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annotate tool-data/all_fasta.loc.sample @ 0:f7556cfa4047 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
author iuc
date Wed, 13 Sep 2017 22:40:57 -0400
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children 91ef4a171202
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f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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1 #This file lists the locations and dbkeys of all the fasta files
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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2 #under the "genome" directory (a directory that contains a directory
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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3 #for each build). The script extract_fasta.py will generate the file
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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4 #all_fasta.loc. This file has the format (white space characters are
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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5 #TAB characters):
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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6 #
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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7 #<unique_build_id> <dbkey> <display_name> <file_path>
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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8 #
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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9 #So, all_fasta.loc could look something like this:
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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10 #
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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11 #apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3/apiMel3.fa
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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12 #hg38canon hg38 Human (Homo sapiens): hg38 Canonical /path/to/genome/hg38/hg38canon.fa
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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13 #hg38full hg38 Human (Homo sapiens): hg38 Full /path/to/genome/hg38/hg38full.fa
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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14 #
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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15 #Your all_fasta.loc file should contain an entry for each individual
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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16 #fasta file. So there will be multiple fasta files for each build,
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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17 #such as with hg38 above.
f7556cfa4047 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pizzly/ commit a9f602d697c570bc40c6b6ab8e873a11e0eb703d
iuc
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18 #