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view tool_data_table_conf.xml.sample @ 11:b0290425de13 default tip
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author | dongjun |
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date | Thu, 03 Nov 2011 21:20:23 -0400 |
parents | 1438767ad92f |
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<!-- Use the file tool_data_table_conf.xml.oldlocstyle if you don't want to update your loc files as changed in revision 4550:535d276c92bc--> <tables> <!-- Locations of all fasta files under genome directory --> <table name="all_fasta" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/all_fasta.loc" /> </table> <!-- Locations of indexes in the BFAST mapper format --> <table name="bfast_indexes" comment_char="#"> <columns>value, dbkey, formats, name, path</columns> <file path="tool-data/bfast_indexes.loc" /> </table> <!-- Locations of nucleotide (mega)blast databases --> <table name="blastdb" comment_char="#"> <columns>value, name, path</columns> <file path="tool-data/blastdb.loc" /> </table> <!-- Locations of protein (mega)blast databases --> <table name="blastdb_p" comment_char="#"> <columns>value, name, path</columns> <file path="tool-data/blastdb_p.loc" /> </table> <!-- Locations of indexes in the Bowtie mapper format --> <table name="bowtie_indexes" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/bowtie_indices.loc" /> </table> <!-- Locations of indexes in the Bowtie color mapper format --> <table name="bowtie_indexes_color" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/bowtie_indices_color.loc" /> </table> <!-- Locations of indexes in the BWA mapper format --> <table name="bwa_indexes" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/bwa_index.loc" /> </table> <!-- Locations of indexes in the BWA color mapper format --> <table name="bwa_indexes_color" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/bwa_index_color.loc" /> </table> <!-- Locations of MAF files that have been indexed with bx-python --> <table name="indexed_maf_files"> <columns>name, value, dbkey, species</columns> <file path="tool-data/maf_index.loc" /> </table> <!-- Locations of fasta files appropriate for NGS simulation --> <table name="ngs_sim_fasta" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/ngs_sim_fasta.loc" /> </table> <!-- Locations of 2bit sequence files for use in Lastz --> <table name="lastz_seqs" comment_char="#"> <columns>value, name, path</columns> <file path="tool-data/lastz_seqs.loc" /> </table> <!-- Locations of PerM base index files --> <table name="perm_base_indexes" comment_char="#"> <columns>value, name, path</columns> <file path="tool-data/perm_base_index.loc" /> </table> <!-- Locations of PerM color index files --> <table name="perm_color_indexes" comment_char="#"> <columns>value, name, path</columns> <file path="tool-data/perm_color_index.loc" /> </table> <!-- Location of Picard dict file and other files --> <table name="picard_indexes" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/picard_index.loc" /> </table> <!-- Location of SRMA dict file and other files --> <table name="srma_indexes" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/picard_index.loc" /> </table> <!-- Locations of indexes in the Bowtie mapper format for TopHat to use --> <table name="tophat_indexes" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/bowtie_indices.loc" /> </table> <!-- Locations of configurations in the CCAT peak/region caller format --> <table name="ccat_configurations" comment_char="#"> <columns>value, name, path</columns> <file path="tool-data/ccat_configurations.loc" /> </table> <!-- Location of Mosaik files --> <table name="mosaik_indexes" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/mosaik_index.loc" /> </table> </tables>