Thanks for the update, Valerie! And thanks for asking the question that I also
had in mind, Kevin. I’ll follow the GitHub issue and retry once the change has
been reverted.
Erik
On 10 Jan 2019, at 03:13, Obenchain, Valerie
mailto:valerie.obench...@roswellpark.org>>
wrote:
On 1/9/19 8:36 AM,
On 1/9/19 8:36 AM, Kevin RUE wrote:
> Thanks for the update Valerie.
> Needless to say, I ran R CMD check locally yesterday, and it crashed
> with the same issue.
>
> Naive question, without looking into the original issue: is it purely a
> programming issue, or is there a chance that our (seqCA
Thanks for the update Valerie.
Needless to say, I ran R CMD check locally yesterday, and it crashed with
the same issue.
Naive question, without looking into the original issue: is it purely a
programming issue, or is there a chance that our (seqCAT and TVTB) VCF
files need to be updated to match
The problem is related to a change I made to handle buffer overflow:
https://github.com/Bioconductor/VariantAnnotation/issues/19
This clearly doesn't work for all cases, thanks for reporting the
problems with seqCAT and TVTB. I've reverted the change so your packages
will build and will re-thin
Hi all,
Same kind of error for my TVTB package (
https://master.bioconductor.org/checkResults/3.8/bioc-LATEST/TVTB/malbec1-checksrc.html
).
I'll run R CMD check locally ASAP to see whether I need to update TVTB or
if it's something upstream.
Best,
Kevin
On Tue, Jan 8, 2019 at 5:05 PM Obenchain,
Hi Erik,
There have been a few changes to VariantAnnotation lately. I'll take a
look at seqCAT and get back to you.
Valerie
On 1/8/19 6:07 AM, Erik Fasterius wrote:
> I recently started to get a weird error when building the vignette to my
> seqCAT package, related to a VCF file I use as exam
I recently started to get a weird error when building the vignette to my seqCAT
package, related to a VCF file I use as example data. The error itself looks
like this:
scanVcf: _DNAencode(): invalid DNAString input character: '1' (byte value 49)
path: (...)/seqCAT/extdata/example.vcf.gz
I can