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1 #This is a sample file distributed with Galaxy that enables the clusterfast
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2 #tool to locate genome files for use with blat, novoalign and fasta. You will
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3 #need to supply these files and then create a clusterfast.loc file
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4 #similar to this one (store it in this directory) that points to
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5 #the directories in which those files are stored. The clusterfast.loc
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6 #file has this format (white space characters are TAB characters):
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7 #
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8 #<unique_build_id> <display_name> <NOVOALIGN.idx_path;2bit_path;fasta_path>
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9 #
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10 #for example:
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11 #
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12 #hg19 Human (Homo sapiens): hg19 /depot/data2/galaxy/novoalign/hg19.novoidx;/depot/data2/galaxy/twobit/hg19.2bit;/depot/data2/galaxy/fasta/hg19.fa
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13 #mm9 Mouse (Mus musculus): mm9 /depot/data2/galaxy/novoalign/mm9.novoidx;/depot/data2/galaxy/twobit/mm9.2bit;/depot/data2/galaxy/fasta/mm9.fa
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14 #
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15 #then your /depot/data2/galaxy/twobit/ directory
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16 #would need to contain the following 2bit files:
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17 #
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18 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 hg19.2bit
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19 #-rw-r--r-- 1 james universe 269808 2005-09-13 10:12 mm9.2bit
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20 #
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21 # /depot/data2/galaxy/novoalign/ directory
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22 #would need to contain the following novoalign index files files:
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23 #
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24 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 hg19.novoidx
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25 #-rw-r--r-- 1 james universe 269808 2005-09-13 10:12 mm9.novoidx
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26 #
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27 # your fasta folder needs the following files:
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28 #
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29 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 hg19.fa
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30 #-rw-r--r-- 1 james universe 269808 2005-09-13 10:12 mm9.fa
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31 #
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