[Galaxy-user] server error

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[Galaxy-user] server error

Ross Hardison
This error came up while trying to sort on column 5 of a file, the first several lines are:

chr7 115444940 115447120 3.222082 2180.0
chr7 115447433 115448233 2.294320 800.0
chr7 115448438 115449021 1.155959 583.0
chr7 115449882 115450724 1.604342 842.0
chr7 115451288 115452630 2.87653 1342.0
chr7 115453112 115454302 2.138354 1190.0
chr7 115457980 115458979 1.16 999.0
chr7 115463940 115465249 3.093321 1309.0
chr7 115473798 115474797 2 999.0
chr7 115505514 115506426 1.529573 912.0
chr7 115550504 115551734 5.27437 1230.0
chr7 115587898 115587933 1.25 35.0
chr7 115588088 115590342 3.762417 2254.0
chr7 115590672 115590934 1.5 262.0
chr7 115591492 115592337 1.16 845.0
chr7 115637298 115638032 1.5 734.0
chr7 115733400 115735454 5.649392 2054.0
chr7 115745332 115747197 4.390654 1865.0
chr7 115758594 115761798 4.289223 3204.0
chr7 115761893 115762754 1.919954 861.0
chr7 115810867 115811730 1.33 863.0
chr7 115816924 115817256 1.33 332.0
chr7 115822010 115823009 1.16 999.0
chr7 115826503 115827652 3.731661 1149.0
chr7 115848264 115848894 1.5 630.0
chr7 115861341 115861943 2.98 602.0
chr7 115864830 115866222 2.767889 1392.0
chr7 115866396 115866788 1.670789 392.0
chr7 115905030 115908212 4.927685 3182.0
chr7 115908466 115909276 2.786252 810.0
chr7 115920701 115921284 1.33 583.0
chr7 115921462 115921700 2 238.0
chr7 115932824 115933280 1.268972 456.0
chr7 115938942 115939561 1.33 619.0
chr7 115940006 115942238 2.228168 2232.0
chr7 115950570 115951532 2.781931 962.0
chr7 116006585 116007584 1.26151 999.0
chr7 116012092 116012712 1.724638 620.0
chr7 116031529 116032528 1.1695 999.0


Server Error

Module paste.exceptions.errormiddleware:138 in __call__
Module paste.lint:65 in lint_app
Module flup.middleware.session:743 in __call__
Module paste.recursive:54 in __call__
Module paste.httpexceptions:619 in __call__
Module paste.wsgilib:112 in catch_errors_app
Module galaxy.web.framework:104 in __call__
>>  body = method( trans, **kwargs )
Module galaxy.interfaces.root:90 in display
>>  return open( data.file_name )
exceptions.IOError: [Errno 2] No such file or directory: './database/files/dataset_609.dat'

Ross Hardison                                             
T. Ming Chu Professor of Biochemistry and Molecular Biology
The Pennsylvania State University
304 Wartik Laboratory
University Park, PA 16802
phone: 814-863-0113              FAX: 814-863-7024





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Re: server error

Anton Nekrutenko
Ross:

We are having some difficulties with the galaxy db.  Old sites should  
work OK.

anton


Anton Nekrutenko
Assistant Professor
Department of Biochemistry and Molecular Biology
Center for Comparative Genomics and Bioinformatics
505 Wartik Building
PennState University
University Park, PA 16802
814 865-4752
814 863-6699 FAX
[hidden email]
http://www.bx.psu.edu/~anton
http://g2.bx.psu.edu


On Apr 21, 2006, at 9:49 AM, Ross Hardison wrote:

> This error came up while trying to sort on column 5 of a file, the  
> first several lines are:
>
> chr7 115444940 115447120 3.222082 2180.0
> chr7 115447433 115448233 2.294320 800.0
> chr7 115448438 115449021 1.155959 583.0
> chr7 115449882 115450724 1.604342 842.0
> chr7 115451288 115452630 2.87653 1342.0
> chr7 115453112 115454302 2.138354 1190.0
> chr7 115457980 115458979 1.16 999.0
> chr7 115463940 115465249 3.093321 1309.0
> chr7 115473798 115474797 2 999.0
> chr7 115505514 115506426 1.529573 912.0
> chr7 115550504 115551734 5.27437 1230.0
> chr7 115587898 115587933 1.25 35.0
> chr7 115588088 115590342 3.762417 2254.0
> chr7 115590672 115590934 1.5 262.0
> chr7 115591492 115592337 1.16 845.0
> chr7 115637298 115638032 1.5 734.0
> chr7 115733400 115735454 5.649392 2054.0
> chr7 115745332 115747197 4.390654 1865.0
> chr7 115758594 115761798 4.289223 3204.0
> chr7 115761893 115762754 1.919954 861.0
> chr7 115810867 115811730 1.33 863.0
> chr7 115816924 115817256 1.33 332.0
> chr7 115822010 115823009 1.16 999.0
> chr7 115826503 115827652 3.731661 1149.0
> chr7 115848264 115848894 1.5 630.0
> chr7 115861341 115861943 2.98 602.0
> chr7 115864830 115866222 2.767889 1392.0
> chr7 115866396 115866788 1.670789 392.0
> chr7 115905030 115908212 4.927685 3182.0
> chr7 115908466 115909276 2.786252 810.0
> chr7 115920701 115921284 1.33 583.0
> chr7 115921462 115921700 2 238.0
> chr7 115932824 115933280 1.268972 456.0
> chr7 115938942 115939561 1.33 619.0
> chr7 115940006 115942238 2.228168 2232.0
> chr7 115950570 115951532 2.781931 962.0
> chr7 116006585 116007584 1.26151 999.0
> chr7 116012092 116012712 1.724638 620.0
> chr7 116031529 116032528 1.1695 999.0
>
>
> Server Error
>
> URL: http://g2.bx.psu.edu:8889/display?id=609
> Module paste.exceptions.errormiddleware:138 in __call__
> Module paste.lint:65 in lint_app
> Module flup.middleware.session:743 in __call__
> Module paste.recursive:54 in __call__
> Module paste.httpexceptions:619 in __call__
> Module paste.wsgilib:112 in catch_errors_app
> Module galaxy.web.framework:104 in __call__
> >>  body = method( trans, **kwargs )
> Module galaxy.interfaces.root:90 in display
> >>  return open( data.file_name )
> exceptions.IOError: [Errno 2] No such file or directory: './
> database/files/dataset_609.dat'
>
> Ross Hardison
> T. Ming Chu Professor of Biochemistry and Molecular Biology
> The Pennsylvania State University
> 304 Wartik Laboratory
> University Park, PA 16802
> e-mail: [hidden email]
> phone: 814-863-0113              FAX: 814-863-7024
>
>
>
>
>
> _______________________________________________
> Galaxy-user mailing list
> [hidden email]
> http://mail.bx.psu.edu/cgi-bin/mailman/listinfo/galaxy-user