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comparison tool-data/kraken_databases.loc.sample @ 3:d4111d1de76f draft default tip

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v0.0.8, expose kodoja_VRL.tsv output
author peterjc
date Fri, 14 Sep 2018 09:55:56 -0400
parents 4554fcd4ef6d
children
comparison
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2:ee917702dbd8 3:d4111d1de76f
1 # This is a tab-separated file listing any Kraken databases 1 # This is a tab-separated file listing any Kraken databases
2 # installed locally to offer via Galaxy. 2 # installed locally to offer via Galaxy.
3 # 3 #
4 # Expect three columns, tab separated, as follows:
4 # - Column 1 - value, the key which Galaxy will record in DB 5 # - Column 1 - value, the key which Galaxy will record in DB
5 # - Column 2 - name, the text caption which Galaxy show users 6 # - Column 2 - name, the text caption which Galaxy show users
6 # - Column 3 - path, the directory name (which will contain 7 # - Column 3 - path, the directory name (which will contain
7 # files named ``database.idx``, ``database.kdb`` and a 8 # files named ``database.idx``, ``database.kdb`` and a
8 # sub-directory named taxonomy containing files from the 9 # sub-directory named taxonomy containing files from the
10 # 11 #
11 # e.g. using the database provided with the kraken-using tool 12 # e.g. using the database provided with the kraken-using tool
12 # kodoja at https://doi.org/10.5281/zenodo.1406071 13 # kodoja at https://doi.org/10.5281/zenodo.1406071
13 # 14 #
14 # kodojaDB_v1.0_kraken(tab)KodojaDB v1.0 (kraken), Sept 2018(tab)/mnt/shared/data/kodojaDB_v1.0/krakenDB 15 # kodojaDB_v1.0_kraken(tab)KodojaDB v1.0 (kraken), Sept 2018(tab)/mnt/shared/data/kodojaDB_v1.0/krakenDB
16 #
17 # Also, for backward compatibility with early versions of the
18 # Galaxy wrapper for Kraken, the Kodoja wrapper will also
19 # accept three columns as follows:
20 # - Column 1 - value, the key which Galaxy will record in DB
21 # - Column 2 - name, final part of folder name, which Galaxy
22 # will show the user in the drop down lists to choose from
23 # - Column 3 - path, parent folder name where $value/$name
24 # is the folder containing ``database.idx`` etc.