Thomas Rattei

Hi Gyeongjun Cho, the Conspred development has been ended with version 1.33 (except minor bug fixes). We are currently developing a completely rewritten Conspred2, which focuses on consensus gene prediction and high-quality gene start prediction. Conspred2 will not do any functional annotation (consider e.g. Prokka and GAMOLA2 for this purpose). As an alternative, which includes functional annotation, we recommend prokka. It has received an update recently. Best wishes, Thomas

Have just recognized that this particular error is due to the ncbi blast+ version you are using. 2.2.29 seems to not support the blastp-fast task setting (although the error message claims so). So, either switch to a newer blast+ (2.3.0 works well), or change the conspredProperties.txt setting to: CONSPRED_BLAST_TASK=blastp best, Thomas

Hi, please check the contents of your conspredProperties.txt file. It should contain a line like CONSPRED_BLAST_TASK=blastp-fast Please check if your modifications in conspredProperties.txt are without errors (use diff to compare a modified version of conspredProperties.txt with the original one), Best, Thomas

Hi, there is another repo for the conspred2 binary source code: https://sourceforge.net/p/conspred2 Please get the sources from there. Best, Thomas

Alignment errors or missing annotations when using gbk files from RefSeq

Adapted the code to the new database for 11blas...

Merge branch 'master' of ssh://git.code.sf.net/...

Minor modifications on the indexing scripts to ...