Ilya Shlyakhter
Ilya Shlyakhter
Maybe, lock the coverage data file with something like https://pypi.org/project/filelock/ before reading/writing it? When using pytest-cov on Travis-CI with --cov-append, several jobs from the job matrix might be using the...
@tarpas Can you add an option where testmon determines which tests it _would_ skip, but still runs all tests, and if any tests fails that testmon _would have_ skipped, prints...
Added appveyor-retry calls to prevent transient network connectivity failures from manifesting as recipe build failures. See https://github.com/conda-forge/staged-recipes/pull/3836 for initial discussions. @nickp60 @jdblischak @isuruf @ocefpaf @conda-forge/core
Can you tag a release, so that I can make a conda-forge recipe for installing dana with conda? Thanks!
To make workflows (even) more self-contained, it'd be great if one could include the actual tarballed environment (archived by [conda-pack](https://conda.github.io/conda-pack/) with the workflow. This would especially help in corporate/firewalled environments...
When filtering reads, if the reads are paired, it would help to be able to say either "keep both reads if one passes the filter" or "drop both reads if...
Add to kmc_tools a command that prints (in either human- or machine-readable form) information about a kmer database: kmer size, single-/double- strandedness, number of kmers in the database.
Add support for matching amino acid kmers. An amino acid kmer can be represented as a nucleotide kmer where each amino acid gets mapped to a canonical (e.g. lexicographically smallest)...
As described at https://www.biorxiv.org/content/10.1101/179960v2 , extracting "skip-mers" (kmers that skip every 3rd base) can improve matching in coding regions. An option to extract such skip-mers rather than normal k-mers from...
@marekkokot It would be great if you could support gapped kmers. The only change is in extracting kmers from reads. E.g. for 4-mers with a 2-base gap in the middle,...