From 43fa9dfdaf8b4a254d1dd59ccb0c759b3600f724 Mon Sep 17 00:00:00 2001
From: bbauvin <baptiste.bauvin@centrale-marseille.fr>
Date: Thu, 15 Sep 2016 09:52:17 -0400
Subject: [PATCH] Trying to fix segmentation fault
---
Code/MonoMutliViewClassifiers/Multiview/GetMultiviewDb.py | 1 +
Code/MonoMutliViewClassifiers/utils/Dataset.py | 6 ++++++
2 files changed, 7 insertions(+)
diff --git a/Code/MonoMutliViewClassifiers/Multiview/GetMultiviewDb.py b/Code/MonoMutliViewClassifiers/Multiview/GetMultiviewDb.py
index 7c5a3386..2164b88a 100644
--- a/Code/MonoMutliViewClassifiers/Multiview/GetMultiviewDb.py
+++ b/Code/MonoMutliViewClassifiers/Multiview/GetMultiviewDb.py
@@ -430,6 +430,7 @@ def getAdjacenceMatrix(sortedRNASeq, k=1):
# indices.append(patient[i-1]+patient[i]*nbGenes)
# data.append(True)
indptr[patientIndex+1] = pointer
+
mat = sparse.csr_matrix((data, indices, indptr), shape=(sortedRNASeq.shape[0], sortedRNASeq.shape[1]*sortedRNASeq.shape[1]), dtype=bool)
return mat
diff --git a/Code/MonoMutliViewClassifiers/utils/Dataset.py b/Code/MonoMutliViewClassifiers/utils/Dataset.py
index 93db8a31..67b660a0 100644
--- a/Code/MonoMutliViewClassifiers/utils/Dataset.py
+++ b/Code/MonoMutliViewClassifiers/utils/Dataset.py
@@ -8,6 +8,12 @@ def getV(DATASET, viewIndex, usedIndices=None):
if not DATASET.get("View"+str(viewIndex)).attrs["sparse"]:
return DATASET.get("View"+str(viewIndex))[usedIndices, :]
else:
+ sparse_mat = sparse.csr_matrix((DATASET.get("View"+str(viewIndex)).get("data").value,
+ DATASET.get("View"+str(viewIndex)).get("indices").value,
+ DATASET.get("View"+str(viewIndex)).get("indptr").value),
+ shape=DATASET.get("View"+str(viewIndex)).attrs["shape"])[usedIndices,:]
+ print sparse_mat.shape
+ print sparse_mat.indptr
return sparse.csr_matrix((DATASET.get("View"+str(viewIndex)).get("data").value,
DATASET.get("View"+str(viewIndex)).get("indices").value,
DATASET.get("View"+str(viewIndex)).get("indptr").value),
--
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