Mercurial > repos > iuc > taxonomy_filter_refseq
annotate tool-data/all_fasta.loc.sample @ 1:d9662c76b6d5 draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc commit e68b434ae52d29f038bac26874ceb51d4911b4fb"
author | iuc |
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date | Wed, 29 Apr 2020 16:50:22 -0400 |
parents | 28e95c6a944d |
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28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
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1 #This file lists the locations and dbkeys of all the fasta files |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
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2 #under the "genome" directory (a directory that contains a directory |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
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3 #for each build). The script extract_fasta.py will generate the file |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
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4 #all_fasta.loc. This file has the format (white space characters are |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
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5 #TAB characters): |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
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6 # |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
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7 #<unique_build_id> <dbkey> <display_name> <file_path> |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
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8 # |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
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9 #So, all_fasta.loc could look something like this: |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
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10 # |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
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11 #apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3/apiMel3.fa |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
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12 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/hg19canon.fa |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
diff
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13 #hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19/hg19full.fa |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
diff
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14 # |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
diff
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15 #Your all_fasta.loc file should contain an entry for each individual |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
diff
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16 #fasta file. So there will be multiple fasta files for each build, |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
diff
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17 #such as with hg19 above. |
28e95c6a944d
planemo upload for repository https://github.com/galaxyproject/tools-iuc commit 665d364fb51576608b0eb66a4f89d92159925ccc
iuc
parents:
diff
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18 # |