metAMOS
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marbl
A metagenomic and isolate assembly and analysis pipeline built with AMOS
metAMOS is a well-designed pipeline for analyzing metagenomic data. However, when a user starts to run metAMOS on a cluster, it is not clear for the user to know how...
I have tried running scaffold a few times on a sample, and I keep getting an error. The details are below. During scaffold, the following command failed with return code...
Hi There, When multiple assemblers are specified in -a parameter of runPipeline, assemblers are executed in alphabetical order in MetAMOS. Is there a way to change this to run assemblers...
Dear metAmos team, I have some questions about the the DB. I have downloaded the allDB from metAmos website. Are the sequence files in the DB/refseq used by bowtie/bowtie2? Does...
RunPipeline command keeps failing, saying that project dir does not exist (even though the initPipeline completes and states that the directory was successfully created). I have used the initPipeline and...
Hello, After several times of metAMOS installation trial, now I have two installations of metAMOS in the same computer (CentOS 6.x) at different accounts. Not all of them work equally,...
Hello, When I try to run the program (at the runPipeline component), I get this error message at the "findorfs" step and I'm not sure what it means or what...
I would like to download and use the frozen binary on my system. I have access to various virtual machine instances, however I have gotten the following error on both...
Hello, The scaffolding step is only using one thread instead of the 32 threads that I allocated in the command. runPipeline -v -q -d test13 -a spades -m bowtie2 -gFragGeneScan...
Hi! I tried to install MetAMOS on cluster. I just run installation commands: $ wget https://github.com/marbl/metAMOS/archive/v1.5rc3.zip $ unzip v1.5rc3.zip cd metAMOS-v1.5rc3 (BTW, here is a mistake in installation guide http://metamos.readthedocs.io/en/v1.5rc3/content/installation.html,...
