[Debian-med-packaging] Bug#950933: q2-demux: FTBFS with pandas 1.0: test failures

Rebecca N. Palmer rebecca_palmer at zoho.com
Sat Feb 8 14:20:03 GMT 2020


Source: q2-demux
Version: 2019.10.0-1
Control: block 950430 by -1

With pandas 1.0 from experimental:

=================================== FAILURES 
===================================
__________________________ SummarizeTests.test_basic 
___________________________

self = <q2_demux.tests.test_demux.SummarizeTests testMethod=test_basic>

     def test_basic(self):
         bsi = BarcodeSequenceFastqIterator(self.barcodes, self.sequences)

         barcode_map = pd.Series(
             ['AAAA', 'AACC'], name='bc',
             index=pd.Index(['sample_1', 'sample2'], name='id')
         )
         barcode_map = qiime2.CategoricalMetadataColumn(barcode_map)

         demux_data, ecc = emp_single(bsi, barcode_map,
                                      golay_error_correction=False)
         # test that an index.html file is created and that it has size > 0
         with tempfile.TemporaryDirectory() as output_dir:
             # TODO: Remove _PlotQualView wrapper
             result = summarize(output_dir, _PlotQualView(demux_data,
 >                                                        paired=False), 
n=2)

q2_demux/tests/test_demux.py:860:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError
___________ SummarizeTests.test_inconsistent_sequence_length_paired 
____________

self = <q2_demux.tests.test_demux.SummarizeTests 
testMethod=test_inconsistent_sequence_length_paired>

     def test_inconsistent_sequence_length_paired(self):
         forward = [('@s1/1 abc/1', 'G', '+', 'Y'),
                    ('@s2/1 abc/1', 'CCC', '+', 'PPP'),
                    ('@s3/1 abc/1', 'AAAAA', '+', 'PPPPP'),
                    ('@s4/1 abc/1', 'TTTTTTT', '+', 'PPPPPPP')]
         reverse = [('@s1/1 abc/1', 'AAAAAAA', '+', 'YYYYYYY'),
                    ('@s2/1 abc/1', 'TTTTT', '+', 'PPPPP'),
                    ('@s3/1 abc/1', 'GGG', '+', 'PPP'),
                    ('@s4/1 abc/1', 'C', '+', 'P')]
         bpsi = BarcodePairedSequenceFastqIterator(self.barcodes, forward,
                                                   reverse)

         barcode_map = pd.Series(
             ['AAAA', 'AACC'], name='bc',
             index=pd.Index(['sample1', 'sample2'], name='id')
         )
         barcode_map = qiime2.CategoricalMetadataColumn(barcode_map)

         demux_data, ecc = emp_paired(bpsi, barcode_map,
                                      golay_error_correction=False)
         lengths = [1, 3, 5, 7]
         for n in range(1, 6):
             with tempfile.TemporaryDirectory() as output_dir:
                 lengths_ = lengths[0:5-n] if n < 4 else [1]
                 # TODO: Remove _PlotQualView wrapper
                 summarize(output_dir, _PlotQualView(demux_data,
 >                                                   paired=True), n=n)

q2_demux/tests/test_demux.py:1101:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError
___________ SummarizeTests.test_inconsistent_sequence_length_single 
____________

self = <q2_demux.tests.test_demux.SummarizeTests 
testMethod=test_inconsistent_sequence_length_single>

     def test_inconsistent_sequence_length_single(self):
         sequences = [('@s1/1 abc/1', 'GGGGGGG', '+', 'YYYYYYY'),
                      ('@s2/1 abc/1', 'CCCCC', '+', 'PPPPP'),
                      ('@s3/1 abc/1', 'AAA', '+', 'PPP'),
                      ('@s4/1 abc/1', 'T', '+', 'P')]
         bsi = BarcodeSequenceFastqIterator(self.barcodes, sequences)

         barcode_map = pd.Series(
             ['AAAA', 'AACC'], name='bc',
             index=pd.Index(['sample1', 'sample2'], name='id')
         )
         barcode_map = qiime2.CategoricalMetadataColumn(barcode_map)

         demux_data, ecc = emp_single(bsi, barcode_map,
                                      golay_error_correction=False)
         lengths = [1, 3, 5, 7]
         for n in range(1, 6):
             with tempfile.TemporaryDirectory() as output_dir:
                 lengths_ = lengths[0:5-n] if n < 4 else [1]
                 # TODO: Remove _PlotQualView wrapper
                 summarize(output_dir, _PlotQualView(demux_data,
 >                                                   paired=False), n=n)

q2_demux/tests/test_demux.py:1063:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError
________________________ SummarizeTests.test_paired_end 
________________________

self = <q2_demux.tests.test_demux.SummarizeTests testMethod=test_paired_end>

     def test_paired_end(self):
         barcodes = self.barcodes[:3]

         forward = self.sequences[:3]

