---------
MIER2-201, MIER2|PB.13411.10
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_wtc11/cblock-tables/cblocks-chr19.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(257:2767|279:2789), M(114:257|19:162), and perhaps more.
---------
---------
POLRMT-202, POLRMT|PB.13418.40
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_wtc11/cblock-tables/cblocks-chr19.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(64, 64) and range(71, 71)
---------
---------
PTBP1-203, PTBP1|PB.13424.13
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_wtc11/cblock-tables/cblocks-chr19.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(558, 558) and range(558, 558)
---------
---------
POLR2E-204, POLR2E|PB.13440.19
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_wtc11/cblock-tables/cblocks-chr19.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(163, 163) and range(163, 163)
---------
---------
RPS15-209, RPS15|PB.13454.1
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_wtc11/cblock-tables/cblocks-chr19.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(30, 30) and range(30, 30)
---------
---------
PCSK4-201, PCSK4|PB.13458.1
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_wtc11/cblock-tables/cblocks-chr19.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(686:1395|839:1548), M(1395:2603|1734:2942), and perhaps more.
---------
---------
PCSK4-201, PCSK4|PB.13458.2
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_wtc11/cblock-tables/cblocks-chr19.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(686:859|599:772), M(859:1277|847:1265), and perhaps more.
---------
---------
PCSK4-201, PCSK4|PB.13458.3
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_wtc11/cblock-tables/cblocks-chr19.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(686:859|586:759), M(859:1395|834:1370), and perhaps more.
---------
---------
UQCR11-201, UQCR11|PB.13460.16
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_wtc11/cblock-tables/cblocks-chr19.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(17, 17) and range(17, 17)
---------
---------
SCAMP4-201, SCAMP4|PB.13468.3
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_wtc11/cblock-tables/cblocks-chr19.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(132, 132) and range(132, 132)
---------
---------
OAZ1-211, OAZ1|PB.13479.1
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_wtc11/cblock-tables/cblocks-chr19.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(68, 68) and range(68, 68)
---------
---------
OAZ1-211, OAZ1|PB.13479.14
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_wtc11/cblock-tables/cblocks-chr19.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(68, 68) and range(35, 35)
---------
---------
OAZ1-211, OAZ1|PB.13479.16
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_wtc11/cblock-tables/cblocks-chr19.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(68, 68) and range(97, 97)
---------
---------
THOP1-201, THOP1|PB.13489.11
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_wtc11/cblock-tables/cblocks-chr19.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(590, 590) and range(261, 261)
---------
---------
THOP1-201, THOP1|PB.13489.37
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_wtc11/cblock-tables/cblocks-chr19.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(417, 417) and range(206, 206)
---------
---------
MFSD12-201, MFSD12|PB.13505.2
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_wtc11/cblock-tables/cblocks-chr19.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)
---------
---------
SH3GL1-201, SH3GL1|PB.13529.3
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_wtc11/cblock-tables/cblocks-chr19.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(141, 141) and range(18, 18)
---------
---------
DPP9-201, DPP9|PB.13539.25
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_wtc11/cblock-tables/cblocks-chr19.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(451, 451) and range(392, 392)
---------
---------
KHSRP-201, KHSRP|PB.13560.33
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_wtc11/cblock-tables/cblocks-chr19.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(1981:2220|239:478), M(2220:2500|1498:1778), and perhaps more.
---------
---------
SH2D3A-201, SH2D3A|PB.13568.10
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_wtc11/cblock-tables/cblocks-chr19.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(1214:2251|914:1951), M(996:1214|673:891), and perhaps more.
---------
---------
SH2D3A-201, SH2D3A|PB.13568.13
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_wtc11/cblock-tables/cblocks-chr19.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(996:1214|700:918), M(1214:2243|1108:2137), and perhaps more.
---------
---------
SH2D3A-201, SH2D3A|PB.13568.9
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_wtc11/cblock-tables/cblocks-chr19.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(996:1214|634:852), M(1214:1389|875:1050), and perhaps more.
---------
---------
MCOLN1-201, MCOLN1|PB.13575.4
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_wtc11/cblock-tables/cblocks-chr19.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(569, 569) and range(569, 569)
---------
---------
PNPLA6-220, PNPLA6|PB.13576.14
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_wtc11/cblock-tables/cblocks-chr19.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(753, 753) and range(147, 147)
---------
---------
FBXL12-201, FBXL12|PB.13627.5
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_wtc11/cblock-tables/cblocks-chr19.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(352:425|78:151), M(425:1872|195:1642), and perhaps more.
