Question: ITSx error on HPC
0
gravatar for Bioinfonext
26 days ago by
Bioinfonext120
Korea
Bioinfonext120 wrote:

Hi,

I am running ITSx on HPC server just by calling module load

It is showing some error msg ....not sure How I can fix it?

I

TSx -i seqs.fna -o seqs-its-cleaned.fna -p /opt/apps/ITSx/1.0.11/ITSx_db/HMMs -t F --cpu 20 --preserve T --save_regions SSU,ITS1,5.8S,ITS2,LSU --minlen 150 --detailed_results "--reset T"
ITSx -- Identifies ITS sequences and extracts the ITS region
by Johan Bengtsson-Palme et al., University of Gothenburg
Version: 1.0.11
-----------------------------------------------------------------
Tue Jan 22 21:43:02 2019 : Preparing HMM database (should be quick)...
Tue Jan 22 21:43:02 2019 : Checking and handling input sequence data (should not take long)...
Tue Jan 22 21:43:13 2019 : Doing paralellised comparison to HMM database (this may take a long while)...

**Error: bad format, binary auxfiles, /opt/apps/ITSx/1.0.11/ITSx_db/HMMs/F.hmm:
binary auxfiles are in an outdated HMMER format (3/b); please hmmpress your HMM file again**
    Tue Jan 22 21:43:13 2019 : Fungi analysis of main strand finished.

**Error: bad format, binary auxfiles, /opt/apps/ITSx/1.0.11/ITSx_db/HMMs/F.hmm:
binary auxfiles are in an outdated HMMER format (3/b); please hmmpress your HMM file again**
    Tue Jan 22 21:43:13 2019 : Fungi analysis of complementary strand finished.
    Tue Jan 22 21:43:13 2019 : All processes finished.
Tue Jan 22 21:43:13 2019 : Parallel HMM-scan finished.
Tue Jan 22 21:43:13 2019 : Analysing results of HMM-scan (this might take quite some time)...
Tue Jan 22 21:43:16 2019 : Extraction finished!
software error • 133 views
ADD COMMENTlink modified 25 days ago by h.mon23k • written 26 days ago by Bioinfonext120
1

Looks like your software may not have been built properly. Contact your sysadmin and check with them.

ADD REPLYlink written 26 days ago by RamRS20k
1
gravatar for h.mon
25 days ago by
h.mon23k
Brazil
h.mon23k wrote:

The key message is this:

**Error: bad format, binary auxfiles, /opt/apps/ITSx/1.0.11/ITSx_db/HMMs/F.hmm:
binary auxfiles are in an outdated HMMER format (3/b); please hmmpress your HMM file

I don't know ITSx but I assume it depends on HMMER. The error message says the hmm profiles have been built with the wrong version of HMMER, you have to contact your at a admin and ask him to hmmpress the profiles with the correct version of HMMER.

ADD COMMENTlink written 25 days ago by h.mon23k

Thanks, it is resolved with admin help.

ADD REPLYlink written 25 days ago by Bioinfonext120

If an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accepted. You can accept more than one if they work.

ADD REPLYlink written 25 days ago by RamRS20k
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