| Previous changeset 6:a23b0627623c (2013-01-24) Next changeset 8:1f546099212f (2013-02-19) |
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Commit message:
Uploaded v0.0.16, declares explicit dependency on the 'blast_datatypes' repository. |
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modified:
tools/ncbi_blast_plus/ncbi_blast_plus.txt |
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added:
tools/ncbi_blast_plus/repository_dependencies.xml |
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| diff -r a23b0627623c -r 4ce66a5401d0 tools/ncbi_blast_plus/ncbi_blast_plus.txt --- a/tools/ncbi_blast_plus/ncbi_blast_plus.txt Thu Jan 24 12:40:41 2013 -0500 +++ b/tools/ncbi_blast_plus/ncbi_blast_plus.txt Fri Feb 08 05:51:26 2013 -0500 |
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| @@ -15,6 +15,20 @@ with this. +Automated Installation +====================== + +Galaxy should be able to automatically install the dependencies, i.e. the +'blast_datatypes' repository which defines the BLAST XML file format +('blastxml') and protein and nucleotide BLAST databases ('blastdbp' and +'blastdbn'). + +You must tell Galaxy about any system level BLAST databases using configuration +files blastdb.loc (nucleotide databases like NT) and blastdb_p.loc (protein +databases like NR), located in the tool-data folder. Sample fils are included +which explain the tab based format to use. + + Manual Installation =================== @@ -22,14 +36,15 @@ the XML and Python files under tools/ncbi_blast_plus and add the XML files to your tool_conf.xml as normal. -You must tell Galaxy about any system level BLAST databases using configuration -files blastdb.loc (nucleotide databases like NT) and blastdb_p.loc (protein -databases like NR). - You will also need to install 'blast_datatypes' from the Tool Shed. This defines the BLAST XML file format ('blastxml') and protein and nucleotide BLAST databases composite file formats ('blastdbp' and 'blastdbn'). +You must tell Galaxy about any system level BLAST databases using configuration +files blastdb.loc (nucleotide databases like NT) and blastdb_p.loc (protein +databases like NR), located in the tool-data folder. Sample fils are included +which explain the tab based format to use. + History ======= @@ -48,6 +63,8 @@ of the 'blast_datatypes' repository from the Tool Shed. v0.0.15 - Stronger warning in help text against searching against subject FASTA files (better looking e-values than you might be expecting). +v0.0.16 - Added repository_dependencies.xml for automates installation of the + 'blast_datatypes' repository from the Tool Shed. Developers |
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| diff -r a23b0627623c -r 4ce66a5401d0 tools/ncbi_blast_plus/repository_dependencies.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tools/ncbi_blast_plus/repository_dependencies.xml Fri Feb 08 05:51:26 2013 -0500 |
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| @@ -0,0 +1,5 @@ +<?xml version="1.0"?> +<repositories description="This requires the BLAST datatype definitions (e.g. the BLAST XML format)."> +<!-- Revision 4:f9a7783ed7b6 on the main tool shed is v0.0.14 which added BLAST databases --> +<repository toolshed="http://toolshed.g2.bx.psu.edu" name="blast_datatypes" owner="devteam" changeset_revision="f9a7783ed7b6" /> +</repositories> |