Vitamin D - Several individual compounds is_a vitamin D Often referred to as a single compound, even by DPD/FDA
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# Export PATH variables | |
export PATH="/usr/local/bin:~/.bin:$PATH" | |
# Nicer bash defaults | |
export PS1='\[\e[31;1m\][${LOGNAME}@\h]:\[\e[34m\]\w\[\e[0m\]>' | |
export PROMPT_COMMAND='if [ "$(id -u)" -ne 0 ]; then echo "$(date "+%Y-%m-%d.%H:%M:%S") $(pwd) $(history 1)" >> ~/.logs/bash-history-$(date "+%Y-%m-%d").log; fi' | |
export HISTCONTROL=erasedups # Erase duplicates | |
export HISTSIZE=5000 # resize history size | |
shopt -s histappend # append to bash_history if Terminal.app quits |
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# | |
# This group is read both both by the client and the server | |
# use it for options that affect everything | |
# | |
[client-server] | |
max_allowed_packet=500M | |
# | |
# include all files from the config directory | |
# |
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namespace :redis do | |
namespace :flush do | |
desc "Flushes all redis cached moldbi views" | |
task :moldbi do | |
on roles(:db) do | |
execute "redis-cli KEYS \"moldbi/*\" | xargs redis-cli DEL" | |
end | |
end | |
desc "Flushes all redis cached moldbi resources" |
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Fun times! |
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$ -> | |
$('.gene-regulations').each -> | |
table = $(this) | |
source = table.data('source') | |
table.dataTable | |
processing: true | |
serverSide: true | |
ajax: source | |
aoColumnDefs: [ | |
# Don't sort columns with class 'no-sort' |
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json.key_format! camelize: :lower | |
json.draw params[:draw].to_i + 1 | |
json.records_total @total_count | |
json.records_filtered @filter_count | |
json.data do | |
json.array! @gene_regulations.each do |gene_regulation| | |
json.array! [ gene_regulation.gene_name, | |
bio_link_out(:genecard, gene_regulation.gene_symbol), | |
bio_link_out(:ncbi_gene, gene_regulation.gene_id), | |
gene_regulation.interaction, |
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# Note that this action responds to fracked up datatable parameters. | |
# If you need to use this for some other reason (HTML, etc), you | |
# might want to consider moving it into it's own method | |
# (datatable or something). | |
def index | |
# These are the columns, in the correct order, used by datatables | |
cols = [:gene_name, :gene_symbol, :gene_id, :interaction, :chromosome] | |
@gene_regulations = | |
if params[:kind] == 'up_regulated' |
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def self.apply!(features, ca, oxy, hy, halo, s, ni, total_atom_nr, morphology, amino_acid_derivative, bile_acid_or_alcohol) | |
# TODO: ca + oxy + hy == total_atom_nr does not always hold | |
# for fatty acids, exple given CCCCCCCC(=O)O.NN. | |
# Deal with this! | |
if features.include?('fatty-ester-head') && | |
features.include_any?('pregnane-skeleton', | |
'cholestane-skeleton', | |
'androstane-skeleton', | |
'estrane-skeleton', |
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require 'java' | |
require 'jchem_connection' | |
require 'lib/jchem/lib/jchem.jar' | |
java_package 'search.db' | |
java_import 'chemaxon.jchem.db.JChemSearch' | |
java_import 'chemaxon.sss.SearchConstants' | |
java_import 'chemaxon.sss.search.JChemSearchOptions' |