ERROR UTR only implemented with shadow and partial or complete. Augustus
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Entering edit mode
18 months ago
18140010 • 0

Hello,

I am trying to run Busco V 4 with augustus 3.2.3, busco analysis fails with ERROR: Augustus did not recognize any genes matching the dataset solanales_odb10 in the input file. If this is unexpected, check your input file and your installation of Augustus. I have reinstalled augustus ,tried 3.3.1 version and tried with the busco test dataset as well but the problem persists. I have no clue how to solve this error. My commands:

$ python3 busco --config myconfig3.ini -m genome --in rascaf_scaffold.fa -o results2_output -l solanales_odb10

INFO: Start a BUSCO v4.0.6 analysis, current time: 04/19/2020 15:03:23

INFO: Configuring BUSCO with myconfig3.ini

INFO: Mode is genome

INFO: Input file is rascaf_scaffold.fa

INFO: Downloading information on latest versions of BUSCO data...

WARNING: You have selected auto-lineage but you have also provided a lineage dataset. BUSCO will proceed with the specified dataset. To run auto-lineage do not specify a dataset.

INFO: Running BUSCO using lineage dataset solanales_odb10 (eukaryota, 2019-11-20)

INFO: Creating BLAST database with input file

INFO: Running 1 job(s) on makeblastdb

INFO: [makeblastdb] 1 of 1 task(s) completed

INFO: Running a BLAST search for BUSCOs against created database

INFO: Running 1 job(s) on tblastn

INFO: [tblastn] 1 of 1 task(s) completed

INFO: Running Augustus gene predictor on BLAST search results.

INFO: Running Augustus prediction using tomato as species:

INFO: Additional parameters for Augustus are '--genemodel=intronless --singlestrand=false':

INFO: Running 12492 job(s) on augustus

INFO: [augustus] 2499 of 12492 task(s) completed

INFO: [augustus] 3748 of 12492 task(s) completed

INFO: [augustus] 8745 of 12492 task(s) completed

INFO: [augustus] 12492 of 12492 task(s) completed

INFO: Extracting predicted proteins...

ERROR: Augustus did not recognize any genes matching the dataset solanales_odb10 in the input file. If this is unexpected, check your input file and your installation of Augustus

ERROR: BUSCO analysis failed !

ERROR: Check the logs, read the user guide, and check the BUSCO issue board on https://gitlab.com/ezlab/busco/issues

Augustus error log suggests: ERROR UTR only implemented with shadow and partial or complete.

Please help me resolve this error. I am unable to find any solution t it so far.

busco Augustus • 889 views
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Entering edit mode
7 months ago
boymin2020 ▴ 20

It looks like the BLAST version caused the error. Try to use the older version as the suggestions in the below link. https://gitlab.com/ezlab/busco/-/issues/222 makeblastdb Fasta file with 25 sequences gives Error: mdb_env_open: There is not enough space on the disk PS: Download address is https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/

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