Error with mirabait -j rrna

[zhujack]

Hi,

I am trying to run the following command with mira_V5rc1_linux-gnu_x86_64_static:

mirabait -j rrna -I -p $file1.fastq $file2.fastq

The dbdata folder had rfam_rrna-21-1.sls.gz and I changed it to rfam_rrna-21-12.sls.gz. I did run:

./mira-install-sls-rrna.sh rfam_rrna-21-12.sls.gz

But, I still got the following error:

$ mirabait -j rrna -I -p $file1.fastq $file2.fastq

---

• You specified -j rrna, but MIRA could not find the default rRNA hash *
• statistics file which should be located at *
• /gpfs/gsfs9/users/CCRBioinfo/zhujack/local/mira_V5rc1_linux-gnu_x86_64_static/bin/../share/mira/mhs/filter_default_rrna.mhs.gz*

• This is usually the case when you forgot to run the script to install the *
• rRNA data from the MIRA package. *

•                                                                          *
  

• What to do: *
• • if you installed from source: use the 'make install' functionality. *
• • if you installed from a precompiled binaries package: go to the *
• 'dbinstall' directory in that package and type *
• ./mira-install-sls-rrna.sh rfam_rrna-21-12.sls.gz *

---

->Thrown: int mainMiraBait(int argc, char ** argv) ->Caught: main

Aborting process due to an error in the installation of MIRA. Please check the lines above in this ouput for more information.

The following file exists, no other files in the folder:

/gpfs/gsfs9/users/CCRBioinfo/zhujack/local/mira_V5rc1_linux-gnu_x86_64_static/bin/../share/mira/mhs/filter_default_rrna.mhs.gz

Could you have a look at this and kindly let me know what I have missed? Thanks.

Jack

[allejRoCabal]

I have the same problem, did you get any solution?

[DrMicrobit]

My apologies for the late response. It's a typo in the file name of the documentation. The correct invocation indeed uses the "-1.sls.gz" file ending. I.e., ./mira-install-sls-rrna.sh rfam_rrna-21-1.sls.gz

Do NOT rename the SLS file.

Hope this helps, B.