Ramon Rivera

Hello @HarukiNakamura, When running the command you mentioned ``` cat Read_R.trinotate_annotation_report.xls | cut -f 1,13 | grep "OG" | tr "\`" ";" | sed 's/^/#/g' | sed 's/;/\n;/g' | cut...

Interesting. Could I see your XLS file that was generated by Trinotate? That way I can troubleshoot and see why the code is not working. My email is `r.rivera /@/...

Hello @kathrinannaotte, Unfortunately, TransPi is only for paired-end reads. However, I can create new processes to do the assemblies with single reads and perform some of the steps, similar to...

Hello @andypaige772, Very odd, I have never seen that issue. Did you modify the memory info of the config file? I'll do a test run to check, just in case....

Hello @pmoulos, Can you pull again the repository? It looks like you may have an old version of TransPi. Currently it is in version `1.1.0-rc` and you have `v1.0.0-dev`. That...

Hello @pmoulos, Thanks for letting me know about the update of Trinotate. I will check and update the links. Best, Ramon

Hello @dbajpp0, It looks like the error is in the plot for the mean quality after filtering. Do you have in the directory `/dades/jpp/TransPi/work/0b/979b0f5ca8ac4399d912ac57764e60` a file ending in `_reads_qual.csv`? If...

Hello @kathrinannaotte, Yes, rna-quast sometimes takes a long time in the creation of the env. You could clean all the packages and files (`conda clean --all `) before running the...

Hello @laninsky, You can create the env before running the pipeline by using the following: ``` conda create --mkdir --yes --quiet --prefix /scale_wlg_nobackup/filesets/nobackup/uoo00105/transpi_conda/condaEnv/env-475622de9368222cf2e999f59ba55d9f -c conda-forge bioconda::rnaquast=2.2.1=h9ee0642_0 ``` I think the...

Hello @laninsky, I am running a test dataset with singularity to see if I can replicate the issue. Best, Ramon