Closed doshirLV closed 11 months ago
Hi @doshirLV
I have requested to commit changes to the repo. The new script will be available very soon. Once you can clone it, give it a go and hit me up whenever you run into any problems.
Best, Huanle
Can you please test the new slide_variants script from EpiNano 1.2.3? Thanks
Thank you for the new slide_variants script and for providing feedback on the non-consecutive-sites file @Huanle. Feel free to close that other issue, as I do not have any problems with the speed of this command or have errors in processing the plus/minus strand files.
Command:
python /path/to/EpiNano/misc/Slide_Variants.py sample.minus_strand.per.site.csv 5
Error:
Traceback (most recent call last):
File "/path/to/EpiNano/misc/Slide_Variants.py", line 20, in <module>
slide_per_site_var(per_site_var, kmer_len)
File "/path/to/EpiNano/misc/../epinano_modules.py", line 861, in slide_per_site_var
tmpfh = open (out_tmp,'r')
FileNotFoundError: [Errno 2] No such file or directory: 'sample.minus_strand.per_site_var.5mer.tmp'
Notes:
sample.minus_strand.per_site_var.5mer.csv
file, which should be the output of theSlide_Variants.py
function, it is empty with only a header.sample.minus_strand.per_site_var.5mer.tmp
file definitely gets created in the directory, but something happens where it cannot be found when the script finishes.Thank you for the help, Raj