This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Mira assembler with IonTorrent

Hello everyone!

I am new to the world of assembling genomes and would like to run the Mira with IonTorrent unpaired reads. But assembly results in empty files.

The first step is to create a manifest file and then run:

mira manifest.conf> & log_assembly.txt

Below is the manifest file:

project = MyFirstAssembly
job = genome,denovo,accurate
readgroup = SomeUnpairedIonReadsIGotFromTheLab data = ../../assemblies/1sttrial/Coryne_1M.fastq technology = iontor

Where is the error?

I would be grateful if someone would explain me step by step.

mira assembly assembly ion
• 2,294 views • link
updated by Kevin Kevin • written by gustavojorge080 • gustavojorge080

Did you read the logs? The error should be indicated there.

• 0 views • link
written by h.mon h.mon

This is the error that appears:

Fatal error (may be due to problems of the input data or parameters):

  • Problems found with the template data, see output log for more info. This points some serious problem either with read naming (like unrecognised read naming scheme) or broken template information, please fix your input files!
  • Or switch off this warning with -NW:ctp=no (but you'll do this at own risk!) *

Is the problem only in the files?

• 0 views • link
updated by h.mon h.mon • written by gustavojorge080 • gustavojorge080

The error message says:

Problems found with the template data, see output log for more info.

Did you look at the output log?

• 0 views • link
written by h.mon h.mon

0 answers

No answers yet.

Log in to answer this question.

More posts like this