Mercurial > repos > iuc > jasminesv

annotate tool_data/all_fasta.loc.sample @ 1:d4d05a202bc3 draft default tip

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit 600a9e3c1d884e5cf106e4477c7b8223ef105cdb"
author iuc
date Thu, 29 Apr 2021 12:23:33 +0000
parents a4962f14d05d
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
parents:
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1 #This file lists the locations and dbkeys of all the fasta files
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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2 #under the "genome" directory (a directory that contains a directory
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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3 #for each build). The script extract_fasta.py will generate the file
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
parents:
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4 #all_fasta.loc. This file has the format (white space characters are
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
parents:
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5 #TAB characters):
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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6 #
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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7 #<unique_build_id> <dbkey> <display_name> <file_path>
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
parents:
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8 #
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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9 #So, all_fasta.loc could look something like this:
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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10 #
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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11 #apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3/apiMel3.fa
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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12 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/hg19canon.fa
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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13 #hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19/hg19full.fa
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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14 #
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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15 #Your all_fasta.loc file should contain an entry for each individual
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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16 #fasta file. So there will be multiple fasta files for each build,
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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17 #such as with hg19 above.
a4962f14d05d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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18 #