Hi to all,
I'm doing a metagenomic approach of environmental DNA with an amplicon library constructed with the ITS1 of one genera of fungi, with a total of four different libraries (4 MID's). I'm trying to analyze the data with CLOTU but I obtain the next log file:
Make-Cluster: -i [accepted.fas] -p b -s [n] -c 50 -m 97 -l y -a 8
make-FAS_FILE-EACH-Cluser: y accepted.fas blastclust_out.txt y
Make-Matrix: -f METADATA.txt -t TPA.txt -g y -o [matrix]
Manage file step completed
Illegal division by zero at /usit/titan/u1/globus/CLOTU/VER-1.1/filter.pl line 444, <DATA> line 444216.
Cannot open file "accepted.fas".
Cannot open accepted.fas to READ
Cannot open file "blastclust_out.txt".
Seqs per file: 200
Couldn't open 'cluster_out.fas': No such file or directory at /usit/titan/u1/globus/CLOTU/VER-1.1/clotu.pl line 225.
Who know what is the problem?
Another question is related to methodology. My library is very closed to the genera that we are studying, and we think that we don't have more than 20 species per sample (library). What is the best methodology that we can use? Assembly with Mira or Newbler is a good option?
Thanks in advance
Santi Català
Valencia (Spain)
I'm doing a metagenomic approach of environmental DNA with an amplicon library constructed with the ITS1 of one genera of fungi, with a total of four different libraries (4 MID's). I'm trying to analyze the data with CLOTU but I obtain the next log file:
Make-Cluster: -i [accepted.fas] -p b -s [n] -c 50 -m 97 -l y -a 8
make-FAS_FILE-EACH-Cluser: y accepted.fas blastclust_out.txt y
Make-Matrix: -f METADATA.txt -t TPA.txt -g y -o [matrix]
Manage file step completed
Illegal division by zero at /usit/titan/u1/globus/CLOTU/VER-1.1/filter.pl line 444, <DATA> line 444216.
Cannot open file "accepted.fas".
Cannot open accepted.fas to READ
Cannot open file "blastclust_out.txt".
Seqs per file: 200
Couldn't open 'cluster_out.fas': No such file or directory at /usit/titan/u1/globus/CLOTU/VER-1.1/clotu.pl line 225.
Who know what is the problem?
Another question is related to methodology. My library is very closed to the genera that we are studying, and we think that we don't have more than 20 species per sample (library). What is the best methodology that we can use? Assembly with Mira or Newbler is a good option?
Thanks in advance
Santi Català
Valencia (Spain)
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