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
David, this is what we have in blastdb.loc (nucleotide) or blastdb_p.loc (prot)....a snippet....tab 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-bounces@lists.bx.psu.edu [galaxy-dev-bounces@lists.bx.psu.edu] namens David Hoover [hooverdm@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/
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 snippet....tab 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-bounces@lists.bx.psu.edu [galaxy-dev-bounces@lists.bx.psu.edu] namens David Hoover [hooverdm@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:
participants (2)
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Bossers, Alex -
David Hoover