B. Arman Aksoy
B. Arman Aksoy
1. [x] Implement helper functions/wrappers to allow working against a bucket instead of an `NFS *server. Mostly addressed by #219. 2. [ ] Allow more flexible `Sample`, `Patient`, and `Cohorts`...
Context: #57 Basically, the issue is that the new **default** `gci` image has a completely new way of managing the node by making use of a minimal distribution that lacks...
Worker status says "uploading..." even though file is already uploaded:  It is a little bit misleading as it is just workers doing...
Turns out the reason behind issue #783 was a VCF file without any headers. This is how that particular VCF file looks like: ``` $ head -10 $SOMEPATH/work-Mutect-PT189-PT189_6_13-merged.SureSelect.vcf chr1 69511...
If `varcode` finds the top priority effect for a variant to be of type `Exonic Splice Site`, it makes sense to show also the alternate effect. We currently do not...
Pysam build fails against Python v3.4.3: 
The term `contig` is really not well-known to biologists and therefore might be confusing for many of the Cycledash users. I suggest we use `chromosome` instead of `contig` throughout the...
As described under #418 by @piotr-gawron ([comment](https://github.com/hammerlab/pileup.js/pull/418#issuecomment-225823650)), sometimes a failed test also breaks downstream tests if it doesn't clean up or destroy the pileup elements afterwards.
We currently depend on external 2bit (for reference) and BB (for genes) files for testing/demoing. Instead, it would be great to have relatively small slices of them in the repository....
As discussed within the context of PR https://github.com/hammerlab/pileup.js/pull/229