Unconfigured Ad

Collapse
X
 
  • Filter
  • Time
  • Show
Clear All
new posts
  • 75mph
    Junior Member
    • Jan 2013
    • 3

    Asking help for installation of SOAPdenovo

    Hello, guys, I am completely new in Linux Operation System and genomics software.
    Recently I am learning to use SOAPdenovo. I had downloaded the latest version of SOAPdenovo (1.05), and unpacked it, and also type"make" and "make install" to install it.
    After that, I was also prepared the config file.
    then, I just type "./SOAPdenvo"
    computer says: "

    Usage: SOAPdenovo <command> [option]
    pregraph construction kmer-graph
    contig eliminate errors and output contigs
    map map reads to contigs
    scaff scaffolding
    all doing all the above in turn

    then, I type "./soapdenovo all -s config_file -o output_prefix"
    but the computer only says: "bash: ./soapdenovo: No such file or directory"

    therefore, I had tried all that I can, but the software just cannot run properly. So Please tell me how to get it started properly!

    Just thanks so much for help!
    75mph is online now Report Post Edit/Delete Message Reply With Quote Multi-Quote This Message Quick reply to this message
    Reply
  • kmcarr
    Senior Member
    • May 2008
    • 1181

    #2
    Linux commands and filenames are case sensitive. The command is "SOAPdenovo" not "soapdenovo".

    Comment

    • BabyFaruda
      Member
      • May 2014
      • 11

      #3
      Hey! I am experiencing the similar problem but in the following step. When I put

      ${bin} all -s config_file -K 63 -R -o graph_prefix 1>ass.log 2>ass.err
      # I put my path and my config file

      the terminal says

      ${bin} all -s config_file -K 63 -R -o graph_prefix 1>ass.log 2>ass.err

      what does it mean and how to sove it?

      Thanks!

      Comment

      Latest Articles

      Collapse

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by SEQadmin2, 06-05-2026, 10:09 AM
      0 responses
      12 views
      0 reactions
      Last Post SEQadmin2  
      Started by SEQadmin2, 06-04-2026, 08:59 AM
      0 responses
      24 views
      0 reactions
      Last Post SEQadmin2  
      Started by SEQadmin2, 06-02-2026, 12:03 PM
      0 responses
      28 views
      0 reactions
      Last Post SEQadmin2  
      Started by SEQadmin2, 06-02-2026, 11:40 AM
      0 responses
      22 views
      0 reactions
      Last Post SEQadmin2  
      Working...