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authorzsloan2021-06-14 23:12:27 +0000
committerzsloan2021-06-14 23:12:27 +0000
commit9e9e0e4d440383f617542e810a1115833eafd7bf (patch)
treeee5540bb26f30307af6c4f07b7ac55b30f5656a0
parentc67a189fc32fb69a82539221e1ca05c2eb58f587 (diff)
downloadgenenetwork2-9e9e0e4d440383f617542e810a1115833eafd7bf.tar.gz
Temporarily return None for tissue correlation and remove rpy2 imports
-rw-r--r--wqflask/wqflask/correlation/correlation_functions.py34
1 files changed, 17 insertions, 17 deletions
diff --git a/wqflask/wqflask/correlation/correlation_functions.py b/wqflask/wqflask/correlation/correlation_functions.py
index 2d25fbd8..c8b9da0e 100644
--- a/wqflask/wqflask/correlation/correlation_functions.py
+++ b/wqflask/wqflask/correlation/correlation_functions.py
@@ -25,7 +25,6 @@
# Last updated by NL 2011/03/23
import math
-import rpy2.robjects
import string
from base.mrna_assay_tissue_data import MrnaAssayTissueData
@@ -48,27 +47,28 @@ from flask import Flask, g
def cal_zero_order_corr_for_tiss(primaryValue=[], targetValue=[], method='pearson'):
- R_primary = rpy2.robjects.FloatVector(list(range(len(primaryValue))))
N = len(primaryValue)
- for i in range(len(primaryValue)):
- R_primary[i] = primaryValue[i]
+ # R_primary = rpy2.robjects.FloatVector(list(range(len(primaryValue))))
+ # for i in range(len(primaryValue)):
+ # R_primary[i] = primaryValue[i]
- R_target = rpy2.robjects.FloatVector(list(range(len(targetValue))))
- for i in range(len(targetValue)):
- R_target[i] = targetValue[i]
+ # R_target = rpy2.robjects.FloatVector(list(range(len(targetValue))))
+ # for i in range(len(targetValue)):
+ # R_target[i] = targetValue[i]
- R_corr_test = rpy2.robjects.r['cor.test']
- if method == 'spearman':
- R_result = R_corr_test(R_primary, R_target, method='spearman')
- else:
- R_result = R_corr_test(R_primary, R_target)
+ # R_corr_test = rpy2.robjects.r['cor.test']
+ # if method == 'spearman':
+ # R_result = R_corr_test(R_primary, R_target, method='spearman')
+ # else:
+ # R_result = R_corr_test(R_primary, R_target)
- corr_result = []
- corr_result.append(R_result[3][0])
- corr_result.append(N)
- corr_result.append(R_result[2][0])
+ # corr_result = []
+ # corr_result.append(R_result[3][0])
+ # corr_result.append(N)
+ # corr_result.append(R_result[2][0])
- return corr_result
+ return [None, N, None]
+ # return corr_result
########################################################################################################