[BioMart Users] Fwd: Your BioMart results are ready

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[BioMart Users] Fwd: Your BioMart results are ready

prateek b
Hello,

I tried many times but I am unable to download the data. Following is the description of the dataset I am trying to download.
Dataset
HapMap Population CEU - Utah residents with Northern and Western European ancestry from the CEPH collection
Filters
[None selected]
Attributes
chromosome
position
strand
marker id
alleles
reference allele
genotyping center
genotyping platform
reference allele
reference allele frequency
reference allele count
other allele
other allele frequency
other allele count
total allele count

Thank you,
-Prateek Bondala
PhD Student
Bio Medical Informatics Department
University of Utah

---------- Forwarded message ----------
From: <[hidden email]>
Date: Tue, Feb 1, 2011 at 10:28 PM
Subject: Your BioMart results are ready
To: [hidden email]


Your results file FAILED.

Here is the reason why:

Error during query execution: Lost connection to MySQL server during query


Trace begun at /usr/local/biomart-perl/lib/BioMart/Dataset/TableSet.pm line 241
BioMart::Dataset::TableSet::_fillAttributeTableWith('BioMart::Dataset::TableSet=HASH(0x2b54b2cc7d80)', 'BioMart::Query=HASH(0x2b54b684be50)', 'BioMart::ResultTable=HASH(0x2b54b685b580)', 6400, 6400) called at /usr/local/biomart-perl/lib/BioMart/Dataset/TableSet.pm line 124
BioMart::Dataset::TableSet::_getResultTable('BioMart::Dataset::TableSet=HASH(0x2b54b2cc7d80)', 'query', 'BioMart::Query=HASH(0x2b54b684be50)', 'batch_start', 6400, 'table', 'BioMart::ResultTable=HASH(0x2b54b685b580)', 'batch_size', 6400) called at /usr/local/biomart-perl/lib/BioMart/DatasetI.pm line 1170
BioMart::DatasetI::getResultTable('BioMart::Dataset::TableSet=HASH(0x2b54b2cc7d80)', 'batch_start', 6400, 'query', 'BioMart::Query=HASH(0x2b54b684be50)', 'table', 'BioMart::ResultTable=HASH(0x2b54b685b580)', 'batch_size', 6400) called at /usr/local/biomart-perl/lib/BioMart/ResultTable.pm line 195
BioMart::ResultTable::_getBatch('BioMart::ResultTable=HASH(0x2b54b685b580)') called at /usr/local/biomart-perl/lib/BioMart/ResultTable.pm line 247
BioMart::ResultTable::hasMoreRows('BioMart::ResultTable=HASH(0x2b54b685b580)') called at /usr/local/biomart-perl/lib/BioMart/AttributeTable.pm line 169
BioMart::AttributeTable::nextRow('BioMart::ResultTable=HASH(0x2b54b685b580)') called at /usr/local/biomart-perl/lib/BioMart/ResultTable.pm line 256
BioMart::ResultTable::nextRow('BioMart::ResultTable=HASH(0x2b54b685b580)') called at /usr/local/biomart-perl/lib/BioMart/Formatter/CSV.pm line 83
BioMart::Formatter::CSV::nextRow('BioMart::Formatter::CSV=HASH(0x2b54b68c2460)') called at /usr/local/biomart-perl/lib/BioMart/QueryRunner.pm line 259
BioMart::QueryRunner::printResults('BioMart::QueryRunner=HASH(0x2b54b48baa30)', 'BioMart::Web::Zlib=GLOB(0x2b54b62c8d90)', undef) called at /usr/local/biomart-perl/lib/BioMart/Web.pm line 2304
eval {...} at /usr/local/biomart-perl/lib/BioMart/Web.pm line 2291
eval {...} at /usr/local/biomart-perl/lib/BioMart/Web.pm line 2197
BioMart::Web::handle_request('BioMart::Web=HASH(0x2b54b4e574e0)', 'CGI=HASH(0x2b54b68c26c0)') called at /usr/local/biomart-perl/cgi-bin/martview line 96
eval {...} at /usr/local/biomart-perl/cgi-bin/martview line 95
ModPerl::ROOT::ModPerl::Registry::usr_local_biomart_2dperl_cgi_2dbin_martview::handler('Apache2::RequestRec=SCALAR(0x2b54b253f840)') called at /opt/perl-5.8.8/lib/vendor_perl/5.8.8/x86_64-linux/ModPerl/RegistryCooker.pm line 204
eval {...} at /opt/perl-5.8.8/lib/vendor_perl/5.8.8/x86_64-linux/ModPerl/RegistryCooker.pm line 204
ModPerl::RegistryCooker::run('ModPerl::Registry=HASH(0x2b54b67c1990)') called at /opt/perl-5.8.8/lib/vendor_perl/5.8.8/x86_64-linux/ModPerl/RegistryCooker.pm line 170
ModPerl::RegistryCooker::default_handler('ModPerl::Registry=HASH(0x2b54b67c1990)') called at /opt/perl-5.8.8/lib/vendor_perl/5.8.8/x86_64-linux/ModPerl/Registry.pm line 31
ModPerl::Registry::handler('ModPerl::Registry', 'Apache2::RequestRec=SCALAR(0x2b54b253f840)') called at -e line 0
eval {...} at -e line 0


Please try your request again, or alternatively contact your service provider
including a copy of this email and quoting this reference: martquery_0201222459_903.txt.gz.


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Re: [BioMart Users] Fwd: Your BioMart results are ready

Elena Rivkin

Prateek,

 

I tried recreating your query using the: Compressed web file (Notify by email) option, and was able to execute it.

 

Please let me know if you are still having trouble.

