Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Error in subcommand annoate in the Singularity image MitoZv3.4. #201

Open
Phismil opened this issue Sep 15, 2023 · 2 comments
Open

Error in subcommand annoate in the Singularity image MitoZv3.4. #201

Phismil opened this issue Sep 15, 2023 · 2 comments

Comments

@Phismil
Copy link

Phismil commented Sep 15, 2023

Dear Guanliang
I hope you are doing well.
Recently, I received an error in the annotate subcommand within Singularity v.3.4 that complains about the tRNA file.
I have attached the log file.
Thank you in advance for any suggestion

mitoz.log

@linzhi2013
Copy link
Owner

Hi Phismil,

I had a look your log file, the related information is this:


2023-09-15 12:00:41,584 - mitoz.utility.utility - INFO - 
rRNA_annotation() return:
s_rRNA_ft: /mnt/lustre/users/aemami-khoyi/eDNA/map/tmp_SW_sw_map.fasta_mitoscaf.fa/SW_sw_map.fasta_mitoscaf.fa.s-rRNA.ft
l_rRNA_ft: /mnt/lustre/users/aemami-khoyi/eDNA/map/tmp_SW_sw_map.fasta_mitoscaf.fa/SW_sw_map.fasta_mitoscaf.fa.l-rRNA.ft

2023-09-15 12:00:41,584 - mitoz.utility.utility - INFO - 
combine_annotations_and_find_control_region() chdir to /mnt/lustre/users/aemami-khoyi/eDNA/map/tmp_SW_sw_map.fasta_mitoscaf.fa

But there is no error message in it.

Please you also have the stderr log?

@Phismil
Copy link
Author

Phismil commented Sep 16, 2023

Dear Guanliang
My apologies; it seems that it was a minor permission issue due to mounting a wrong directory that went unnoticed from my side. The container is fine.
Thank you for your reply

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

2 participants