Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Trinity genome guided error

    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

Latest Articles

Collapse

  • seqadmin
    Non-Coding RNA Research and Technologies
    by seqadmin




    Non-coding RNAs (ncRNAs) do not code for proteins but play important roles in numerous cellular processes including gene silencing, developmental pathways, and more. There are numerous types including microRNA (miRNA), long ncRNA (lncRNA), circular RNA (circRNA), and more. In this article, we discuss innovative ncRNA research and explore recent technological advancements that improve the study of ncRNAs.

    Nobel Prize for MicroRNA Discovery
    This week,...
    Yesterday, 08:07 AM
  • seqadmin
    Recent Developments in Metagenomics
    by seqadmin





    Metagenomics has improved the way researchers study microorganisms across diverse environments. Historically, studying microorganisms relied on culturing them in the lab, a method that limits the investigation of many species since most are unculturable1. Metagenomics overcomes these issues by allowing the study of microorganisms regardless of their ability to be cultured or the environments they inhabit. Over time, the field has evolved, especially with the advent...
    09-23-2024, 06:35 AM
  • seqadmin
    Understanding Genetic Influence on Infectious Disease
    by seqadmin




    During the COVID-19 pandemic, scientists observed that while some individuals experienced severe illness when infected with SARS-CoV-2, others were barely affected. These disparities left researchers and clinicians wondering what causes the wide variations in response to viral infections and what role genetics plays.

    Jean-Laurent Casanova, M.D., Ph.D., Professor at Rockefeller University, is a leading expert in this crossover between genetics and infectious...
    09-09-2024, 10:59 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 10-02-2024, 04:51 AM
0 responses
54 views
0 likes
Last Post seqadmin  
Started by seqadmin, 10-01-2024, 07:10 AM
0 responses
65 views
0 likes
Last Post seqadmin  
Started by seqadmin, 09-30-2024, 08:33 AM
1 response
71 views
0 likes
Last Post EmiTom
by EmiTom
 
Started by seqadmin, 09-26-2024, 12:57 PM
0 responses
20 views
0 likes
Last Post seqadmin  
Working...
X