---------
GRM7-201, GRM7-204
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(245, 245) and range(0, 0)
---------
---------
HDAC11-201, HDAC11-206
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(0, 0) and range(0, 0)
---------
---------
HDAC11-201, HDAC11-211
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(0, 0) and range(0, 0)
---------
---------
HDAC11-201, HDAC11-213
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(0, 0) and range(0, 0)
---------
---------
HDAC11-201, HDAC11-221
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(0, 0) and range(0, 0)
---------
---------
MOBP-202, MOBP-201
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(69, 69) and range(207, 207)
---------
---------
NAA80-202, NAA80-201
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(0, 0) and range(0, 0)
---------
---------
ASB14-202, ASB14-201
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(59, 59) and range(59, 59)
---------
---------
ROBO2-202, ROBO2-205
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(1379, 1379) and range(1438, 1438)
---------
---------
ROBO2-202, ROBO2-207
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(1379, 1379) and range(1403, 1403)
---------
---------
ROBO2-202, ROBO2-218
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(1379, 1379) and range(223, 223)
---------
---------
CD200R1L-201, CD200R1L-204
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(15, 15) and range(0, 0)
---------
---------
EFCAB12-201, EFCAB12-204
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(468, 468) and range(468, 468)
---------
---------
MBNL1-201, MBNL1-203
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 569, in from_proteins
    match_tblock = one(interval.data for interval in intervals if interval.data.category is SeqAlignCat.MATCH)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/more_itertools/more.py", line 555, in one
    raise too_long or ValueError(msg)
ValueError: Expected exactly one item in iterable, but got M(2857:2952|1596:1691), M(2952:6422|1755:5225), and perhaps more.
---------
---------
MBNL1-201, MBNL1-217
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 569, in from_proteins
    match_tblock = one(interval.data for interval in intervals if interval.data.category is SeqAlignCat.MATCH)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/more_itertools/more.py", line 555, in one
    raise too_long or ValueError(msg)
ValueError: Expected exactly one item in iterable, but got M(2857:2952|807:902), M(2952:3009|966:1023), and perhaps more.
---------
---------
B3GALNT1-201, B3GALNT1-204
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(294, 294) and range(34, 34)
---------
---------
B3GALNT1-201, B3GALNT1-209
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(294, 294) and range(34, 34)
---------
---------
B3GALNT1-201, B3GALNT1-215
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(294, 294) and range(34, 34)
---------
---------
B3GALNT1-201, B3GALNT1-248
Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 216, in get_cblocks
    dfs[chr] = pd.read_csv(df_file, sep='\t')
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 912, in read_csv
    return _read(filepath_or_buffer, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 577, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1407, in __init__
    self._engine = self._make_engine(f, self.engine)
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/parsers/readers.py", line 1661, in _make_engine
    self.handles = get_handle(
                   ^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/pandas/io/common.py", line 859, in get_handle
    handle = open(
             ^^^^^
FileNotFoundError: [Errno 2] No such file or directory: 'B_hybrid_aln_gencode_v42/cblock-tables/cblocks-chr3.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/analysis/genome_wide_alignment_analysis.py", line 105, in process_gene
    cd_aln = CodonAlignment.from_proteins(anchor.protein, alternative.protein)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 523, in from_proteins
    cblock = CodonAlignmentBlock(range(anchor_start, anchor_stop), range(other_start, other_stop), category=category)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.CodonAlignmentBlock>", line 12, in __init__
    self.__attrs_post_init__()
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 46, in __attrs_post_init__
    raise ValueError(f'Invalid ranges {self.anchor_range} and {self.other_range}')
ValueError: Invalid ranges range(294, 294) and range(34, 34)
---------
