error with coverage table

[KonstantinaRi]

after running concoct_coverage_table.py concoct_input.bed S*.sorted.bam > concoct_coverage_table.tsv i keep getting this error :
Errors in BED line 'k141_12453 0 3079 k141_12453.concoct_part_0'
Errors in BED line 'k141_50396 0 4349 k141_50396.concoct_part_0'
Errors in BED line 'k141_3487 0 4389 k141_3487.concoct_part_0'
Errors in BED line 'k141_41388 0 3616 k141_41388.concoct_part_0'
Errors in BED line 'k141_26985 0 6944 k141_26985.concoct_part_0'
Errors in BED line 'k141_41407 0 3213 k141_41407.concoct_part_0'
Errors in BED line 'k141_30590 0 10364 k141_30590.concoct_part_0'
Errors in BED line 'k141_3558 0 5350 k141_3558.concoct_part_0'
Errors in BED line 'k141_55705 0 4501 k141_55705.concoct_part_0'
Errors in BED line 'k141_56953 0 3195 k141_56953.concoct_part_0'
Errors in BED line 'k141_56959 0 4069 k141_56959.concoct_part_0'
Errors in BED line 'k141_56976 0 4505 k141_56976.concoct_part_0'
Errors in BED line 'k141_57027 0 3888 k141_57027.concoct_part_0'
Errors in BED line 'k141_57267 0 3275 k141_57267.concoct_part_0'
Traceback (most recent call last):
File "/home/s/sgeni/anaconda3/envs/concoct_env/bin/concoct_coverage_table.py", line 91, in
generate_input_table(args.bedfile, args.bamfiles, samplenames=samplenames)
File "/home/s/sgeni/anaconda3/envs/concoct_env/bin/concoct_coverage_table.py", line 61, in generate_input_table
df = pd.read_table(fh, header=None)
File "/home/s/sgeni/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/util/_decorators.py", line 311, in wrapper
return func(*args, **kwargs)
File "/home/s/sgeni/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/readers.py", line 683, in read_table
return _read(filepath_or_buffer, kwds)
File "/home/s/sgeni/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/readers.py", line 482, in _read
parser = TextFileReader(filepath_or_buffer, **kwds)
File "/home/s/sgeni/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/readers.py", line 811, in init
self._engine = self._make_engine(self.engine)
File "/home/s/sgeni/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/readers.py", line 1040, in _make_engine
return mapping[engine](self.f, **self.options) # type: ignore[call-arg]
File "/home/s/sgeni/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/c_parser_wrapper.py", line 69, in init
self._reader = parsers.TextReader(self.handles.handle, **kwds)
File "pandas/_libs/parsers.pyx", line 549, in pandas._libs.parsers.TextReader.cinit
i have created a new environment, i have used cut_up and created the bam files with bowtie2.
My bam files look like this:
VN:1.0 SO:coordinate
@sq SN:k141_1.concoct_part_0 LN:3071
@sq SN:k141_38980.concoct_part_0 LN:3213
@sq SN:k141_80949.concoct_part_0 LN:4443
@sq SN:k141_29985.concoct_part_0 LN:4156

the concoct_input.fa like this:

k141_1.concoct_part_0

the bed file like this:
k141_1 0 3071 k141_1.concoct_part_0
k141_38980 0 3213 k141_38980.concoct_part_0
k141_80949 0 4443 k141_80949.concoct_part_0
k141_29985 0 4156 k141_29985.concoct_part_0
k141_92941 0 4210 k141_92941.concoct_part_0
k141_32984 0 5353 k141_32984.concoct_part_0
k141_86952 0 4232 k141_86952.concoct_part_0

i run this to fix the columns just in case:
cut_up_fasta.py concoct_input.fa -c 10000 -o 0 --merge_last -b contigs_10K.bed > /dev/null and i get:
Errors in BED line 'k141_55705 0 4501 k141_55705.concoct_part_0'
Errors in BED line 'k141_56953 0 3195 k141_56953.concoct_part_0'
Errors in BED line 'k141_56959 0 4069 k141_56959.concoct_part_0'
Errors in BED line 'k141_56976 0 4505 k141_56976.concoct_part_0'
Errors in BED line 'k141_57027 0 3888 k141_57027.concoct_part_0'
Errors in BED line 'k141_57267 0 3275 k141_57267.concoct_part_0'
Traceback (most recent call last):
File "/home/anaconda3/envs/concoct_env/bin/concoct_coverage_table.py", line 91, in
generate_input_table(args.bedfile, args.bamfiles, samplenames=samplenames)
File "/home/anaconda3/envs/concoct_env/bin/concoct_coverage_table.py", line 61, in generate_input_table
df = pd.read_table(fh, header=None)
File "/home/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/util/_decorators.py", line 311, in wrapper
return func(*args, **kwargs)
File "/home/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/readers.py", line 683, in read_table
return _read(filepath_or_buffer, kwds)
File "/home/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/readers.py", line 482, in _read
parser = TextFileReader(filepath_or_buffer, **kwds)
File "/home/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/readers.py", line 811, in init
self._engine = self._make_engine(self.engine)
File "/home/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/readers.py", line 1040, in _make_engine
return mapping[engine](self.f, **self.options) # type: ignore[call-arg]
File "/home/anaconda3/envs/concoct_env/lib/python3.7/site-packages/pandas/io/parsers/c_parser_wrapper.py", line 69, in init
self._reader = parsers.TextReader(self.handles.handle, **kwds)
File "pandas/_libs/parsers.pyx", line 549, in pandas._libs.parsers.TextReader.cinit
pandas.errors.EmptyDataError: No columns to parse from file