---------
---------
QTRT1-201, QTRT1|PB.13653.18
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_wtc11/cblock-tables/cblocks-chr19.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)
---------
---------
GCDH-201, GCDH|PB.13720.14
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_wtc11/cblock-tables/cblocks-chr19.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(112, 112) and range(43, 43)
---------
---------
RAD23A-203, RAD23A|PB.13725.3
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_wtc11/cblock-tables/cblocks-chr19.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(200, 200) and range(200, 200)
---------
---------
TPM4-221, TPM4|PB.13768.8
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_wtc11/cblock-tables/cblocks-chr19.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 104, in process_gene
    tx_aln = TranscriptAlignment.from_transcripts(anchor, alternative)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/Desktop/Desktop - Mayank’s MacBook Pro/biosurfer_analysis_test_2/biosurfer/biosurfer/core/alignments.py", line 301, in from_transcripts
    return cls(anchor, other, events, anchor_events, anchor_blocks, other_events, other_blocks, event_to_block, block_to_events)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "<attrs generated init biosurfer.core.alignments.TranscriptAlignment>", line 34, 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 174, in __attrs_post_init__
    raise ValueError(f'TranscriptEvent lengths add up to {total_delta_nt}; expected {tx_length_diff}')
ValueError: TranscriptEvent lengths add up to 2074; expected -262
---------
---------
SIN3B-201, SIN3B|PB.13784.2
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_wtc11/cblock-tables/cblocks-chr19.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(127, 127) and range(127, 127)
---------
---------
OCEL1-201, OCEL1|PB.13789.6
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_wtc11/cblock-tables/cblocks-chr19.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(268:694|419:845), M(91:268|118:295), and perhaps more.
---------
---------
COPE-201, COPE|PB.13836.5
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_wtc11/cblock-tables/cblocks-chr19.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(200, 200) and range(148, 148)
---------
---------
NR2C2AP-201, NR2C2AP|PB.13846.11
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_wtc11/cblock-tables/cblocks-chr19.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(101, 101) and range(101, 101)
---------
---------
NR2C2AP-201, NR2C2AP|PB.13846.7
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_wtc11/cblock-tables/cblocks-chr19.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(101, 101) and range(101, 101)
---------
---------
TM6SF2-201, TM6SF2|PB.13848.1
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_wtc11/cblock-tables/cblocks-chr19.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(383:487|330:434), M(285:383|164:262), and perhaps more.
---------
---------
ZNF714-202, ZNF714|PB.13888.4
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_wtc11/cblock-tables/cblocks-chr19.tsv'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/more_itertools/more.py", line 540, in one
    first_value = next(it)
                  ^^^^^^^^
StopIteration

The above exception was the direct cause of the following exception:

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 553, in from_proteins
    tblock = one(interval.data for interval in intervals if interval.data.category in SEQ_DEL_INS)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/mayankmurali/miniconda3/envs/biosurfer-install/lib/python3.11/site-packages/more_itertools/more.py", line 542, in one
    raise (
ValueError: too few items in iterable (expected 1)
---------
---------
URI1-202, URI1|PB.13923.13
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_wtc11/cblock-tables/cblocks-chr19.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(123, 123) and range(51, 51)
---------
---------
ANKRD27-201, ANKRD27|PB.13930.32
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_wtc11/cblock-tables/cblocks-chr19.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(1769:2147|1710:2088), M(1676:1769|1549:1642), and perhaps more.
---------
---------
ANKRD27-201, ANKRD27|PB.13930.35
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_wtc11/cblock-tables/cblocks-chr19.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(1769:2192|1697:2120), M(1676:1769|1536:1629), and perhaps more.
---------
---------
LGI4-201, LGI4|PB.13965.1
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_wtc11/cblock-tables/cblocks-chr19.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(1172:1678|699:1205), M(1678:2672|1967:2961), and perhaps more.
---------
---------
U2AF1L4-203, U2AF1L4|PB.13980.2
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_wtc11/cblock-tables/cblocks-chr19.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(120:183|84:147), M(183:250|579:646), and perhaps more.
---------
---------
U2AF1L4-203, U2AF1L4|PB.13980.5
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_wtc11/cblock-tables/cblocks-chr19.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(120:183|58:121), M(183:250|410:477), and perhaps more.
