Mercurial > repos > galaxyp > custom_pro_db_annotation_data_manager

annotate tool-data/customProDB.loc.sample @ 13:e7766dd218d9 draft default tip

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/custom_pro_db commit d4b5497065b853ed094aebc9e4185e9995c5e0e0
author galaxyp
date Wed, 01 Nov 2017 19:33:35 -0400
parents a0ca66b32792
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4c77cf5a2977 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
galaxyp
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1 #This file lists the locations and dbkeys of all the fasta files
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a0ca66b32792 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 98f3323d4b92a4a3668788b3e1bad1a6529fd6df-dirty
galaxyp
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2 #under the "customProDB" directory (a subdirectory of a genome build).
a0ca66b32792 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 98f3323d4b92a4a3668788b3e1bad1a6529fd6df-dirty
galaxyp
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3 #This file has the format (white space characters are TAB characters):
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4c77cf5a2977 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
galaxyp
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4 #
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a0ca66b32792 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 98f3323d4b92a4a3668788b3e1bad1a6529fd6df-dirty
galaxyp
parents: 1
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5 #<unique_build_id> <dbkey> <display_name> <path to annotation files>
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4c77cf5a2977 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
galaxyp
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6 #
4c77cf5a2977 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
galaxyp
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7 #So, all_fasta.loc could look something like this:
4c77cf5a2977 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
galaxyp
parents:
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8 #
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a0ca66b32792 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 98f3323d4b92a4a3668788b3e1bad1a6529fd6df-dirty
galaxyp
parents: 1
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9 #apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3
a0ca66b32792 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 98f3323d4b92a4a3668788b3e1bad1a6529fd6df-dirty
galaxyp
parents: 1
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10 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19
a0ca66b32792 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 98f3323d4b92a4a3668788b3e1bad1a6529fd6df-dirty
galaxyp
parents: 1
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11 #hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19full
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4c77cf5a2977 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
galaxyp
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12 #
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a0ca66b32792 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 98f3323d4b92a4a3668788b3e1bad1a6529fd6df-dirty
galaxyp
parents: 1
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13 #Your customProDB.loc file should contain an entry for each individual
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4c77cf5a2977 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
galaxyp
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14 #fasta file. So there will be multiple fasta files for each build,
4c77cf5a2977 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
galaxyp
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15 #such as with hg19 above.
4c77cf5a2977 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
galaxyp
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16 #