# HG changeset patch
# User drosofff
# Date 1403457775 14400
# Node ID fbd90ba5f3153b77136b14f1413641e5fe618f03
# Parent  0dc2c51812c6f943762cfbeee12b81f4595a8a84
Deleted selected files

diff -r 0dc2c51812c6 -r fbd90ba5f315 tool_data_table_conf.xml
--- a/tool_data_table_conf.xml	Sun Jun 22 13:22:22 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>