geney 1.4.12__py2.py3-none-any.whl → 1.4.13__py2.py3-none-any.whl

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Files changed (5) hide show
  1. geney/utils/SeqMats.py +3 -1
  2. {geney-1.4.12.dist-info → geney-1.4.13.dist-info}/METADATA +1 -1
  3. {geney-1.4.12.dist-info → geney-1.4.13.dist-info}/RECORD +5 -5
  4. {geney-1.4.12.dist-info → geney-1.4.13.dist-info}/WHEEL +0 -0
  5. {geney-1.4.12.dist-info → geney-1.4.13.dist-info}/top_level.txt +0 -0
geney/utils/SeqMats.py CHANGED
@@ -205,8 +205,10 @@ class SeqMat:
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  # if segment != ref:
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  # raise ValueError(f"Reference mismatch at position {pos}: expected '{ref}', found '{segment}'")
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  ref_segment = self.seq_array["ref"][pos_idx:end_idx]
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+ expected_segment = np.frombuffer(ref.encode(), dtype='S1')
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  if not np.all(ref_segment == np.frombuffer(ref.encode(), dtype='S1')):
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- raise ValueError(f"Reference mismatch at position {pos}")
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+ actual_str = ref_segment.tobytes().decode()
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+ raise ValueError(f"Reference mismatch at position {pos}: expected '{ref}', found '{actual_str}'")
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  self.seq_array["nt"][pos_idx:end_idx] = np.frombuffer(alt.encode(), dtype='S1')
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  # for i, nt in enumerate(alt):
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  # self.seq_array["nt"][pos_idx + i] = nt.encode()
{geney-1.4.12.dist-info → geney-1.4.13.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: geney
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- Version: 1.4.12
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+ Version: 1.4.13
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  Summary: A Python package for gene expression modeling.
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  Home-page: https://github.com/nicolaslynn/geney
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  Author: Nicolas Lynn
{geney-1.4.12.dist-info → geney-1.4.13.dist-info}/RECORD RENAMED
@@ -37,7 +37,7 @@ geney/translation_initiation/tis_utils.py,sha256=AF3siFjuQH-Rs44EV-80zHdbxRMvN4w
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  geney/translation_initiation/resources/kozak_pssm.json,sha256=pcd0Olziutq-6H3mFWDCD9cujQ_AlZO-iiOvBl82hqE,1165
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  geney/translation_initiation/resources/tis_regressor_model.joblib,sha256=IXb4DUDhJ5rBDKcqMk9zE3ECTZZcdj7Jixz3KpoZ7OA,2592025
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  geney/utils/Fasta_segment.py,sha256=weB5NJ65P0XiyAJCiCHx4T9sHC1pWLpuQeOy0B85gyg,11364
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- geney/utils/SeqMats.py,sha256=HegxEEacLQmtFnXOoEjLfrdSN4k8NqNCigb2geUmDN8,18362
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+ geney/utils/SeqMats.py,sha256=NNvSrfIDlmTJGikkDeeOt7jTKf9uBFDEBZFMAPCgc8o,18533
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  geney/utils/TranscriptLibrary.py,sha256=ma_ZVPgglxXDDneEvdqxxeqxG8eSFL-zgLUXyC6BqY8,2070
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  geney/utils/__init__.py,sha256=-nJ-DMx1JzP-ZCe_QuQCeM0ZYIT_16jxoXDhUaO_4Oc,714
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  geney/utils/mutation_utils.py,sha256=r-pHr56gEa5kh_DPX8MjFY3ZfYaOtyo4CUfJ5ZHlXPw,3243
@@ -45,7 +45,7 @@ geney/utils/pangolin_utils.py,sha256=JQSPbWxdzqGFYfWQktkfLMaMSGR28eGQhNzO7MLMe5M
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  geney/utils/spliceai_utils.py,sha256=VtrIbjyQxk_3lw86eWjftRYyal9OzxArJ0GV5u_ymTg,2721
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  geney/utils/splicing_utils.py,sha256=vPCGnCPR1ooEZEHR79yFHLmRQXEJHXEQjjxpBR-YWOs,20635
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  geney/utils/utils.py,sha256=m51Vd0cEbrcIHo6_8BAuI9YSPcKRs22e5LfVd2Qj6Is,2181
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- geney-1.4.12.dist-info/METADATA,sha256=9-B8eMGFWZs4gALtUZeGTNZZVAaj3JZuPLcaCzSDQvU,990
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- geney-1.4.12.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
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- geney-1.4.12.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
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- geney-1.4.12.dist-info/RECORD,,
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+ geney-1.4.13.dist-info/METADATA,sha256=MpggdpSion2hbv9Ymk1yLQ5lDRk2ydLAbRHUmujfKo0,990
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+ geney-1.4.13.dist-info/WHEEL,sha256=AHX6tWk3qWuce7vKLrj7lnulVHEdWoltgauo8bgCXgU,109
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+ geney-1.4.13.dist-info/top_level.txt,sha256=O-FuNUMb5fn9dhZ-dYCgF0aZtfi1EslMstnzhc5IIVo,6
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+ geney-1.4.13.dist-info/RECORD,,
{geney-1.4.12.dist-info → geney-1.4.13.dist-info}/WHEEL RENAMED
File without changes