geney 1.3.51__py2.py3-none-any.whl → 1.3.53__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/SeqMats.py +3 -2
  2. {geney-1.3.51.dist-info → geney-1.3.53.dist-info}/METADATA +1 -1
  3. {geney-1.3.51.dist-info → geney-1.3.53.dist-info}/RECORD +5 -5
  4. {geney-1.3.51.dist-info → geney-1.3.53.dist-info}/WHEEL +0 -0
  5. {geney-1.3.51.dist-info → geney-1.3.53.dist-info}/top_level.txt +0 -0
geney/SeqMats.py CHANGED
@@ -364,13 +364,14 @@ class SeqMat:
364
364
  pattern = re.compile(r"(?:[NACGT]{3})*?(TAA|TAG|TGA)")
365
365
  # match = pattern.match(raw_seq)
366
366
  match = [(m.group(), m.start()) for m in re.finditer(r"(?:[NACGT]{3})*?(TAA|TAG|TGA)", raw_seq) if
367
- m.start() % 3 == 0]
367
+ (m.start() + 1) % 3 == 0]
368
+
368
369
  if len(match) > 0:
369
370
  stop_index = match[0][-1] #.end()
370
371
  else:
371
372
  stop_index = len(raw_seq)
372
373
  end_index = stop_index
373
- assert (end_index+1) % 3 == 0, f"{end_index} is not a multiple of 3"
374
+ # assert (end_index+1) % 3 == 0, f"{end_index} is not a multiple of 3"
374
375
  return SeqMat(temp.seqmat[:, :end_index])
375
376
 
376
377
  def translate(self, tis_index):
{geney-1.3.51.dist-info → geney-1.3.53.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: geney
3
- Version: 1.3.51
3
+ Version: 1.3.53
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-1.3.51.dist-info → geney-1.3.53.dist-info}/RECORD RENAMED
@@ -1,6 +1,6 @@
1
1
  geney/Fasta_segment.py,sha256=99HxNGNh_MfdVW6hhtlb1vOn7eSmT7oFoEfHDFMxG8w,11275
2
2
  geney/Gene.py,sha256=nMWJjoQaiVFm2iRjoiq7ghZqnXtW0tJDcq2S0AyOIvY,6883
3
- geney/SeqMats.py,sha256=PMSnGquc36vTxSbyn3DdQ11-wrZeu2asUo--gfYBJLc,19209
3
+ geney/SeqMats.py,sha256=XWVs1Mv4Y8Kblm2cFPPflPyWQOde433RoS6odNEcHJM,19216
4
4
  geney/Transcript.py,sha256=CpfxYkuCwFILozrtLuiWnlr1mRnMKn4o84HVJislgYs,14499
5
5
  geney/__init__.py,sha256=eBdDl42N6UhcYeZDjOnv199Z88fI5_8Y6xW8447OKXM,755
6
6
  geney/_mutation_utils.py,sha256=dHssUsnii_mf-wuRoMmF13UlD7k3ml_VwQMItTYnXpU,1132
@@ -25,7 +25,7 @@ geney/translation_initiation/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NM
25
25
  geney/translation_initiation/tis_utils.py,sha256=AF3siFjuQH-Rs44EV-80zHdbxRMvN4woLFSHroWIETc,4448
26
26
  geney/translation_initiation/resources/kozak_pssm.json,sha256=pcd0Olziutq-6H3mFWDCD9cujQ_AlZO-iiOvBl82hqE,1165
27
27
  geney/translation_initiation/resources/tis_regressor_model.joblib,sha256=IXb4DUDhJ5rBDKcqMk9zE3ECTZZcdj7Jixz3KpoZ7OA,2592025
28
- geney-1.3.51.dist-info/METADATA,sha256=E0XM_zYhp9lObUL9fUG3F0XzualauK-DIeAPcVTC5ko,990
29
- geney-1.3.51.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
30
- geney-1.3.51.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
31
- geney-1.3.51.dist-info/RECORD,,
28
+ geney-1.3.53.dist-info/METADATA,sha256=Lmc1Mb5jyLN9bJ3iivUTCyb2YWSpyXAMCXfITMSPVtY,990
29
+ geney-1.3.53.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
30
+ geney-1.3.53.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
31
+ geney-1.3.53.dist-info/RECORD,,
{geney-1.3.51.dist-info → geney-1.3.53.dist-info}/WHEEL RENAMED
File without changes