So I ran trinity, but I am experiencing this error:
Error, the Chrysalis process failed:
Error, cmd: /projects/dmacmillanprj2/assembly/trinityrnaseq_r2012-04-27/Chrysalis/Chrysalis -i both.fa -iworm /projects/dmacmillanprj2/assembly/testing_trinity/output/inchworm.K25.L25.fa.clipped.fa -o chrysalis -cpu 20 -min_glue 2 -min_iso_ratio 0.05 -glue_factor 0.05 -weldmer_size 48 -min 200 -dist 500 -max_reads 20000000 -max_mem_reads 1000000 -strand 1 -paired -butterfly /projects/dmacmillanprj2/assembly/trinityrnaseq_r2012-04-27/Butterfly/Butterfly.jar 2>&1 died with ret 65280 at trinityrnaseq_r2012-04-27/Trinity.pl line 1142.
In nearly all cases, this is related to not having the stacksize set to unlimited, a prerequisite to running Trinity.
Please visit:
for details.
This is my command:
Error, the Chrysalis process failed:
Error, cmd: /projects/dmacmillanprj2/assembly/trinityrnaseq_r2012-04-27/Chrysalis/Chrysalis -i both.fa -iworm /projects/dmacmillanprj2/assembly/testing_trinity/output/inchworm.K25.L25.fa.clipped.fa -o chrysalis -cpu 20 -min_glue 2 -min_iso_ratio 0.05 -glue_factor 0.05 -weldmer_size 48 -min 200 -dist 500 -max_reads 20000000 -max_mem_reads 1000000 -strand 1 -paired -butterfly /projects/dmacmillanprj2/assembly/trinityrnaseq_r2012-04-27/Butterfly/Butterfly.jar 2>&1 died with ret 65280 at trinityrnaseq_r2012-04-27/Trinity.pl line 1142.
In nearly all cases, this is related to not having the stacksize set to unlimited, a prerequisite to running Trinity.
Please visit:
for details.
This is my command:
Code:
perl trinityrnaseq_r2012-04-27/Trinity.pl --seqType fq --kmer_method meryl --left testing_trinity/SRR097928_1.fastq --right testing_trinity/SRR097928_2.fastq --output testing_trinity/output --CPU 20 --SS_lib_type RF --jaccard_clip --bfly_opts "--edge-thr=0.05 --compatible_path_extension"
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