I use metaphlan2 for meta-genomic analysis. I am using it on biolinux. I downloaded and put it in my path, but when i type command " python metaphlan2.py metagenome.fastq --mpa_pkl ${mpa_dir}/db_v20/mpa_v20_m200.pkl --bowtie2db ${mpa_dir}/db_v20/mpa_v20_m200 --input_type fastq > profiled_metagenome.txt" for analysis of my file, it is not generating any output nor no error message is found. I have already putted bowtie2 in metaphlan and put in patch running script"bowtie2"
Can anyone help me for solving this issue?
Hello,
The file profiled_metagenome.txt is generated but it is empty or it is not generated?
Did you try to execute the command without the "> profiled_metagenome.txt"? does it shoes any kind of message in the screen?
Regards
Hello Chintan, I am having the same problem, but I cannot find the solution. Could you please help me with that? Sorry about the question.
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