I get the following error while running IsoQuant 3.3.0:
IsoQuant failed with the following error, please, submit this issue to https://github.com/ablab/IsoQuant/issuesTraceback (most recent call last): File "/users/sparthib/IsoQuant/isoquant.py", line 698, in <module> main(sys.argv[1:]) File "/users/sparthib/IsoQuant/isoquant.py", line 689, in main args = check_and_load_args(args, parser) File "/users/sparthib/IsoQuant/isoquant.py", line 256, in check_and_load_args if not check_input_params(args): File "/users/sparthib/IsoQuant/isoquant.py", line 316, in check_input_params args.input_data = InputDataStorage(args) File "/users/sparthib/IsoQuant/src/input_data_storage.py", line 86, in __init__ check_input_type(bam, self.input_type) File "/users/sparthib/IsoQuant/src/input_data_storage.py", line 189, in check_input_type raise Exception("File format " + fasta_ext + " is not supported! Supported formats: FASTQ, FASTA, BAM") Exception: File format is not supported! Supported formats: FASTQ, FASTA, BAM
I checked my file formats, my reference files were gzipped FASTA and GTF. My input file was a bam file. Isoquant did work on the test data provided. I am not sure what could be causing the error. Any help would be great, thanks!
I get the following error while running IsoQuant 3.3.0:
IsoQuant failed with the following error, please, submit this issue to https://github.com/ablab/IsoQuant/issuesTraceback (most recent call last): File "/users/sparthib/IsoQuant/isoquant.py", line 698, in <module> main(sys.argv[1:]) File "/users/sparthib/IsoQuant/isoquant.py", line 689, in main args = check_and_load_args(args, parser) File "/users/sparthib/IsoQuant/isoquant.py", line 256, in check_and_load_args if not check_input_params(args): File "/users/sparthib/IsoQuant/isoquant.py", line 316, in check_input_params args.input_data = InputDataStorage(args) File "/users/sparthib/IsoQuant/src/input_data_storage.py", line 86, in __init__ check_input_type(bam, self.input_type) File "/users/sparthib/IsoQuant/src/input_data_storage.py", line 189, in check_input_type raise Exception("File format " + fasta_ext + " is not supported! Supported formats: FASTQ, FASTA, BAM") Exception: File format is not supported! Supported formats: FASTQ, FASTA, BAMI checked my file formats, my reference files were gzipped FASTA and GTF. My input file was a bam file. Isoquant did work on the test data provided. I am not sure what could be causing the error. Any help would be great, thanks!