Skip to content

issues Search Results · repo:mjsull/Contiguity language:Python

Filter by

21 results
 (84 ms)

21 results

inmjsull/Contiguity (press backspace or delete to remove)

mjsull/Contiguity
Is slow process normal?

Hi Mitch, I m trying to create CAG and it s been running for hours. Is this normal? And if my de novo assembly is using both paired-end reads and single-end read, will it be sufficient to use only interleaved ...
  • cytang19
  • 3
  • Opened 
    on Jan 18, 2016
  • #22

mjsull/Contiguity
AttributeError: 'module' object has no attribute 'new_counting_hash'

Hi Mitchell, I tried to create CAG file and came to this error. I am lost. Do you have any idea what might be my problem? Is it the issue with the khmer? I installed it using easy_install khmer and it ...
  • cytang19
  • 2
  • Opened 
    on Nov 24, 2015
  • #21

mjsull/Contiguity
"killed 9" error when making CAG file

Hi Mitch, I can t create a CAG file - it exits with Killed 9 . Do you know how I can fix this? Thanks. Leah
  • LeahRoberts
  • 7
  • Opened 
    on Aug 23, 2015
  • #20

mjsull/Contiguity
TypeError: new_counting_hash() takes at most 3 arguments (4 given) Again?

Hi Mitch, I pip installed the latest version of Contiguity but I m still getting this error after running create CAG: TypeError: new_counting_hash() takes at most 3 arguments (4 given). I saw this has ...
  • LeahRoberts
  • 2
  • Opened 
    on Aug 20, 2015
  • #19

mjsull/Contiguity
Display small contigs as circles.

enhancement
  • mjsull
  • Opened 
    on May 13, 2015
  • #18

mjsull/Contiguity
new_counting_hash() takes at most 3 arguments (4 given)

I saw the following error after File - Create CAG file Exception in thread Thread-1: Traceback (most recent call last): File /usr/local/Cellar/python/2.7.9/Frameworks/Python.framework/Versions/2.7/lib/python2.7/threading.py ...
bug
  • sjackman
  • 1
  • Opened 
    on May 12, 2015
  • #17

mjsull/Contiguity
create acyclic graph

This would allow the automatic duplication of repeat regions,
enhancement
  • mjsull
  • Opened 
    on Apr 28, 2015
  • #16

mjsull/Contiguity
move sequence data etc. to a shelve

enhancement
  • mjsull
  • Opened 
    on Apr 28, 2015
  • #15

mjsull/Contiguity
Remove out of frame blast hits

enhancement
  • mjsull
  • Opened 
    on Apr 28, 2015
  • #14

mjsull/Contiguity
What are the minimum required inputs. (top priority)

Also via @tseemann - It needs to be made clear what the inputs are - Just Velvet graph file or FASTG or need to generate the CAG. Also needs to explain the CAG. I personally think sending someone to ...
  • mscook
  • 1
  • Opened 
    on Feb 25, 2015
  • #13
Issue origami icon

Learn how you can use GitHub Issues to plan and track your work.

Save views for sprints, backlogs, teams, or releases. Rank, sort, and filter issues to suit the occasion. The possibilities are endless.Learn more about GitHub Issues
ProTip! 
Press the
/
key to activate the search input again and adjust your query.
Issue origami icon

Learn how you can use GitHub Issues to plan and track your work.

Save views for sprints, backlogs, teams, or releases. Rank, sort, and filter issues to suit the occasion. The possibilities are endless.Learn more about GitHub Issues
ProTip! 
Restrict your search to the title by using the in:title qualifier.
Issue search results · GitHub