Mira assembler with IonTorrent

Question

[gustavojorge080]

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.

[h.mon]

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

[gustavojorge080]

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?

[h.mon]

The error message says:

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

Did you look at the output log?

[Kevin]

Please refrain from making duplicate posts Mira assembler with IonTorrent unpaired reads