when I ran rnacocktail with align mode, i got an error below.
Traceback (most recent call last):
File "/usr/local/bin/hisat2_jun2bed.py", line 32, in <module>
int_start = int(locus_ls[1])-51
ValueError: invalid literal for int() with base 10: 'ctg9'
and then I ckecked this error carefully, I found that when my input chromosome name contained seporater "_", the program will throw out an error above! consider many organsim's chromosome names contain seporater '' especially the new assembly organism genome, i recommend you shoud change line 23 `locus = "".join([line_list[0],leftpos,rightpos,line_list[3]])tolocus = "__".join([line_list[0],leftpos,rightpos,line_list[3]])and line 30locusls = locus.split("")tolocus_ls = locus.split("__")` in script 'hisat2_jun2bed.py' , or change another seporater . that will work properly!
when I ran rnacocktail with align mode, i got an error below.
and then I ckecked this error carefully, I found that when my input chromosome name contained seporater
"_"
, the program will throw out an error above! consider many organsim's chromosome names contain seporater '' especially the new assembly organism genome, i recommend you shoud change line 23 `locus = "".join([line_list[0],leftpos,rightpos,line_list[3]])to
locus = "__".join([line_list[0],leftpos,rightpos,line_list[3]])and line 30
locusls = locus.split("")to
locus_ls = locus.split("__")` in script 'hisat2_jun2bed.py' , or change another seporater . that will work properly!sincerely