No .uc file generated by DRISEE.py

[dot4822]

To whom it may concern,

I am now trying BEAR to generate my own mock community. However, the output files generated by drisee.py only include a .per file and a file without extension, which I think it’s raw count file, rather than .per file and .uc file as described in BEAR manual.

Could anyone tell whether I missed anything, or how to deal with this problem?

Thanks in advance.

Regards,
Dot

[BIOSTVT]

I have the same problem. I try to run error_quality.pl with both raw count file and .per file, but the programme gives two files like this:

#file err.qual
0 0 0 0 0 0 0.5 0.5

#file err . matr
#Insertion matrix
#format {A,T,G,C}x{A,T,G,C}
0.25 0.25 0.25 0.25
0.25 0.25 0.25 0.25
0.25 0.25 0.25 0.25
0.25 0.25 0.25 0.25

#Substitution matrix
#format {A,T,G,C}x{A,T,G,C}
0.25 0.25 0.25 0.25
0.25 0.25 0.25 0.25
0.25 0.25 0.25 0.25
0.25 0.25 0.25 0.25

Any suggession?
Regards
Trang

[estebanpw]

Hello,
I had the same issue that you are both describing. I checked the qiime-uclust.py file located in the DRISEE package, and saw the following line:

app_result = app({'--input': infasta,'--uc': outclust})

which made me suspect that the .uc file was just being generated where the input fasta/fastq file was located. I checked, and indeed the file was there (around 40 MB so I think it is all good).

I hope it helps although a few months have passed. Maybe the authors could put this information in the documentation, it would be very helpful!

Best regards,
Esteban