Mercurial > repos > galaxyp > custom_pro_db_annotation_data_manager
annotate tool-data/customProDB.loc.sample @ 3:9ee512decde8 draft default tip
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit d4b5497065b853ed094aebc9e4185e9995c5e0e0
author | galaxyp |
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date | Wed, 01 Nov 2017 19:34:06 -0400 |
parents | 45755942ae7b |
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45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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1 #This file lists the locations and dbkeys of all the fasta files |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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2 #under the "customProDB" directory (a subdirectory of a genome build). |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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3 #This file has the format (white space characters are TAB characters): |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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4 # |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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5 #<unique_build_id> <dbkey> <display_name> <path to annotation files> |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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6 # |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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7 #So, all_fasta.loc could look something like this: |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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8 # |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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9 #apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3 |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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10 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19 |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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11 #hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19full |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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12 # |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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13 #Your customProDB.loc file should contain an entry for each individual |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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14 #fasta file. So there will be multiple fasta files for each build, |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
parents:
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15 #such as with hg19 above. |
45755942ae7b
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit 4bb5b663989d5f04e8fb74b111456f16d6edaa66
galaxyp
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16 # |