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jtamames / SqueezeMeta

A complete pipeline for metagenomic analysis
GNU General Public License v3.0
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Problem to load SQM project #848

Closed inej90 closed 3 weeks ago

inej90 commented 3 weeks ago

Dear Fernando y Javier,

I run SQM using nanopore sequences and Flye to coassembly.

I obtained all the files of this project. But when I want to load it in R with SQMtools. I have the following message:

Captura de pantalla 2024-06-05 191247

I tried to change the path of the project and put it in another one, but I obtained again an error:

Captura de pantalla 2024-06-05 192437

Am I doing something wrong?

Thank you in advance.

fpusan commented 3 weeks ago

Hi!

It would seem like you are running out of memory while trying to load the project. Is this maybe the access node of a computing cluster? or an interactive job requesting too little memory?

The second error happens because of the way you copied things. You should run sqm2tables.py /path/to/project /path/to/project/results/tables in the same computer in which you ran the pipeline, before copying the results to a different place.

inej90 commented 3 weeks ago

Hi all,

I have been able to load tables (after loading them in the cluster) using loadSQMlite and it works.

Thank you very much for your help.

fpusan commented 3 weeks ago

Glad to hear It works. Let us know if you need more help