Mercurial > repos > drosofff > bowtie_for_smallrna
changeset 7:e114581bcb49 draft
Deleted selected files
author | drosofff |
---|---|
date | Sun, 22 Jun 2014 13:21:50 -0400 |
parents | 51af31921d1a |
children | 0dc2c51812c6 |
files | tool_data_table_conf.xml |
diffstat | 1 files changed, 0 insertions(+), 123 deletions(-) [+] |
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--- a/tool_data_table_conf.xml Sun Jun 22 13:20:56 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,123 +0,0 @@ -<!-- 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 bowtie2 indexes --> - <table name="bowtie2_indexes" comment_char="#"> - <columns>value, dbkey, name, path</columns> - <file path="tool-data/bowtie2_indices.loc" /> - </table> - <!-- Locations of bowtie2 indeces for tophat2 --> - <table name="tophat2_indexes" comment_char="#"> - <columns>value, dbkey, name, path</columns> - <file path="tool-data/bowtie2_indices.loc" /> - </table> - <!-- Locations of GED indexes in the Bowtie GED wrappers format --> - <table name="ged_bowtie_indexes" comment_char="#"> - <columns>name, value</columns> - <file path="tool-data/bowtie_indices_ged.loc" /> - </table> - <!-- Locations of GED indexes in the Bowtie GED wrappers FOR single stranded RNAs --> - <table name="ged_bowtie_ssRNA_indexes" comment_char="#"> - <columns>name, value</columns> - <file path="tool-data/bowtie_ss_RNA_indices_ged.loc" /> - </table> - <!-- Locations of indexes in the Bowtie color-space 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-space 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-space 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 Picard dict files valid for GATK --> - <table name="gatk_picard_indexes" comment_char="#"> - <columns>value, dbkey, name, path, tools_valid_for</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 indexes in the Bowtie color-space mapper format for TopHat to use --> - <table name="tophat_indexes_color" comment_char="#"> - <columns>value, dbkey, name, path</columns> - <file path="tool-data/bowtie_indices_color.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>