how to load my sequnces

[Former user]

Hi I am very new to bioinformatics and I am trying to run miARma. In the ini file, general section, read_dir, which is the path to run my sequences? I mean how do I download my fastq file from my computer to miARma environment? I work on ubuntu.

[Eduardo Andres Leon]

Hi, are you using the docker image ?

If you are already under linux, it is better to the miArma source .

Regards

[marianoavino]

Hi, yes I am using docker and ubuntu. This what I do:

sudo docker run -t -i -u miARma miarmaseq/ubuntu /bin/bas

Then I am in miArma. From there how do I upload my fastq files? When I set up an absolute path of my fastq in read_dir, it does not find my fastq files. Do I have to scp my files to miArma?

[Eduardo Andres Leon]

Hi, To copy file into a container you have to use the "docker cp" command (https://docs.docker.com/engine/reference/commandline/cp/). But as I said, I recommend you to download the source package: http://miarmaseq.cbbio.es/installation (choose source)