annotate tool-data/all_fasta.loc.sample @ 2:d1be552c6034 draft default tip

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit c5ff906bec1f07b06a60081f7db3fc8f0c6e94b8
author bgruening
date Sun, 27 Aug 2023 09:28:26 +0000
parents 8d5b13b571fd
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Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
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1 #This file lists the locations and dbkeys of all the fasta files
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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2 #under the "genome" directory (a directory that contains a directory
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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3 #for each build). The script extract_fasta.py will generate the file
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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4 #all_fasta.loc. This file has the format (white space characters are
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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5 #TAB characters):
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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6 #
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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7 #<unique_build_id> <dbkey> <display_name> <file_path>
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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8 #
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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9 #So, all_fasta.loc could look something like this:
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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10 #
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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11 #apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3/apiMel3.fa
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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12 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/hg19canon.fa
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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13 #hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19/hg19full.fa
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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14 #
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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15 #Your all_fasta.loc file should contain an entry for each individual
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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16 #fasta file. So there will be multiple fasta files for each build,
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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17 #such as with hg19 above.
8d5b13b571fd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/instagraal commit 3005cec91ca52f9d28aa2fe0bd4190555abafc35
bgruening
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18 #