-
Notifications
You must be signed in to change notification settings - Fork 158
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
a peculiar bug in grch37 dbnsftp recipe #296
Comments
Sergey; |
Thanks Brad! It is a puzzle why it is not working, my system is pretty standard. Something with the pipe buffer (which was increased in the latest bash) overflow, while head -n1 needs just a bit of information, i.e. pipe synchronization issue? The fix does not unpack the huge file - you see I've changed chr1 to chrM. It is quite small. Interestingly, the larger pipe down the script which processes all the huge files works well (but it processes every line of the files, not just head -n1). S. |
Found a typo which I introduced in dbnsftp recipe. |
Hello, cloudbiolinux community!
When installing bcbio_nextgen 1.1.5 from scratch, installing --datatarget dbnsfp failed for me.
I was able to track down the problem in the recipe to that line:
header.txt is created, but then script fails without any messages, test1 is not printed.
works well.
I've changed the recipe for grch37 and hg38 accordingly here
#295
Sergey
The text was updated successfully, but these errors were encountered: