Entering edit mode
6.3 years ago
evodevo110
•
0
Hello, I am trying to use Trinity due to assemble the reads extracted from fastq files after blast.
$ Trinity --seqType fq --left Forward_top-hits.fastq --right Reverse_top-hits.fastq
This is the error that I have:
Assertion failed: (beg < end), function setBaseRange, file /anaconda/conda-bld/work/trinityrnaseq_r2011-11-26/trinity-plugins/kmer/libseq/merStream.C, line 45.
Error, cmd: /Users/manueldlpro/miniconda3/opt/trinity-date.2011_11_26/trinity-plugins/kmer/meryl/meryl -v -B -m 25 -s both.fa.headless -o meryl_kmer_db -C died with ret 6 at ./Trinity.pl line 626.
I would suggest using a newer version of Trinity. You are using a 2011 version. There has been a lot of new development since then that might fix your issue.
Thanks for answering, I installed the last version via anaconda and if I update Trinity it say that I already have the last version.
That's not possible. See the list in the bioconda channel:
You have a really old version installed, you can
conda update -n env_name trinity
and it should work fine.