Mercurial > repos > jdv > gottcha
diff tool-data/gottcha_indices.loc.sample @ 0:2569a83977f5 draft
planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/gottcha commit 5d24210279e26623ae6c98f7551e3565fdc9bc48
| author | jdv |
|---|---|
| date | Mon, 30 Jan 2017 19:07:21 -0500 |
| parents | |
| children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool-data/gottcha_indices.loc.sample Mon Jan 30 19:07:21 2017 -0500 @@ -0,0 +1,47 @@ +# gottcha_indices.loc.sample +# This is a *.loc.sample file distributed with Galaxy that enables tools +# to use a directory of indexed data files. This one is for GOTTCHA. +# See the wiki: http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup +# First create these data files and save them in your own data directory structure. +# Then, create a bowtie_indices.loc file to use those indexes with tools. +# Copy this file, save it with the same name (minus the .sample), +# follow the format examples, and store the result in this directory. +# The file should include an one line entry for each index set. +# The path points to the "basename" for the set, not a specific file. +# It has three text columns seperated by TABS. +# +# <unique_id> <display_name> <file_base_path> +# +# So, for example, if you had pre-built indices stored in: +# +# /depot/data2/galaxy/gottcha/ +# +# containing GOTTCHA index files, such as: +# -rw-r--r-- 1 root root 21M Sep 15 2015 classLookupByOrder.dmp +# -rw-r--r-- 1 root root 30M Sep 15 2015 familyLookupByGenus.dmp +# -rw-r--r-- 1 root root 7.8M Sep 15 2015 genomeVitals.dmp +# -rw-r--r-- 1 root root 73M Sep 15 2015 genusLookupBySpecies.dmp +# -rw-r--r-- 1 root root 27M Sep 15 2015 orderLookupByFamily.dmp +# -rw-r--r-- 1 root root 21M Sep 15 2015 phylumLookupByClass.dmp +# -rw-r--r-- 1 root root 268M Sep 15 2015 speciesTreeGI.dmp +# -rw-r--r-- 1 root root 176M Sep 15 2015 taxLookupBySpecies.dmp +# -rw-r--r-- 1 root root 82M Sep 15 2015 variantSpeciesLookup.dmp +# -rw-r--r-- 1 root root 16M Sep 15 2015 variantStrainLookup.dmp +# -rw-r--r-- 1 root root 4.1G Sep 21 2015 GOTTCHA_BACTERIA_c4937_k24_u30_xHUMAN3x.species.bwt +# -rw-r--r-- 1 root root 1.1G Sep 21 2015 GOTTCHA_BACTERIA_c4937_k24_u30_xHUMAN3x.species.pac +# -rw-r--r-- 1 root root 2.0G Sep 21 2015 GOTTCHA_BACTERIA_c4937_k24_u30_xHUMAN3x.species.ann +# -rw-r--r-- 1 root root 22 Sep 21 2015 GOTTCHA_BACTERIA_c4937_k24_u30_xHUMAN3x.species.amb +# -rw-r--r-- 1 root root 2.1G Sep 21 2015 GOTTCHA_BACTERIA_c4937_k24_u30_xHUMAN3x.species.sa +# -rw-r--r-- 1 root root 98M Sep 21 2015 GOTTCHA_VIRUSES_c5900_k24_u30_xHUMAN3x.species.bwt +# -rw-r--r-- 1 root root 25M Sep 21 2015 GOTTCHA_VIRUSES_c5900_k24_u30_xHUMAN3x.species.pac +# -rw-r--r-- 1 root root 25M Sep 21 2015 GOTTCHA_VIRUSES_c5900_k24_u30_xHUMAN3x.species.ann +# -rw-r--r-- 1 root root 19 Sep 21 2015 GOTTCHA_VIRUSES_c5900_k24_u30_xHUMAN3x.species.amb +# -rw-r--r-- 1 root root 49M Sep 21 2015 GOTTCHA_VIRUSES_c5900_k24_u30_xHUMAN3x.species.sa +# -rw-r--r-- 1 root root 16M Sep 21 2015 GOTTCHA_VIRUSES_c5900_k24_u30_xHUMAN3x.species.parsedGOTTCHA.dmp +# -rw-r--r-- 1 root root 1.1G Sep 21 2015 GOTTCHA_BACTERIA_c4937_k24_u30_xHUMAN3x.species.parsedGOTTCHA.dmp +# +# then the gottcha_indices.loc entries could look like this: +# +#bacteria_v20150825 Bacteria /depot/data2/galaxy/gottcha/GOTTCHA_BACTERIA_c4937_k24_u30_xHUMAN3x.species +#viruses_v20150825 Viruses /depot/data2/galaxy/gottcha/GOTTCHA_VIRUSES_c5900_k24_u30_xHUMAN3x.species +#