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comparison tool-data/virhunter.loc.sample @ 2:ea2cccb9f73e draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/VirHunter commit c3685ed6a70b47012b62b95a2a3db062bd3b7475
author iuc
date Thu, 05 Jan 2023 14:27:54 +0000
parents 457fd8fd681a
children
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1:9b12bc1b1e2c 2:ea2cccb9f73e
1 #This is a sample file distributed with Galaxy that enables tools 1 #This is a sample file distributed with Galaxy that enables tools
2 #to use a directory of Samtools indexed sequences data files. You will need 2 #to use a directory of virhunter hdf5 model files. You will need
3 #to create these data files and then create a fasta_indexes.loc file 3 #to create these data files and then create a virhunter.loc file
4 #similar to this one (store it in this directory) that points to 4 #similar to this one (store it in this directory) that points to
5 #the directories in which those files are stored. The fasta_indexes.loc 5 #the directories in which those files are stored. The virhunter.loc
6 #file has this format (white space characters are TAB characters): 6 #file has this format (white space characters are TAB characters):
7 # 7 #
8 # <unique_build_id> <dbkey> <display_name> <file_base_path> 8 # <value> <name> <path>
9 # 9 #
10 #So, for example, if you had hg19 Canonical indexed stored in 10 #So, for example, if you had fungi hdf5 model files stored in
11 # 11 #
12 # /depot/data2/galaxy/hg19/sam/, 12 # /tool-data/weights/peach/,
13 # 13 #
14 #then the fasta_indexes.loc entry would look like this: 14 #then the virhunter.loc entry would look like this:
15 # 15 #
16 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /depot/data2/galaxy/hg19/sam/hg19canon.fa 16 #peach peach /data/databases/path/weights/peach
17 # 17 #
18 #and your /depot/data2/galaxy/hg19/sam/ directory 18 #and your /tool-data/weights/peach/ directory
19 #would contain hg19canon.fa and hg19canon.fa.fai files. 19 #would contain model_5_500.h5,model_7_500.h5,model_10_500.h5 and model_5_1000.h5, model_7_1000.h5, model_10_1000.h5 files.
20 # 20 #
21 #Your fasta_indexes.loc file should include an entry per line for 21 #Your virhunter.loc file should include an entry per line for
22 #each index set you have stored. The file in the path does actually 22 #each index set you have stored. The file in the path does actually
23 #exist, but it should never be directly used. Instead, the name serves 23 #exist, but it should never be directly used. Instead, the name serves
24 #as a prefix for the index file. For example: 24 #as a prefix for the index file. For example:
25 # 25 #
26 #hg18canon hg18 Human (Homo sapiens): hg18 Canonical /depot/data2/galaxy/hg18/sam/hg18canon.fa 26 #peach peach /data/databases/path/weights/peach
27 #hg18full hg18 Human (Homo sapiens): hg18 Full /depot/data2/galaxy/hg18/sam/hg18full.fa 27 #grapevine grapevine /data/databases/path/weights/peach
28 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /depot/data2/galaxy/hg19/sam/hg19canon.fa
29 #hg19full hg19 Human (Homo sapiens): hg19 Full /depot/data2/galaxy/hg19/sam/hg19full.fa