.xaut.edu.cn/cgi-bin/gb2_dspsp/gbrowse/dspsp/

error,failed:
1:13,026,145..13,026,244
http://res.xaut.edu.cn/cgi-bin/gb2_dspsp/gbrowse/dspsp/?name=NUGGC

success:
1:82,234..82,534
http://res.xaut.edu.cn/cgi-bin/gb2_dspsp/gbrowse/dspsp/?name=SSCrs01000011459

#======================
# gff3: ( about 80,000,000 rows/features)
1    dspsp_general    SNP    12867    12867    .    +    .    ID=SSCrs01000012867;Name=SSCrs01000012867;Ref=T;Alt=G;dbSNPid=.
1    dspsp_general    SNP    12894    12894    .    +    .    ID=SSCrs01000012894;Name=SSCrs01000012894;Ref=A;Alt=C;dbSNPid=.
1    dspsp_general    SNP    26956    26956    .    +    .    ID=SSCrs01000026956;Name=SSCrs01000026956;Ref=C;Alt=G;dbSNPid=.
1    dspsp_general    SNP    42241    42241    .    +    .    ID=SSCrs01000042241;Name=SSCrs01000042241;Ref=T;Alt=G;dbSNPid=.
1    dspsp_general    SNP    53053    53053    .    +    .    ID=SSCrs01000053053;Name=SSCrs01000053053;Ref=T;Alt=A;dbSNPid=.
1    dspsp_general    SNP    72646    72646    .    +    .    ID=SSCrs01000072646;Name=SSCrs01000072646;Ref=A;Alt=G;dbSNPid=.
1    dspsp_general    SNP    76467    76467    .    +    .    ID=SSCrs01000076467;Name=SSCrs01000076467;Ref=T;Alt=A;dbSNPid=rs340612171
1    dspsp_general    SNP    76469    76469    .    +    .    ID=SSCrs01000076469;Name=SSCrs01000076469;Ref=A;Alt=C;dbSNPid=rs322594773

#======================
# config:
[dspsp_outgroup]
feature       = SNP:dspsp_outgroup
glyph         = triangle
point         = 1
orient        = N
height        = 6
bgcolor       = blue
fgcolor       = blue
key           = SNPs (outgroup)
category      = SNP

[dspsp_general]
feature       = SNP:dspsp_general
glyph         = triangle
point         = 1
orient        = N
height        = 6
bgcolor       = blue
fgcolor       = blue
key           = SNPs (general)
category      = SNP

#======================
# gbrowse.config:
slave_timeout          =200  
global_timeout         =300 
search_timeout         =200  

Thanks a lot!

Best wishes,
Mr Aimin Li
School of Computer Science and Technology,
Xidian University, Xi'an, China




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