Error log which non-ncbi database

[phil812]

Hello,

I try predict spectral library for a consortium of archaea and bacteria. Most sequences I got from ncbi, of which after header adjustment synthetic spectral libraries can be created from. However I have a problem with one specific bacterium, which was recently sequenced directly. Anyway I adapt the headers in the fasta file, I always got this following error code:

2022-05-31 10:15:17.156732: W tensorflow/stream_executor/platform/default/dso_loader.cc:64] Could not load dynamic library 'libcudart.so.11.0'; dlerror: libcudart.so.11.0: cannot open shared object file: No such file or directory 2022-05-31 10:15:17.156766: I tensorflow/stream_executor/cuda/cudart_stub.cc:29] Ignore above cudart dlerror if you do not have a GPU set up on your machine. Traceback (most recent call last): File "/usr/local/lib/python3.8/runpy.py", line 194, in _run_module_as_main return _run_code(code, main_globals, None, File "/usr/local/lib/python3.8/runpy.py", line 87, in _run_code exec(code, run_globals) File "/root/oktoberfest/main.py", line 8, in main() File "/root/oktoberfest/oktoberfest.py", line 35, in main run_oktoberfest(args.search_dir, args.config_path) File "/root/oktoberfest/oktoberfest.py", line 177, in run_oktoberfest generate_spectral_lib(search_dir, config_path) File "/root/oktoberfest/oktoberfest.py", line 105, in generate_spectral_lib spec_library.library.spectra_data['MASS'] = spec_library.library.spectra_data['MODIFIED_SEQUENCE'].apply( File "/usr/local/lib/python3.8/site-packages/pandas/core/series.py", line 4357, in apply return SeriesApply(self, func, convert_dtype, args, kwargs).apply() File "/usr/local/lib/python3.8/site-packages/pandas/core/apply.py", line 1043, in apply return self.apply_standard() File "/usr/local/lib/python3.8/site-packages/pandas/core/apply.py", line 1098, in apply_standard mapped = lib.map_infer( File "pandas/_libs/lib.pyx", line 2859, in pandas._libs.lib.map_infer File "/root/oktoberfest/oktoberfest.py", line 106, in lambda x: compute_peptide_mass(x)) File "/usr/local/lib/python3.8/site-packages/fundamentals/fragments.py", line 96, in compute_peptide_mass forward_sum += constants.AA_MASSES[peptide_sequence[i]] # sum left to right KeyError: '*' make: *** [/oktoberfest/Makefile:23: run_oktoberfest] Error 2

I’m really sorry to bother you, but could you please help me with my problems?

Best wishes,
Philip