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  • Apr 11 2019 00:53
    nathanhaigh commented #11
  • Mar 20 2019 06:59
    jcsanchez2 closed #15
  • Mar 20 2019 06:59
    jcsanchez2 commented #15
  • Jan 22 2019 01:30
    nathanhaigh commented #18
  • Jan 22 2019 01:30
    nathanhaigh closed #18
  • Jan 22 2019 01:30
    nathanhaigh commented #18
  • Jan 22 2019 01:27
    nathanhaigh commented #18
  • Jan 22 2019 00:57
    nathanhaigh commented #18
  • Jan 22 2019 00:49
    nathanhaigh opened #18
  • Jan 22 2019 00:42
    nathanhaigh edited #5
  • Jan 22 2019 00:42
    nathanhaigh edited #5
  • Jan 22 2019 00:42
    nathanhaigh edited #5
  • Jan 22 2019 00:42
    nathanhaigh edited #5
  • Jan 22 2019 00:42
    nathanhaigh edited #5
  • Jan 22 2019 00:37
    nathanhaigh commented #5
  • Jan 22 2019 00:36
    nathanhaigh edited #5
  • Jan 15 2019 05:54
    nathanhaigh assigned #17
  • Jan 15 2019 05:54
    nathanhaigh opened #17
  • Jan 15 2019 05:53
    nathanhaigh edited #16
  • Jan 15 2019 05:53
    nathanhaigh assigned #16
Nathan S. Watson-Haigh
@nathanhaigh
Moving the room to be under CroBiAd
Nathan S. Watson-Haigh
@nathanhaigh
Jbrowse updated to 1.15.0. Gene link outs to Ensemble plants, easy gene sequence extraction via right click menu. Among others.
Rad Suchecki
@rsuchecki
How close are we to the full-length pseudomolecule version of DAWN? @nathanhaigh
Nathan S. Watson-Haigh
@nathanhaigh
@rsuchecki it's in the works - Need to wait till the paper is out and then put in place a mechanism to redirect URLs for the "part" coordinates to the full length pseudomolecules.
Rad Suchecki
@rsuchecki
:+1:
Juan Carlos
@jcsanchez2
nathan you around?
Juan Carlos
@jcsanchez2
i just read your email, any update from them?
Nathan S. Watson-Haigh
@nathanhaigh
Nope
which tracks you having problems with @jcsanchez2 ?
Juan Carlos
@jcsanchez2
from this jbrowse-bleeding , Lancer and Mace coverage work ok, but any other track for Lancer or Mace dont work
Lancer:Reads, SNP coverage, Variant density and Variants
For variant density seems that just the file is missing
for the others have the message i told you in the email "incorrect header check"
Nathan S. Watson-Haigh
@nathanhaigh
Try clearing your cache as I have it working here
image.png
All the file movements may have caused some cache issues
Juan Carlos
@jcsanchez2
nope already did that and get the same...
image.png
Nathan S. Watson-Haigh
@nathanhaigh
Hmm, seems to be chromosome specific
goto 1A and things are fine. I'll have to wait for ITDS to reboot the VM so SSH access is restored.
Juan Carlos
@jcsanchez2
ah yes, just took a look and all is fine till 2A, after that nothing worked
Nathan S. Watson-Haigh
@nathanhaigh
I'll just have to wait on ITDS :(
Nathan S. Watson-Haigh
@nathanhaigh
Itds reboot was successful. However, i want able to test if it fixed your problem @jcsanchez2. Can you test?
Juan Carlos
@jcsanchez2
same thing still
and did refresh the cache again just in case
Nathan S. Watson-Haigh
@nathanhaigh
Bummer! I'll have to have a look tonight.
Nathan S. Watson-Haigh
@nathanhaigh
Fixed
it was a file permission error
Juan Carlos
@jcsanchez2
ahhh the same thing from the other day!
didnt think of that
thanks!!!:)
Nathan S. Watson-Haigh
@nathanhaigh
Yeah...bit of a cryptic error message
Juan Carlos
@jcsanchez2
good morning!
can i start annoying you?
Juan Carlos
@jcsanchez2
g'd day!
the gff3 are ready for 1.1
Nathan S. Watson-Haigh
@nathanhaigh
:thumbsup:
Juan Carlos
@jcsanchez2
are you doing anything at bioserv2 now?
Rad Suchecki
@rsuchecki
Looks like 1000 exomes VCF data could "just" go into DAWN? https://www.ebi.ac.uk/ena/data/view/PRJEB31218