Creating folders if necessary...
Running CRISPR array search, it may take a while...
Running CRISPR cas search, it may take a while...
Working with 1 files
Working with file 1 - contig01.fasta
1. Searching for anti repeats
*** error [comp_lib9.c:642] cannot open library [input_directory]_x
*** error [comp_lib9.c:642] cannot open library [input_directory]_x
2. Filtering Anti-repeats
3. Forming initial TracrRNA candidates
4. Improving the results using CRISPRRNA-TracrRNA interaction prediction
5. Searching for the terminator sequences
6. Searching the hits with the provided tail model
7. Writing results
Creating the final_summary
Adding consistency scores to the final summary file
Traceback (most recent call last):
File "CRISPRtracrRNA.py", line 46, in <module>
main()
File "CRISPRtracrRNA.py", line 36, in main
dict_weights=dict_weights)
File "[CRISPRtracrRNA_directory]/modules/pipelines.py", line 35, in __init__
self._pipeline_run()
File "[CRISPRtracrRNA_directory]/modules/pipelines.py", line 316, in _pipeline_run
consistency_score_maker(self.output_file_name, ",", self.output_file_name)
File "[CRISPRtracrRNA_directory]/modules/consistency_score_maker.py", line 21, in consistency_score_maker
interval_anti_repeat = get_interval_anti_repeat(index_anti_repeat, line, separator)
File "[CRISPRtracrRNA_directory]/modules/consistency_score_maker.py", line 51, in get_interval_anti_repeat
anti_repeat_interval = line_elements[anti_repeat_index]
IndexError: list index out of range
However, I am still able to get the output .csv file. I thought it was not able to predict the anti-repeat region, but the anti-repeat sequences are there in the final .csv file.
I just want to know what the basis of the error is and how I would go about removing it. Thanks
Dear all
I tried to run CRISPRtracrRNA with a contig containing a Class V Cas operon:
I got the following output
However, I am still able to get the output
.csv
file. I thought it was not able to predict the anti-repeat region, but the anti-repeat sequences are there in the final.csv
file.I just want to know what the basis of the error is and how I would go about removing it. Thanks
Marc