geney 1.2.63__py2.py3-none-any.whl → 1.2.64__py2.py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Potentially problematic release.

This version of geney might be problematic. Click here for more details.

Files changed (5) hide show
  1. geney/seqmat_utils.py +9 -1
  2. {geney-1.2.63.dist-info → geney-1.2.64.dist-info}/METADATA +1 -1
  3. {geney-1.2.63.dist-info → geney-1.2.64.dist-info}/RECORD +5 -5
  4. {geney-1.2.63.dist-info → geney-1.2.64.dist-info}/WHEEL +0 -0
  5. {geney-1.2.63.dist-info → geney-1.2.64.dist-info}/top_level.txt +0 -0
geney/seqmat_utils.py CHANGED
@@ -78,7 +78,15 @@ class SeqMat:
78
78
  # :].max() >= mut_seqmat[
79
79
  # self.ROW_INDS,
80
80
  # :].max(), 'Mutation outside sequence'
81
- assert np.all(np.isin(mut_seqmat[1, :], ref_seqmat[1, :])), "Mutation not in sequence"
81
+ # assert np.all(np.isin(mut_seqmat[1, :], ref_seqmat[1, :])), "Mutation not in sequence"
82
+ if not np.all(np.isin(mut_seqmat[1, :], ref_seqmat[1, :])):
83
+ if return_seqmat:
84
+ return ref_seqmat
85
+
86
+ return ''.join(self.vectorized_map_v2c(ref_seqmat[self.ROW_SEQ, :])), ref_seqmat[self.ROW_INDS,
87
+ :], ref_seqmat[
88
+ self.ROW_SUPERINDS,
89
+ :]
82
90
 
83
91
  if np.any(mut_seqmat[self.ROW_SUPERINDS, :] > 0):
84
92
  insertions = np.where(mut_seqmat[self.ROW_SUPERINDS, :] > 0)[0][0]
{geney-1.2.63.dist-info → geney-1.2.64.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: geney
3
- Version: 1.2.63
3
+ Version: 1.2.64
4
4
  Summary: A Python package for gene expression modeling.
5
5
  Home-page: https://github.com/nicolaslynn/geney
6
6
  Author: Nicolas Lynn
{geney-1.2.63.dist-info → geney-1.2.64.dist-info}/RECORD RENAMED
@@ -9,7 +9,7 @@ geney/mutation_utils.py,sha256=C_kv2MB_L8LlhX3W2ooXjJ3uDoJ8zX1WeDtZKoBZJkI,1547
9
9
  geney/oncosplice.py,sha256=eWgY2Lcj894UBFnIVhbxiVz5oqASHg-Ot1wFbjlJbI8,21857
10
10
  geney/pangolin_utils.py,sha256=i5j5vEMCWOTIa1mRP2377BAhlUFZjHBzTQBips4lA_4,2934
11
11
  geney/power_utils.py,sha256=MehZFUdkJ2EFUot709yPEDxSkXmH5XevMebX2HD768A,7330
12
- geney/seqmat_utils.py,sha256=f-4dtufdKHc52jf_xZqbwBu-DXCa2Tl0Wsigguus6-E,18661
12
+ geney/seqmat_utils.py,sha256=0_gA0UcKNrSzu0dUlywn-prRMxXDo4l1oOfHUbS7pMA,19197
13
13
  geney/spliceai_utils.py,sha256=PFIhTK8Ihrj-cv5tgRN0UFPYEmC4uxtqXSP9bBLnZRM,3077
14
14
  geney/splicing_utils.py,sha256=nYfdM-ppHS1kUrwzDcS6VHxpHGv3vVl4p7f_JWKZTL8,18831
15
15
  geney/survival_utils.py,sha256=KnAzEviMuXh6SnVXId9PgsFLSbgkduTvYoIthxN7FPA,6886
@@ -20,7 +20,7 @@ geney/translation_initiation/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NM
20
20
  geney/translation_initiation/tis_utils.py,sha256=AF3siFjuQH-Rs44EV-80zHdbxRMvN4woLFSHroWIETc,4448
21
21
  geney/translation_initiation/resources/kozak_pssm.json,sha256=pcd0Olziutq-6H3mFWDCD9cujQ_AlZO-iiOvBl82hqE,1165
22
22
  geney/translation_initiation/resources/tis_regressor_model.joblib,sha256=IXb4DUDhJ5rBDKcqMk9zE3ECTZZcdj7Jixz3KpoZ7OA,2592025
23
- geney-1.2.63.dist-info/METADATA,sha256=LKx_Q2GIKC23LqLmz6Qb6LvymWRXcKXjkJX8BItRzgM,948
24
- geney-1.2.63.dist-info/WHEEL,sha256=fS9sRbCBHs7VFcwJLnLXN1MZRR0_TVTxvXKzOnaSFs8,110
25
- geney-1.2.63.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
26
- geney-1.2.63.dist-info/RECORD,,
23
+ geney-1.2.64.dist-info/METADATA,sha256=6u80JKRcITgL1wNCs7bQKRP67E8sJzpL2qe8vWjlaeI,948
24
+ geney-1.2.64.dist-info/WHEEL,sha256=fS9sRbCBHs7VFcwJLnLXN1MZRR0_TVTxvXKzOnaSFs8,110
25
+ geney-1.2.64.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
26
+ geney-1.2.64.dist-info/RECORD,,
{geney-1.2.63.dist-info → geney-1.2.64.dist-info}/WHEEL RENAMED
File without changes