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Add ordinal and attempt to fix downloads

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This commit is contained in:
Neil Lawrence 2014-05-13 12:17:42 +01:00
parent c138ee868f
commit db644408ea
5 changed files with 87 additions and 3 deletions
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21
GPy/util/datasets.py
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@ -12,6 +12,8 @@ import datetime
import json
import re
from config import *
ipython_available=True
try:
import IPython
@ -29,7 +31,8 @@ def reporthook(a,b,c):
sys.stdout.flush()
# Global variables
data_path = os.path.join(os.path.dirname(__file__), 'datasets')
data_path = os.path.expandvar(config.get('datasets', 'dir'))
#data_path = os.path.join(os.path.dirname(__file__), 'datasets')
default_seed = 10000
overide_manual_authorize=False
neil_url = 'http://staffwww.dcs.shef.ac.uk/people/N.Lawrence/dataset_mirror/'
@ -360,11 +363,25 @@ def football_data(season='1314', data_set='football_data'):
Y = table[:, 4:]
return data_details_return({'X': X, 'Y': Y}, data_set)
def sod1_mouse(data_set='sod1_mouse'):
if not data_available(data_set):
download_data(data_set)
from pandas import read_csv
dirpath = os.path.join(data_path, data_set)
filename = os.path.join(dirpath, 'sod1_C57_129_exprs.csv')
Y = read_csv(filename, header=0, index_col=0).T
num_repeats=4
num_time=4
num_cond=4
X = 1
return data_details_return({'X': X, 'Y': Y}, data_set)
def fruitfly_tomancak(data_set='fruitfly_tomancak', gene_number=None):
if not data_available(data_set):
download_data(data_set)
from pandas import read_csv
filename = os.path.join(data_path, 'tomancak_expr.csv')
dirpath = os.path.join(data_path, data_set)
filename = os.path.join(dirpath, 'tomancak_expr.csv')
Y = read_csv(filename, header=0, index_col=0).T
num_repeats = 3
num_time = 12