 

Thank you,

Elena

 

 

From: [hidden email] [mailto:[hidden email]] On Behalf Of prateek b
Sent: Wednesday, February 02, 2011 11:37 AM
To: [hidden email]
Subject: [BioMart Users] Fwd: Your BioMart results are ready

 

Hello,

 

I tried many times but I am unable to download the data. Following is the description of the dataset I am trying to download.

Dataset

HapMap Population CEU - Utah residents with Northern and Western European ancestry from the CEPH collection

Filters

[None selected]

Attributes

chromosome

position

strand

marker id

alleles

reference allele

genotyping center

genotyping platform

reference allele

reference allele frequency

reference allele count

other allele

other allele frequency

other allele count

total allele count

 

Thank you,

-Prateek Bondala

PhD Student

Bio Medical Informatics Department

University of Utah

---------- Forwarded message ----------
From: <[hidden email]>
Date: Tue, Feb 1, 2011 at 10:28 PM
Subject: Your BioMart results are ready
To: [hidden email]


Your results file FAILED.

Here is the reason why:

Error during query execution: Lost connection to MySQL server during query


Trace begun at /usr/local/biomart-perl/lib/BioMart/Dataset/TableSet.pm line 241
BioMart::Dataset::TableSet::_fillAttributeTableWith('BioMart::Dataset::TableSet=HASH(0x2b54b2cc7d80)', 'BioMart::Query=HASH(0x2b54b684be50)', 'BioMart::ResultTable=HASH(0x2b54b685b580)', 6400, 6400) called at /usr/local/biomart-perl/lib/BioMart/Dataset/TableSet.pm line 124
BioMart::Dataset::TableSet::_getResultTable('BioMart::Dataset::TableSet=HASH(0x2b54b2cc7d80)', 'query', 'BioMart::Query=HASH(0x2b54b684be50)', 'batch_start', 6400, 'table', 'BioMart::ResultTable=HASH(0x2b54b685b580)', 'batch_size', 6400) called at /usr/local/biomart-perl/lib/BioMart/DatasetI.pm line 1170
BioMart::DatasetI::getResultTable('BioMart::Dataset::TableSet=HASH(0x2b54b2cc7d80)', 'batch_start', 6400, 'query', 'BioMart::Query=HASH(0x2b54b684be50)', 'table', 'BioMart::ResultTable=HASH(0x2b54b685b580)', 'batch_size', 6400) called at /usr/local/biomart-perl/lib/BioMart/ResultTable.pm line 195
BioMart::ResultTable::_getBatch('BioMart::ResultTable=HASH(0x2b54b685b580)') called at /usr/local/biomart-perl/lib/BioMart/ResultTable.pm line 247
BioMart::ResultTable::hasMoreRows('BioMart::ResultTable=HASH(0x2b54b685b580)') called at /usr/local/biomart-perl/lib/BioMart/AttributeTable.pm line 169
BioMart::AttributeTable::nextRow('BioMart::ResultTable=HASH(0x2b54b685b580)') called at /usr/local/biomart-perl/lib/BioMart/ResultTable.pm line 256
BioMart::ResultTable::nextRow('BioMart::ResultTable=HASH(0x2b54b685b580)') called at /usr/local/biomart-perl/lib/BioMart/Formatter/CSV.pm line 83
BioMart::Formatter::CSV::nextRow('BioMart::Formatter::CSV=HASH(0x2b54b68c2460)') called at /usr/local/biomart-perl/lib/BioMart/QueryRunner.pm line 259
BioMart::QueryRunner::printResults('BioMart::QueryRunner=HASH(0x2b54b48baa30)', 'BioMart::Web::Zlib=GLOB(0x2b54b62c8d90)', undef) called at /usr/local/biomart-perl/lib/BioMart/Web.pm line 2304
eval {...} at /usr/local/biomart-perl/lib/BioMart/Web.pm line 2291
eval {...} at /usr/local/biomart-perl/lib/BioMart/Web.pm line 2197
BioMart::Web::handle_request('BioMart::Web=HASH(0x2b54b4e574e0)', 'CGI=HASH(0x2b54b68c26c0)') called at /usr/local/biomart-perl/cgi-bin/martview line 96
eval {...} at /usr/local/biomart-perl/cgi-bin/martview line 95
ModPerl::ROOT::ModPerl::Registry::usr_local_biomart_2dperl_cgi_2dbin_martview::handler('Apache2::RequestRec=SCALAR(0x2b54b253f840)') called at /opt/perl-5.8.8/lib/vendor_perl/5.8.8/x86_64-linux/ModPerl/RegistryCooker.pm line 204
eval {...} at /opt/perl-5.8.8/lib/vendor_perl/5.8.8/x86_64-linux/ModPerl/RegistryCooker.pm line 204
ModPerl::RegistryCooker::run('ModPerl::Registry=HASH(0x2b54b67c1990)') called at /opt/perl-5.8.8/lib/vendor_perl/5.8.8/x86_64-linux/ModPerl/RegistryCooker.pm line 170
ModPerl::RegistryCooker::default_handler('ModPerl::Registry=HASH(0x2b54b67c1990)') called at /opt/perl-5.8.8/lib/vendor_perl/5.8.8/x86_64-linux/ModPerl/Registry.pm line 31
ModPerl::Registry::handler('ModPerl::Registry', 'Apache2::RequestRec=SCALAR(0x2b54b253f840)') called at -e line 0
eval {...} at -e line 0


Please try your request again, or alternatively contact your service provider
including a copy of this email and quoting this reference: martquery_0201222459_903.txt.gz.

 


_______________________________________________
Users mailing list
[hidden email]
https://lists.biomart.org/mailman/listinfo/users