         reverse = [('@s1/1 abc/1', 'CCC', '+', 'YYY'),
                    ('@s2/1 abc/1', 'GGG', '+', 'PPP'),
                    ('@s3/1 abc/1', 'TTT', '+', 'PPP')]

         bpsi = BarcodePairedSequenceFastqIterator(barcodes, forward, 
reverse)

         barcode_map = pd.Series(
             ['AAAA', 'AACC', 'TTAA'], name='bc',
             index=pd.Index(['sample1', 'sample2', 'sample3'], name='id')
         )
         barcode_map = qiime2.CategoricalMetadataColumn(barcode_map)

         demux_data, ecc = emp_paired(bpsi, barcode_map,
                                      golay_error_correction=False)
         with tempfile.TemporaryDirectory() as output_dir:
             result = summarize(output_dir, _PlotQualView(demux_data,
 >                                                        paired=True), n=2)

q2_demux/tests/test_demux.py:978:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError
_________________ SummarizeTests.test_phred_score_out_of_range 
_________________

self = <q2_demux.tests.test_demux.SummarizeTests 
testMethod=test_phred_score_out_of_range>

     def test_phred_score_out_of_range(self):
         barcodes = self.barcodes[:3]

         sequences = [('@s1/1 abc/1', 'GGG', '+', 'jjj'),
                      ('@s2/1 abc/1', 'CCC', '+', 'iii'),
                      ('@s3/1 abc/1', 'AAA', '+', 'hhh')]
         bsi = BarcodeSequenceFastqIterator(barcodes, sequences)

         barcode_map = pd.Series(
             ['AAAA', 'AACC', 'TTAA'], name='bc',
             index=pd.Index(['sample1', 'sample2', 'sample3'], name='id')
         )
         barcode_map = qiime2.CategoricalMetadataColumn(barcode_map)

         demux_data, ecc = emp_single(bsi, barcode_map,
                                      golay_error_correction=False)
         with tempfile.TemporaryDirectory() as output_dir:
             result = summarize(output_dir, _PlotQualView(demux_data,
 >                                                        paired=False), 
n=50)

q2_demux/tests/test_demux.py:1035:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError
__________ SummarizeTests.test_sequence_length_uses_subsample_paired 
___________

self = <q2_demux.tests.test_demux.SummarizeTests 
testMethod=test_sequence_length_uses_subsample_paired>

     def test_sequence_length_uses_subsample_paired(self):
         random.seed(6)  # Will select s1 and s2 which aren't the 
shortest pairs

         forward = [('@s1/1 abc/1', 'GGG', '+', 'YYY'),
                    ('@s2/1 abc/1', 'CCCCC', '+', 'PPPPP'),
                    ('@s3/1 abc/1', 'A', '+', 'P'),
                    ('@s4/1 abc/1', 'TTTTTTT', '+', 'PPPPPPP')]
         reverse = [('@s1/1 abc/1', 'AAAAA', '+', 'YYYYY'),
                    ('@s2/1 abc/1', 'TTTTTTT', '+', 'PPPPPPP'),
                    ('@s3/1 abc/1', 'GGG', '+', 'PPP'),
                    ('@s4/1 abc/1', 'C', '+', 'P')]
         bpsi = BarcodePairedSequenceFastqIterator(self.barcodes, forward,
                                                   reverse)

         barcode_map = pd.Series(
             ['AAAA', 'AACC'], name='bc',
             index=pd.Index(['sample1', 'sample2'], name='id')
         )
         barcode_map = qiime2.CategoricalMetadataColumn(barcode_map)

         demux_data, ecc = emp_paired(bpsi, barcode_map,
                                      golay_error_correction=False)
         with tempfile.TemporaryDirectory() as output_dir:
 >           summarize(output_dir, _PlotQualView(demux_data, 
paired=True), n=2)

q2_demux/tests/test_demux.py:1164:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError
__________ SummarizeTests.test_sequence_length_uses_subsample_single 
___________

self = <q2_demux.tests.test_demux.SummarizeTests 
testMethod=test_sequence_length_uses_subsample_single>

     def test_sequence_length_uses_subsample_single(self):
         random.seed(6)  # Will select s1 and s2 which aren't the 
shortest ones

         sequences = [('@s1/1 abc/1', 'GGGGGGG', '+', 'YYYYYYY'),
                      ('@s2/1 abc/1', 'CCCCC', '+', 'PPPPP'),
                      ('@s3/1 abc/1', 'AAA', '+', 'PPP'),
                      ('@s4/1 abc/1', 'T', '+', 'P')]
         bsi = BarcodeSequenceFastqIterator(self.barcodes, sequences)

         barcode_map = pd.Series(
             ['AAAA', 'AACC'], name='bc',
             index=pd.Index(['sample1', 'sample2'], name='id')
         )
         barcode_map = qiime2.CategoricalMetadataColumn(barcode_map)

