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#2 fgb file not found

unitigger
closed-out-of-date
5
2006-04-15
2005-10-27
Anonymous
No

when I try to run the assembler.pl script, it crashes
at the unitigger stage because it tries to run a
command "fgb" that is not included in the distribution:
...
For restarting this script, next step is #501...
#-#-# START OF COMMAND #-#-#
#-#-# Reaper. Filters out many overlaps, and labels
some fragments spurs or contained.
Time is Thu Oct 27 13:56:54 2005
Executing> ./bin/fgb -P -A 2 -f -x 1 -z 10 -d 0 -M 0
-I four.ovlStore -Q 0 -c -o four.fgbStore four.ofg
2>>four.stderr.log
Elapsed time 0 sec.
#-#-# Failure! Exit status was 0x7f00 (hex). Exit
status indicates problem was not due to a signal.
Non-signal exit value would be 127. Perl's child error
value is 32512. Perl's OS error value is .

Died at
/home/chaplinmd/downloads/wgs-assembler/Linux/scripts//Assembler.pm
line 169 (#1)
(F) You passed die() an empty string (the
equivalent of die "") or
you called it with no args and both $@ and $_ were
empty.

Time of termination: Thu Oct 27 13:56:54 2005
-------- PREMATURE END OF LOG ----------

Discussion

  • Jason Rafe Miller

    • milestone: --> unitigger
    • assigned_to: nobody --> jason_miller
    • labels: --> Distribution Flawed
     
  • Jason Rafe Miller

    Logged In: YES
    user_id=1220789

    I'm sorry to be replying 5 months after your bug report. My group had not been
    using the SourceForge bug tracker till now.

    The fgp program is included in the distribution. I presume your build was not
    error free. Are you still having the problem? This bug report will automatically
    close in 2 weeks if we don't hear from you.

    -- Jason Miller

     
  • Jason Rafe Miller

    • summary: file not found --> fgb file not found
    • status: open --> pending-out-of-date
     
  • SourceForge Robot

    Logged In: YES
    user_id=1312539

    This Tracker item was closed automatically by the system. It was
    previously set to a Pending status, and the original submitter
    did not respond within 14 days (the time period specified by
    the administrator of this Tracker).

     
  • SourceForge Robot

    • status: pending-out-of-date --> closed-out-of-date
     

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