autoAug.pl error when using with PASA
Posted: Thu Nov 19, 2015 3:21 pm
Originally posted in the old forum by Jung on 12.10.2015 - 05:12
Hi,
I attempt to obtain training gene sets for my new species using autoAug.pl on RNAseq data.
I am sure I installed prerequisite softwares of PASA (http://pasapipeline.github.io/#A_sii) and I installed latest version of PASA.
This is a command I ran:
Then I got this message:
This problem is resulted from use of unexpected version of PASA?
Your help would be much appreciated.
Jung
Hi,
I attempt to obtain training gene sets for my new species using autoAug.pl on RNAseq data.
I am sure I installed prerequisite softwares of PASA (http://pasapipeline.github.io/#A_sii) and I installed latest version of PASA.
This is a command I ran:
Code: Select all
autoAug.pl --genome=genome.fasta --species=mySpecies --cdna=RNAseq.fasta --verbose=2 --pasa
Code: Select all
…failed to execute:perl pasa_asmbls_to_training_set.dbi -M "my_pasadb:localhost" -p "readonly:readonly" -g ./autoAug/seq/genome_clean.fa
Your help would be much appreciated.
Jung