         demux_data, ecc = emp_single(bsi, barcode_map,
                                      golay_error_correction=False)
         with tempfile.TemporaryDirectory() as output_dir:
 >           summarize(output_dir, _PlotQualView(demux_data, 
paired=False), n=2)

q2_demux/tests/test_demux.py:1131:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError
______________________ SummarizeTests.test_single_sample 
_______________________

self = <q2_demux.tests.test_demux.SummarizeTests 
testMethod=test_single_sample>

     def test_single_sample(self):
         bsi = BarcodeSequenceFastqIterator(self.barcodes[:1],
                                            self.sequences[:1])

         barcode_map = pd.Series(
             ['AAAA'], name='bc',
             index=pd.Index(['sample1'], name='id')
         )
         barcode_map = qiime2.CategoricalMetadataColumn(barcode_map)

         demux_data, ecc = emp_single(bsi, barcode_map,
                                      golay_error_correction=False)
         # test that an index.html file is created and that it has size > 0
         with tempfile.TemporaryDirectory() as output_dir:
             # TODO: Remove _PlotQualView wrapper
             result = summarize(output_dir, _PlotQualView(demux_data,
 >                                                        paired=False), 
n=1)

q2_demux/tests/test_demux.py:902:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError
_______________ SummarizeTests.test_single_sample_multiple_files 
_______________

self = <q2_demux.tests.test_demux.SummarizeTests 
testMethod=test_single_sample_multiple_files>

     def test_single_sample_multiple_files(self):
         # Note, this case came up on the QIIME 2 Forum, due to a user 
running
         # `summarize` with demuxed sequences that all had the same 
Sample ID
         # in the internal MANIFEST file. With versions of seaborn 
greater than
         # 0.8.0 this is no longer a problem, but on prior versions, the 
user
         # would see the following error:
         # TypeError: len() of unsized object
         files = ['sample1_S0_L001_R1_001.fastq.gz',
                  'sample2_S0_L001_R1_001.fastq.gz',
                  'sample3_S0_L001_R1_001.fastq.gz',
                  'MANIFEST', 'metadata.yml']
         for f in files:
             shutil.copy(
                 self.get_data_path('single_sample_multiple_files/%s' % f),
                 self.temp_dir.name)

         demux_data = SingleLanePerSampleSingleEndFastqDirFmt(
                 self.temp_dir.name, mode='r')
         with tempfile.TemporaryDirectory() as output_dir:
             # TODO: Remove _PlotQualView wrapper
             result = summarize(output_dir, _PlotQualView(demux_data,
 >                                                        paired=False), 
n=1)

q2_demux/tests/test_demux.py:940:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError
_____________ SummarizeTests.test_subsample_higher_than_seqs_count 
_____________

self = <q2_demux.tests.test_demux.SummarizeTests 
testMethod=test_subsample_higher_than_seqs_count>

     def test_subsample_higher_than_seqs_count(self):
         barcodes = self.barcodes[:1]

         sequences = self.sequences[:1]
         bsi = BarcodeSequenceFastqIterator(barcodes, sequences)

         barcode_map = pd.Series(['AAAA'], name='bc',
                                 index=pd.Index(['sample1'], name='id'))
         barcode_map = qiime2.CategoricalMetadataColumn(barcode_map)

         demux_data, ecc = emp_single(bsi, barcode_map,
                                      golay_error_correction=False)
         with tempfile.TemporaryDirectory() as output_dir:
             result = summarize(output_dir, _PlotQualView(demux_data,
 >                                                        paired=False), 
n=50)

q2_demux/tests/test_demux.py:1010:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _
q2_demux/_summarize/_visualizer.py:169: in summarize
     forward_length_table = _build_seq_len_table(forward_scores)
q2_demux/_summarize/_visualizer.py:109: in _build_seq_len_table
     return q2templates.df_to_html(frame)
/usr/lib/python3/dist-packages/q2templates/util.py:45: in df_to_html
     with pd.option_context('display.max_colwidth', -1):
/usr/lib/python3/dist-packages/pandas/_config/config.py:407: in __enter__
     _set_option(pat, val, silent=True)
/usr/lib/python3/dist-packages/pandas/_config/config.py:127: in _set_option
     o.validator(v)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
_ _ _ _

value = -1

     def is_nonnegative_int(value):
         """
         Verify that value is None or a positive int.

         Parameters
         ----------
         value : None or int
                 The `value` to be checked.

         Raises
         ------
         ValueError
             When the value is not None or is a negative integer
         """

         if value is None:
             return

         elif isinstance(value, int):
             if value >= 0:
                 return

         msg = "Value must be a nonnegative integer or None"
 >       raise ValueError(msg)
E       ValueError: Value must be a nonnegative integer or None

/usr/lib/python3/dist-packages/pandas/_config/config.py:844: ValueError



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