Re: [galaxy-dev] megablast and blastdb

2011-02-16 Thread David Hoover
Nope, figured it out.  I forgot to add the appropriate table blocks to the 
tool_data_table_conf.xml file.  So obvious!

David

On Feb 15, 2011, at 5:05 PM, Bossers, Alex wrote:

 David,
 this is what we have in blastdb.loc (nucleotide) or blastdb_p.loc (prot)a 
 snippettab delimited
 caption can contain spaces so I increased the tab for display only
 
 #This is a sample file distributed with Galaxy that is used to define a
 #list of nucleotide BLAST databases, using three columns tab separated
 #(longer whitespace are TAB characters):
 #
 #unique_id  database_caption base_name_path
 #
 nt_24_10_2010 nt 2010 Nov 24  /share/BlastDB/nt
 vector_24_10_2010  vector 2010 Nov 24   /share/BlastDB/vector
 
 
 
 Alex
 
 
 Van: galaxy-dev-boun...@lists.bx.psu.edu 
 [galaxy-dev-boun...@lists.bx.psu.edu] namens David Hoover 
 [hoove...@helix.nih.gov]
 Verzonden: dinsdag 15 februari 2011 22:33
 Aan: Galaxy Dev
 Onderwerp: [galaxy-dev] megablast and blastdb
 
 When I try to load the megablast_wrapper tool, I get errors in the output:
 
  AssertionError: Data table named 'blastdb' is required by tool but not 
 configured
 
 I am totally confused how blastdb.loc should be configured.  Is it one tab, 
 two, three?
 
 David Hoover
 Helix Systems Staff
 http://helix.nih.gov
 ___
 To manage your subscriptions to this and other Galaxy lists, please use the
 interface at:
 
  http://lists.bx.psu.edu/


___
To manage your subscriptions to this and other Galaxy lists, please use the
interface at:

  http://lists.bx.psu.edu/


Re: [galaxy-dev] megablast and blastdb

2011-02-15 Thread Bossers, Alex
David,
this is what we have in blastdb.loc (nucleotide) or blastdb_p.loc (prot)a 
snippettab delimited
caption can contain spaces so I increased the tab for display only

#This is a sample file distributed with Galaxy that is used to define a
#list of nucleotide BLAST databases, using three columns tab separated
#(longer whitespace are TAB characters):
#
#unique_id  database_caption base_name_path
#
nt_24_10_2010 nt 2010 Nov 24  /share/BlastDB/nt
vector_24_10_2010  vector 2010 Nov 24   /share/BlastDB/vector



Alex


Van: galaxy-dev-boun...@lists.bx.psu.edu [galaxy-dev-boun...@lists.bx.psu.edu] 
namens David Hoover [hoove...@helix.nih.gov]
Verzonden: dinsdag 15 februari 2011 22:33
Aan: Galaxy Dev
Onderwerp: [galaxy-dev] megablast and blastdb

When I try to load the megablast_wrapper tool, I get errors in the output:

  AssertionError: Data table named 'blastdb' is required by tool but not 
configured

I am totally confused how blastdb.loc should be configured.  Is it one tab, 
two, three?

David Hoover
Helix Systems Staff
http://helix.nih.gov
___
To manage your subscriptions to this and other Galaxy lists, please use the
interface at:

  http://lists.bx.psu.edu/

___
To manage your subscriptions to this and other Galaxy lists, please use the
interface at:

  http://lists.bx.psu.edu/