---------
---------
ZNF875-202, ZNF875|PB.14024.12
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_wtc11/cblock-tables/cblocks-chr19.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(85, 85) and range(43, 43)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.11
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(206, 206)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.12
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(198, 198)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.13
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(155, 155)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.14
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(104, 104)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.15
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(237, 237)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.17
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(206, 206)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.19
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(206, 206)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.21
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(237, 237)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.22
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(149, 149)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.23
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(206, 206)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.24
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(149, 149)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.27
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(206, 206)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.28
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(237, 237)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.45
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(206, 206)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.46
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(180, 180)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.47
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(104, 104)
---------
---------
HNRNPL-201, HNRNPL|PB.14055.9
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_wtc11/cblock-tables/cblocks-chr19.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(237, 237) and range(206, 206)
---------
---------
AKT2-206, AKT2|PB.14087.31
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_wtc11/cblock-tables/cblocks-chr19.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(58, 58) and range(25, 25)
---------
---------
GRIK5-201, GRIK5|PB.14125.2
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_wtc11/cblock-tables/cblocks-chr19.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(491, 491) and range(491, 491)
---------
---------
GRIK5-201, GRIK5|PB.14125.6
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_wtc11/cblock-tables/cblocks-chr19.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(624, 624) and range(586, 586)
---------
---------
GRIK5-201, GRIK5|PB.14125.7
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_wtc11/cblock-tables/cblocks-chr19.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(624, 624) and range(624, 624)
---------
---------
PLAUR-203, PLAUR|PB.14148.7
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_wtc11/cblock-tables/cblocks-chr19.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(202, 202) and range(154, 154)
---------
---------
ZNF233-201, ZNF233|PB.14173.1
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_wtc11/cblock-tables/cblocks-chr19.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(80, 80) and range(141, 141)
---------
---------
ZNF180-211, ZNF180|PB.14174.4
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_wtc11/cblock-tables/cblocks-chr19.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(342:3046|539:3243), M(248:342|323:417), and perhaps more.
---------
---------
CBLC-203, CBLC|PB.14176.2
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_wtc11/cblock-tables/cblocks-chr19.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(821:959|720:858), M(959:1574|874:1489), and perhaps more.
---------
---------
DHX34-201, DHX34|PB.14243.16
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_wtc11/cblock-tables/cblocks-chr19.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(2914:3021|26:133), M(3021:3908|2636:3523), and perhaps more.
---------
---------
NOP53-201, NOP53|PB.14248.5
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_wtc11/cblock-tables/cblocks-chr19.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)
---------
---------
TMEM143-201, TMEM143|PB.14258.3
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_wtc11/cblock-tables/cblocks-chr19.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)
---------
---------
TEAD2-204, TEAD2|PB.14288.19
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_wtc11/cblock-tables/cblocks-chr19.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(99, 99) and range(0, 0)
---------
---------
NOSIP-204, NOSIP|PB.14298.5
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_wtc11/cblock-tables/cblocks-chr19.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)
---------
---------
FUZ-201, FUZ|PB.14305.20
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_wtc11/cblock-tables/cblocks-chr19.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(816:876|602:662), M(876:1676|667:1467), and perhaps more.
---------
---------
POLD1-201, POLD1|PB.14315.38
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_wtc11/cblock-tables/cblocks-chr19.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(1053:1820|1015:1782), M(1820:3435|1860:3475), and perhaps more.
---------
---------
POLD1-201, POLD1|PB.14315.50
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_wtc11/cblock-tables/cblocks-chr19.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(562, 562) and range(112, 112)
---------
---------
POLD1-201, POLD1|PB.14315.6
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_wtc11/cblock-tables/cblocks-chr19.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(2762:2865|2906:3009), M(2865:3434|3578:4147), and perhaps more.
---------
---------
POLD1-201, POLD1|PB.14315.9
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_wtc11/cblock-tables/cblocks-chr19.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(1053:1820|1026:1793), M(1820:3434|2165:3779), and perhaps more.
---------
---------
PRPF31-201, PRPF31|PB.14393.6
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_wtc11/cblock-tables/cblocks-chr19.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(907:997|918:1008), M(997:1829|2106:2938), and perhaps more.
---------
---------
ZSCAN5A-201, ZSCAN5A|PB.14434.6
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_wtc11/cblock-tables/cblocks-chr19.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(246, 246) and range(246, 246)
---------
