Trinity genome guided error

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sandesh

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Join Date: Jun 2013

Posts: 17
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#1

Trinity genome guided error

04-22-2015, 12:56 PM

Hello,
Getting this error after running for many hrs:
Please anybody got into same problem?

#############################################################################
This was the command:

Trinity --genome_guided_bam accepted_hits.sorted.bam --genome_guided_max_intron 10000 --max_memory 60G --CPU 30
##############################################################################

----------------------------------------------------------------------------------
-------------- Trinity Phase 1: Clustering of RNA-Seq Reads ---------------------
----------------------------------------------------------------------------------

Wednesday, April 22, 2015: 16:51:14 CMD: find Dir_* -name '*reads' > read_files.list
Wednesday, April 22, 2015: 16:51:14 CMD: /home/usr/bin/trinityrnaseq-2.0.6/util/support_scripts/GG_write_trinity_cmds.pl --reads_list_file read_files.list --CPU 1 --max_memory 1G --full_cleanup --seqType fa --trinity_complete > trinity_GG.cmds

####################################################################################
#
# usage: /home/usr/bin/trinityrnaseq-2.0.6/util/support_scripts/GG_write_trinity_cmds.pl --reads_list_file <string> [Trinity params]
#
# Required:
#
# --reads_list_file <string> file containing list of filenames corresponding
# to the reads.fasta
#
#
#####################################################################################

Error, cmd: /home/usr/bin/trinityrnaseq-2.0.6/util/support_scripts/GG_write_trinity_cmds.pl --reads_list_file read_files.list --CPU 1 --max_memory 1G --full_cleanup --seqType fa --trinity_complete > trinity_GG.cmds died with ret 65280 at /home/usr/bin/trinityrnaseq-2.0.6/Trinity line 2116.

Thanks
Sandesh
Tags: genome-guided, trinity

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